Dernières modifications :

In the house, ...
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index d8e90b8..dc59478 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -183,6 +183,14 @@ Physiology
    digestion or chemical defence ([[Martí-Solans et al., 2016|biblio/27406791]]).
 
 
+House
+-----
+
+ - The house was observed in details with India ink coloration by [[Fenaux
+   1986|biblio/10.1007_BF00312043]].  He also observed that, when in the house,
+   “the tails beat slowly when the suspended particles were numerous and rapidly
+   when they were few”.
+
 Phenotypes
 ----------
 

Café
diff --git a/biblio/10.1007_BF00312043.mdwn b/biblio/10.1007_BF00312043.mdwn
new file mode 100644
index 0000000..f94dce3
--- /dev/null
+++ b/biblio/10.1007_BF00312043.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="The house of Oikopleura dioica (Tunicata, Appendicularia): Structure and functions"]]
+[[!tag Oikopleura]]
+
+Fenaux R
+
+Zoomorphology October 1986, Volume 106, Issue 4, pp 224–231
+
+The house of Oikopleura dioica (Tunicata, Appendicularia): Structure and functions
+
+[[!doi 10.1007/BF00312043 desc="“In our cultures, the tails beat slowly when the suspended particles were numerous and rapidly when they were few.”"]]

Typo
diff --git a/tags/cap.mdwn b/tags/cap.mdwn
index e71ffe3..b5bfe73 100644
--- a/tags/cap.mdwn
+++ b/tags/cap.mdwn
@@ -33,6 +33,6 @@ Methods for enriching capped RNAs.
 Atypical caps (work in progress).
 
  - 5′-phospho-ADP-ribosylated RNA/DNA cap, synthethysed by RNA
-   2′-phosphotransferase Tpt1 ([[Munir, Banerjee and Shuman, 2018|biblio/3020286]]).
+   2′-phosphotransferase Tpt1 ([[Munir, Banerjee and Shuman, 2018|biblio/30202863]]).
 
 [[!inline pages="tagged(cap)" limit=0]]

Cap
diff --git a/biblio/30202863.mdwn b/biblio/30202863.mdwn
new file mode 100644
index 0000000..cc7fe65
--- /dev/null
+++ b/biblio/30202863.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="NAD+-dependent synthesis of a 5'-phospho-ADP-ribosylated RNA/DNA cap by RNA 2'-phosphotransferase Tpt1."]]
+[[!tag cap]]
+
+Nucleic Acids Res. 2018 Oct 12;46(18):9617-9624. doi:10.1093/nar/gky792
+
+Munir A, Banerjee A, Shuman S.
+
+NAD+-dependent synthesis of a 5'-phospho-ADP-ribosylated RNA/DNA cap by RNA 2'-phosphotransferase Tpt1.
+
+[[!pmid 30202863 desc="Tpt1 from Aeropyrum pernix (ApeTpt1)."]]
diff --git a/tags/cap.mdwn b/tags/cap.mdwn
index 082ef11..e71ffe3 100644
--- a/tags/cap.mdwn
+++ b/tags/cap.mdwn
@@ -30,5 +30,9 @@ Methods for enriching capped RNAs.
  - [[Kwak et al., 2013|biblio/23430654]] modified oligo-capping to create Pro-cap, a method for nuclear
    run-on analysis at single-nucleotide resulution.
 
+Atypical caps (work in progress).
+
+ - 5′-phospho-ADP-ribosylated RNA/DNA cap, synthethysed by RNA
+   2′-phosphotransferase Tpt1 ([[Munir, Banerjee and Shuman, 2018|biblio/3020286]]).
 
 [[!inline pages="tagged(cap)" limit=0]]

tag
diff --git a/biblio/30293719.mdwn b/biblio/30293719.mdwn
index 0038211..badc3bd 100644
--- a/biblio/30293719.mdwn
+++ b/biblio/30293719.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Prevalence of Mutation-Prone Microhomology-Mediated End Joining in a Chordate Lacking the c-NHEJ DNA Repair Pathway."]]
-[[!tag Oikopleura mutation]]
+[[!tag Oikopleura mutation CRISPR]]
 
 Deng W, Henriet S, Chourrout D.
 

Café
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 30589bb..d8e90b8 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -65,8 +65,10 @@ Genome
    2010|biblio/21097902]])
  - Chromatin domains are rarely longer than 7 nucleosomes ([[Navratilova et al., 2017|biblio/28115992]]).
  - Some 5-methylcytosine was detected by MeDIP-chip by ([[Navratilova et al., 2017|biblio/28115992]]).
- - The entire machinery required for performing NHEJ repair of DSB (which is
+ - The entire machinery required for performing classical NHEJ repair of DSB (which is
    conserved from yeast to mammals) is undetectable ([[Denoeud et al., 2010|biblio/21097902]]).
+ - An alternative or microhomology (MH)-driven end joining pathway is active
+   and triggers microdeletions at the joining site ([[Deng, Henriet and Chourrout, 2018|biblio/30293719]]).
  - Only a partial mitochondrial genome was reconstituted in [[Denoeud et al.,
    2010|biblio/21097902]], due to cloning and sequencing difficulties that may
    have been caused by oligo-dT stretches.  A/T-rich codons are more frequent than
@@ -147,7 +149,7 @@ Tools
 -----
 
  - DNAi was used to screen for maternal genes ([[Omotezako et al., 2017|biblio/28281645]]).
-
+ - CRISPR-Cas9 was used to induce genomic microdeletions ([[Deng, Henriet and Chourrout, 2018|biblio/30293719]]).
 
 Development
 -----------

Café
diff --git a/biblio/30293719.mdwn b/biblio/30293719.mdwn
new file mode 100644
index 0000000..0038211
--- /dev/null
+++ b/biblio/30293719.mdwn
@@ -0,0 +1,18 @@
+[[!meta title="Prevalence of Mutation-Prone Microhomology-Mediated End Joining in a Chordate Lacking the c-NHEJ DNA Repair Pathway."]]
+[[!tag Oikopleura mutation]]
+
+Deng W, Henriet S, Chourrout D.
+
+Curr Biol. 2018 Sep 27. pii: S0960-9822(18)31132-1. doi:10.1016/j.cub.2018.08.048
+
+Prevalence of Mutation-Prone Microhomology-Mediated End Joining in a Chordate Lacking the c-NHEJ DNA Repair Pathway.
+
+[[!pmid 30293719 desc="In circularisation assays, the ratio between end-joining
+and homologous recombination is similar in O. dioica compared with other
+eukaryotes.  Nevertheless, end-joining is more likely to concatenate than to
+circularise linear plasmids.  The presence of microhomologies trigger
+microdeletions, consistend with the absence of the “classical” end-joining
+pathway.  These microdeletions are much more frequent than in other organisms.
+Comparisons between Norvegian and Japanese strains suggest that the
+microdeletions could be part of the mechansism driving the compaction of O.
+dioica's genome."]]

Masted 2018
diff --git a/tags/emulsion.mdwn b/tags/emulsion.mdwn
index dc83bbe..55eb466 100644
--- a/tags/emulsion.mdwn
+++ b/tags/emulsion.mdwn
@@ -20,6 +20,7 @@ Different kinds of surfactants:
  - ABIL WE09 (polysiloxane–polycetyl–polyethylene glycol copolymer; primary paper: [[Dielh _et al._, 2004|biblio/14990785]])
  - Sun Soft No. 818SK (polyglycerol esters of intersesterified ricinoleic acid; primary paper: [[Kojima _et al._, 2005|biblio/16214800]])
  - DC 5225C Formulation Aid / DC 749 Fluid (Dow Chemical Co.) [[Margulies _et al._, 2005|biblio/16056220]]
+ - 3% fluorosurfactant (RAN Biotechnologies) in Novec HFE-7500 / 0.015% Tween 80 for double emulsions in [[Masted and coll., 2018|biblio/10.1101_409086]].
 
 Reactive droplets:
 

Syntaxx
diff --git a/biblio/10.1101_409086.mdwn b/biblio/10.1101_409086.mdwn
index afb8cfe..fa04afd 100644
--- a/biblio/10.1101_409086.mdwn
+++ b/biblio/10.1101_409086.mdwn
@@ -7,4 +7,4 @@ bioRxiv, September 6, 2018.
 
 Xdrop: targeted sequencing of long DNA molecules from low input samples using droplet sorting
 
-[[!DOI: 10.1101/409086 desc="Enrichment by 1) encapsulating DNA fragments in double-emulsion water-in-oil-in-water droplets, 2) sorting the droplets containing the target sequence detected by a hydrolysis probe PCR, 3) extracting DNA from the droplets, 4) amplifying it by MDA (in a second generation of droplets), and finally 5) sequencing.  When enriching for HPV DNA in HeLa genomes, 5 to 10% of the reads were on target.  Emulsions were prepared in Dolomite chips."]]
+[[!doi 10.1101/409086 desc="Enrichment by 1) encapsulating DNA fragments in double-emulsion water-in-oil-in-water droplets, 2) sorting the droplets containing the target sequence detected by a hydrolysis probe PCR, 3) extracting DNA from the droplets, 4) amplifying it by MDA (in a second generation of droplets), and finally 5) sequencing.  When enriching for HPV DNA in HeLa genomes, 5 to 10% of the reads were on target.  Emulsions were prepared in Dolomite chips."]]

syntax
diff --git a/biblio/10.1101_409086.mdwn b/biblio/10.1101_409086.mdwn
index c4715df..afb8cfe 100644
--- a/biblio/10.1101_409086.mdwn
+++ b/biblio/10.1101_409086.mdwn
@@ -7,4 +7,4 @@ bioRxiv, September 6, 2018.
 
 Xdrop: targeted sequencing of long DNA molecules from low input samples using droplet sorting
 
-[[!doi: 10.1101/409086 desc="Enrichment by 1) encapsulating DNA fragments in double-emulsion water-in-oil-in-water droplets, 2) sorting the droplets containing the target sequence detected by a hydrolysis probe PCR, 3) extracting DNA from the droplets, 4) amplifying it by MDA (in a second generation of droplets), and finally 5) sequencing.  When enriching for HPV DNA in HeLa genomes, 5 to 10% of the reads were on target.  Emulsions were prepared in Dolomite chips."]]
+[[!DOI: 10.1101/409086 desc="Enrichment by 1) encapsulating DNA fragments in double-emulsion water-in-oil-in-water droplets, 2) sorting the droplets containing the target sequence detected by a hydrolysis probe PCR, 3) extracting DNA from the droplets, 4) amplifying it by MDA (in a second generation of droplets), and finally 5) sequencing.  When enriching for HPV DNA in HeLa genomes, 5 to 10% of the reads were on target.  Emulsions were prepared in Dolomite chips."]]

bioRxiv
diff --git a/biblio/10.1101_409086.mdwn b/biblio/10.1101_409086.mdwn
new file mode 100644
index 0000000..c4715df
--- /dev/null
+++ b/biblio/10.1101_409086.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Xdrop: targeted sequencing of long DNA molecules from low input samples using droplet sorting"]]
+[[!tag emulsion Nanopore HPV]]
+
+Esben Bjoern Madsen, Thomas Kvist, Ida Hoijer, Adam Ameur, Marie Just Mikkelsen
+
+bioRxiv, September 6, 2018.
+
+Xdrop: targeted sequencing of long DNA molecules from low input samples using droplet sorting
+
+[[!doi: 10.1101/409086 desc="Enrichment by 1) encapsulating DNA fragments in double-emulsion water-in-oil-in-water droplets, 2) sorting the droplets containing the target sequence detected by a hydrolysis probe PCR, 3) extracting DNA from the droplets, 4) amplifying it by MDA (in a second generation of droplets), and finally 5) sequencing.  When enriching for HPV DNA in HeLa genomes, 5 to 10% of the reads were on target.  Emulsions were prepared in Dolomite chips."]]

A day in the life of an Oikopleura lab.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 88c6055..30589bb 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -20,6 +20,7 @@ Some links:
  - OikoBase: <http://oikoarrays.biology.uiowa.edu/Oiko/> ([[Danks et al., 2013|biblio/23185044]])
  - Études sur les Appendiculaires du Détroit de Messine, Hermann Fol, 1872
    ([[ark:/13960/t7fr0vj77|https://archive.org/details/cbarchive_100233_etudessurlesappendiculairesdud1821]]).
+ - [A day in the life of an Oikopleura lab](http://thenode.biologists.com/day-life-oikopleura-lab/).
 
 Food tested in laboratory (totally incomplete list): _Isochrysis galbana_ (5.5
 µm in size), _Tetraselmis suecica_ (9.5 µm), and the chlorophyte _Chlorella

Café.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 964e294..88c6055 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -25,6 +25,8 @@ Food tested in laboratory (totally incomplete list): _Isochrysis galbana_ (5.5
 µm in size), _Tetraselmis suecica_ (9.5 µm), and the chlorophyte _Chlorella
 sp._ (3.5 µm) [[Acuña and Kiefer, 2000|biblio/10.4319_lo.2000.45.3.0608.mdwn]].
 
+Parasites: _Oodinium pouchetii_ and others.
+
 
 Phylogeny
 ---------

Café
diff --git a/biblio/30228204.mdwn b/biblio/30228204.mdwn
new file mode 100644
index 0000000..079e2f1
--- /dev/null
+++ b/biblio/30228204.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Regulatory cocktail for dopaminergic neurons in a protovertebrate identified by whole-embryo single-cell transcriptomics."]]
+[[!tag single_cell Ciona_intestinalis]]
+
+Genes Dev. 2018 Sep 18. doi:10.1101/gad.317669.118
+
+Horie T, Horie R, Chen K, Cao C, Nakagawa M, Kusakabe TG, Satoh N, Sasakura Y, Levine M.
+
+Regulatory cocktail for dopaminergic neurons in a protovertebrate identified by whole-embryo single-cell transcriptomics.
+
+[[!pmid 30228204 desc="Ptf1a and Meis can reprogram the CNS of Ciona intestinalis into a dopaminergic cell type."]]

Correct links.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 88e4c89..964e294 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -23,7 +23,7 @@ Some links:
 
 Food tested in laboratory (totally incomplete list): _Isochrysis galbana_ (5.5
 µm in size), _Tetraselmis suecica_ (9.5 µm), and the chlorophyte _Chlorella
-sp._ (3.5 µm) [[Acuña and Kiefer, 2000|10.4319_lo.2000.45.3.0608.mdwn]].
+sp._ (3.5 µm) [[Acuña and Kiefer, 2000|biblio/10.4319_lo.2000.45.3.0608.mdwn]].
 
 
 Phylogeny
@@ -204,6 +204,6 @@ Ecology
    database of DNA barcodes.
  - Carbon output of _O. dioica_ is either their house or fecal pellets, the
    ratio of which may depend on food concentration ([[Acuña and
-   Kiefer, 2000|10.4319_lo.2000.45.3.0608.mdwn]]).
+   Kiefer, 2000|biblio/10.4319_lo.2000.45.3.0608.mdwn]]).
 
 [[!inline pages="tagged(Oikopleura)" actions="no" limit=0]]

Food
diff --git a/biblio/10.4319_lo.2000.45.3.0608.mdwn b/biblio/10.4319_lo.2000.45.3.0608.mdwn
new file mode 100644
index 0000000..7d08111
--- /dev/null
+++ b/biblio/10.4319_lo.2000.45.3.0608.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Functional response of the appendicularian Oikopleura dioica."]]
+[[!tag Oikopleura]]
+
+José Luis Acuña and Markus Kiefer.
+
+Limnology and Oceanography Volume 45, Issue 3, Pages 608–18, 26 April 2000
+
+Functional response of the appendicularian Oikopleura dioica.
+
+[[!doi 10.4319/lo.2000.45.3.0608 desc="“Particles cleared from suspension by O. dioica are ingested and transformed into fast‐sinking fecal pellets at low FC, while they are mainly accumulated into slow to fast‐sinking filter houses at high FC”.  Food used in this study: Isochrysis galbana (5.5 µm in size), Tetraselmis suecica (9.5 µm), and Chlorella sp. (3.5 µm)."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 80701f1..88e4c89 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -21,6 +21,11 @@ Some links:
  - Études sur les Appendiculaires du Détroit de Messine, Hermann Fol, 1872
    ([[ark:/13960/t7fr0vj77|https://archive.org/details/cbarchive_100233_etudessurlesappendiculairesdud1821]]).
 
+Food tested in laboratory (totally incomplete list): _Isochrysis galbana_ (5.5
+µm in size), _Tetraselmis suecica_ (9.5 µm), and the chlorophyte _Chlorella
+sp._ (3.5 µm) [[Acuña and Kiefer, 2000|10.4319_lo.2000.45.3.0608.mdwn]].
+
+
 Phylogeny
 ---------
 
@@ -197,5 +202,8 @@ Ecology
  - It was already reported to be frequent in Japanese waters [[in 1907 by T. Aida|biblio/AA0069577]].
  - As of August 2018, _O. dioica_ is not yet found in the [BOLD](http://www.boldsystems.org/)
    database of DNA barcodes.
+ - Carbon output of _O. dioica_ is either their house or fecal pellets, the
+   ratio of which may depend on food concentration ([[Acuña and
+   Kiefer, 2000|10.4319_lo.2000.45.3.0608.mdwn]]).
 
 [[!inline pages="tagged(Oikopleura)" actions="no" limit=0]]

Cafés
diff --git a/biblio/10.1093_plankt_2.2.145.mdwn b/biblio/10.1093_plankt_2.2.145.mdwn
new file mode 100644
index 0000000..94b205c
--- /dev/null
+++ b/biblio/10.1093_plankt_2.2.145.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Répartition des Appendiculaires au large des côtes de Californie"]]
+[[!tag Oikopleura]]
+
+Journal of Plankton Research, Volume 2, Issue 2, 1 April 1980, Pages 145–167 doi:10.1093/plankt/2.2.145
+
+R. Fenaux S. Dallot
+
+Répartition des Appendiculaires au large des côtes de Californie 
+
+[[!doi 10.1093/plankt/2.2.145 desc="Distributions of appendicularian species can be sorted according to the presence or absence of O. dioica (other species tend to co-occur by clusters).  O. dioica tends to co-occur with F. Tenella.  O. longicauda is the most abundant.  The total amount of appendicularians is higher where O. dioica is found."]]

Typo
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 2b8c1da..e847426 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -7,7 +7,7 @@ msgid ""
 msgstr ""
 "Project-Id-Version: \n"
 "POT-Creation-Date: 2018-09-23 12:51+0000\n"
-"PO-Revision-Date: 2018-09-23 21:51+0900\n"
+"PO-Revision-Date: 2018-09-24 07:37+0900\n"
 "Last-Translator: Charles Plessy <toto@example.com>\n"
 "Language-Team: \n"
 "Language: en\n"
@@ -78,7 +78,7 @@ msgid ""
 "restaurants#grano)).  Si vous venez le visiter, faites-moi signe !"
 msgstr ""
 "On the work side, I joined the Okinawa Institute of Science and Technology "
-"Graduate University (OIST).  It is a formidable place, [open to the public])"
+"Graduate University (OIST).  It is a formidable place, [open to the public]"
 "(https://www.oist.jp/unguided-campus-visit) even on week-end (note the "
 "opening hours of the [café](https://www.oist.jp/visitors-center-shops-"
 "restaurants#grano)).  If you come visit, please let me know!"

)
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 0195240..2b8c1da 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -7,7 +7,7 @@ msgid ""
 msgstr ""
 "Project-Id-Version: \n"
 "POT-Creation-Date: 2018-09-23 12:51+0000\n"
-"PO-Revision-Date: 2018-09-23 21:48+0900\n"
+"PO-Revision-Date: 2018-09-23 21:51+0900\n"
 "Last-Translator: Charles Plessy <toto@example.com>\n"
 "Language-Team: \n"
 "Language: en\n"
@@ -37,14 +37,6 @@ msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
 msgstr "[[!meta title=\"I moved to Okinawa!\"]]\n"
 
 #. type: Plain text
-#, fuzzy
-#| msgid ""
-#| "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
-#| "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
-#| "[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
-#| "traditionnelles faisant usage d'un grand nombre de tambours, ayant "
-#| "souvent lieu vers la fin de mois d'août.  Chaque quartier a sa propre "
-#| "troupe et nous espérons pouvoir nous y joindre pour l'année prochaine."
 msgid ""
 "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
 "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
@@ -55,7 +47,7 @@ msgid ""
 msgstr ""
 "I moved with my family to Okinawa in August, in the Akano neighborhood in "
 "the Uruma city.  We arrived on time to see a bunch of [eisaa](https://en."
-"wikipedia.org/wiki/Eisa_(dance)), traditional dances using lots for drums, "
+"wikipedia.org/wiki/Eisa_(dance%29), traditional dances using lots for drums, "
 "that often take place at the end of August.  Each neighborhood has its own "
 "band and we hope we can join next year."
 

updated PO files
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 2fd4912..0195240 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -6,7 +6,7 @@
 msgid ""
 msgstr ""
 "Project-Id-Version: \n"
-"POT-Creation-Date: 2018-09-23 12:46+0000\n"
+"POT-Creation-Date: 2018-09-23 12:51+0000\n"
 "PO-Revision-Date: 2018-09-23 21:48+0900\n"
 "Last-Translator: Charles Plessy <toto@example.com>\n"
 "Language-Team: \n"
@@ -37,10 +37,18 @@ msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
 msgstr "[[!meta title=\"I moved to Okinawa!\"]]\n"
 
 #. type: Plain text
+#, fuzzy
+#| msgid ""
+#| "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
+#| "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
+#| "[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
+#| "traditionnelles faisant usage d'un grand nombre de tambours, ayant "
+#| "souvent lieu vers la fin de mois d'août.  Chaque quartier a sa propre "
+#| "troupe et nous espérons pouvoir nous y joindre pour l'année prochaine."
 msgid ""
 "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
 "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
-"[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
+"[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance%29), des danses "
 "traditionnelles faisant usage d'un grand nombre de tambours, ayant souvent "
 "lieu vers la fin de mois d'août.  Chaque quartier a sa propre troupe et nous "
 "espérons pouvoir nous y joindre pour l'année prochaine."

)
diff --git "a/Debian/debi\303\242neries/okinawa.mdwn" "b/Debian/debi\303\242neries/okinawa.mdwn"
index bb9ef08..3ad57ca 100644
--- "a/Debian/debi\303\242neries/okinawa.mdwn"
+++ "b/Debian/debi\303\242neries/okinawa.mdwn"
@@ -6,7 +6,7 @@
 
 J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier d'Akano,
 ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs
-[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses traditionnelles
+[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance%29), des danses traditionnelles
 faisant usage d'un grand nombre de tambours, ayant souvent lieu vers la fin de
 mois d'août.  Chaque quartier a sa propre troupe et nous espérons pouvoir nous
 y joindre pour l'année prochaine.

!!
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 071659e..2fd4912 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -7,7 +7,7 @@ msgid ""
 msgstr ""
 "Project-Id-Version: \n"
 "POT-Creation-Date: 2018-09-23 12:46+0000\n"
-"PO-Revision-Date: 2018-09-23 21:46+0900\n"
+"PO-Revision-Date: 2018-09-23 21:48+0900\n"
 "Last-Translator: Charles Plessy <toto@example.com>\n"
 "Language-Team: \n"
 "Language: en\n"
@@ -34,7 +34,7 @@ msgstr "[[!tag Debian]]\n"
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
-msgstr "[[!meta title=\"I moved to Okinawa!!\"]]\n"
+msgstr "[[!meta title=\"I moved to Okinawa!\"]]\n"
 
 #. type: Plain text
 msgid ""

Yasasa.
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 46931ce..071659e 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -7,7 +7,7 @@ msgid ""
 msgstr ""
 "Project-Id-Version: \n"
 "POT-Creation-Date: 2018-09-23 12:46+0000\n"
-"PO-Revision-Date: 2018-09-23 21:45+0900\n"
+"PO-Revision-Date: 2018-09-23 21:46+0900\n"
 "Last-Translator: Charles Plessy <toto@example.com>\n"
 "Language-Team: \n"
 "Language: en\n"
@@ -37,14 +37,6 @@ msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
 msgstr "[[!meta title=\"I moved to Okinawa!!\"]]\n"
 
 #. type: Plain text
-#, fuzzy
-#| msgid ""
-#| "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
-#| "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
-#| "[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
-#| "traditionelles faisant usage d'un grand nombre de tambours, ayant souvent "
-#| "lieu vers la fin de mois d'août.  Chaque quartier a sa propre troupe et "
-#| "nous espérons pouvoir nous y joindre pour l'année prochaine."
 msgid ""
 "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
 "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
@@ -60,16 +52,6 @@ msgstr ""
 "band and we hope we can join next year."
 
 #. type: Plain text
-#, fuzzy
-#| msgid ""
-#| "Nous habitons dans un immeuble avec une connection en fibre optique "
-#| "partagée.  Bon ping vers la métropole, mais le débit pour les gros "
-#| "téléchargements est catastrophique le soir quand toutes les familles sont "
-#| "connectées en même temps.  Impossible de réussir un simple `sbuild-update "
-#| "-dragu unstable`, alors je n'ai malheureusement pas réussi à contribuer "
-#| "qui que ce soit à Debian.  C'est frustrant mais il y a peut-être des "
-#| "solutions à chercher du côté de notre [forge GitLab](https://salsa.debian."
-#| "org)."
 msgid ""
 "Nous habitons dans un immeuble avec une connexion en fibre optique "
 "partagée.  Bon ping vers la métropole, mais le débit pour les gros "
@@ -81,21 +63,13 @@ msgid ""
 msgstr ""
 "We live in a concrete building with a shared optic fiber connection.  It has "
 "a good ping to the mainland, but the speed for big downloads is catastrophic "
-"in the evenings, when all families are using the fibre at the same time.  "
+"in the evenings, when all families are using the fiber at the same time.  "
 "Impossible to manage a simple `sbuild-update -dragu unstable`, and I could "
 "not contribute anything to Debian since them.  It is frustrating; however "
 "there might be solutions through our [GitLab forge](https://salsa.debian."
 "org)."
 
 #. type: Plain text
-#, fuzzy
-#| msgid ""
-#| "Côté travail, j'ai rejoint l'université Okinawa Institue of Science and "
-#| "Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, "
-#| "[ouvert au public](https://www.oist.jp/unguided-campus-visit) même le "
-#| "week-end (notez les horaires du [café](https://www.oist.jp/visitors-"
-#| "center-shops-restaurants#grano)).  Si vous venez le visiter, faites-moi "
-#| "signe !"
 msgid ""
 "Côté travail, j'ai rejoint l'université Okinawa Institute of Science and "
 "Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, "

updated PO files
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
index 6f35f48..46931ce 100644
--- "a/Debian/debi\303\242neries/okinawa.en.po"
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -3,66 +3,108 @@
 # This file is distributed under the same license as the PACKAGE package.
 # FIRST AUTHOR <EMAIL@ADDRESS>, YEAR.
 #
-#, fuzzy
 msgid ""
 msgstr ""
-"Project-Id-Version: PACKAGE VERSION\n"
-"POT-Creation-Date: 2018-09-23 12:34+0000\n"
-"PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n"
-"Last-Translator: FULL NAME <EMAIL@ADDRESS>\n"
-"Language-Team: LANGUAGE <LL@li.org>\n"
-"Language: \n"
+"Project-Id-Version: \n"
+"POT-Creation-Date: 2018-09-23 12:46+0000\n"
+"PO-Revision-Date: 2018-09-23 21:45+0900\n"
+"Last-Translator: Charles Plessy <toto@example.com>\n"
+"Language-Team: \n"
+"Language: en\n"
 "MIME-Version: 1.0\n"
 "Content-Type: text/plain; charset=UTF-8\n"
 "Content-Transfer-Encoding: 8bit\n"
+"X-Generator: Poedit 1.8.11\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta date=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
-msgstr ""
+msgstr "[[!meta date=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta updated=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
-msgstr ""
+msgstr "[[!meta updated=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!tag Debian]]\n"
-msgstr ""
+msgstr "[[!tag Debian]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
-msgstr ""
+msgstr "[[!meta title=\"I moved to Okinawa!!\"]]\n"
 
 #. type: Plain text
+#, fuzzy
+#| msgid ""
+#| "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
+#| "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
+#| "[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
+#| "traditionelles faisant usage d'un grand nombre de tambours, ayant souvent "
+#| "lieu vers la fin de mois d'août.  Chaque quartier a sa propre troupe et "
+#| "nous espérons pouvoir nous y joindre pour l'année prochaine."
 msgid ""
 "J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
 "d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
 "[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
-"traditionelles faisant usage d'un grand nombre de tambours, ayant souvent "
+"traditionnelles faisant usage d'un grand nombre de tambours, ayant souvent "
 "lieu vers la fin de mois d'août.  Chaque quartier a sa propre troupe et nous "
 "espérons pouvoir nous y joindre pour l'année prochaine."
 msgstr ""
+"I moved with my family to Okinawa in August, in the Akano neighborhood in "
+"the Uruma city.  We arrived on time to see a bunch of [eisaa](https://en."
+"wikipedia.org/wiki/Eisa_(dance)), traditional dances using lots for drums, "
+"that often take place at the end of August.  Each neighborhood has its own "
+"band and we hope we can join next year."
 
 #. type: Plain text
+#, fuzzy
+#| msgid ""
+#| "Nous habitons dans un immeuble avec une connection en fibre optique "
+#| "partagée.  Bon ping vers la métropole, mais le débit pour les gros "
+#| "téléchargements est catastrophique le soir quand toutes les familles sont "
+#| "connectées en même temps.  Impossible de réussir un simple `sbuild-update "
+#| "-dragu unstable`, alors je n'ai malheureusement pas réussi à contribuer "
+#| "qui que ce soit à Debian.  C'est frustrant mais il y a peut-être des "
+#| "solutions à chercher du côté de notre [forge GitLab](https://salsa.debian."
+#| "org)."
 msgid ""
-"Nous habitons dans un immeuble avec une connection en fibre optique "
+"Nous habitons dans un immeuble avec une connexion en fibre optique "
 "partagée.  Bon ping vers la métropole, mais le débit pour les gros "
 "téléchargements est catastrophique le soir quand toutes les familles sont "
-"connectées en même temps.  Impossible de réussir un simple `sbuild-update "
-"-dragu unstable`, alors je n'ai malheureusement pas réussi à contribuer qui "
+"connectées en même temps.  Impossible de réussir un simple `sbuild-update -"
+"dragu unstable`, alors je n'ai malheureusement pas réussi à contribuer qui "
 "que ce soit à Debian.  C'est frustrant mais il y a peut-être des solutions à "
 "chercher du côté de notre [forge GitLab](https://salsa.debian.org)."
 msgstr ""
+"We live in a concrete building with a shared optic fiber connection.  It has "
+"a good ping to the mainland, but the speed for big downloads is catastrophic "
+"in the evenings, when all families are using the fibre at the same time.  "
+"Impossible to manage a simple `sbuild-update -dragu unstable`, and I could "
+"not contribute anything to Debian since them.  It is frustrating; however "
+"there might be solutions through our [GitLab forge](https://salsa.debian."
+"org)."
 
 #. type: Plain text
+#, fuzzy
+#| msgid ""
+#| "Côté travail, j'ai rejoint l'université Okinawa Institue of Science and "
+#| "Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, "
+#| "[ouvert au public](https://www.oist.jp/unguided-campus-visit) même le "
+#| "week-end (notez les horaires du [café](https://www.oist.jp/visitors-"
+#| "center-shops-restaurants#grano)).  Si vous venez le visiter, faites-moi "
+#| "signe !"
 msgid ""
-"Côté travail, j'ai rejoint l'université Okinawa Institue of Science and "
+"Côté travail, j'ai rejoint l'université Okinawa Institute of Science and "
 "Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, "
-"[ouvert au public](https://www.oist.jp/unguided-campus-visit) même le "
-"week-end (notez les horaires du "
-"[café](https://www.oist.jp/visitors-center-shops-restaurants#grano)).  Si "
-"vous venez le visiter, faites-moi signe !"
+"[ouvert au public](https://www.oist.jp/unguided-campus-visit) même le week-"
+"end (notez les horaires du [café](https://www.oist.jp/visitors-center-shops-"
+"restaurants#grano)).  Si vous venez le visiter, faites-moi signe !"
 msgstr ""
+"On the work side, I joined the Okinawa Institute of Science and Technology "
+"Graduate University (OIST).  It is a formidable place, [open to the public])"
+"(https://www.oist.jp/unguided-campus-visit) even on week-end (note the "
+"opening hours of the [café](https://www.oist.jp/visitors-center-shops-"
+"restaurants#grano)).  If you come visit, please let me know!"

yasasa
diff --git "a/Debian/debi\303\242neries/okinawa.mdwn" "b/Debian/debi\303\242neries/okinawa.mdwn"
index b8aaaa7..bb9ef08 100644
--- "a/Debian/debi\303\242neries/okinawa.mdwn"
+++ "b/Debian/debi\303\242neries/okinawa.mdwn"
@@ -6,12 +6,12 @@
 
 J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier d'Akano,
 ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs
-[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses traditionelles
+[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses traditionnelles
 faisant usage d'un grand nombre de tambours, ayant souvent lieu vers la fin de
 mois d'août.  Chaque quartier a sa propre troupe et nous espérons pouvoir nous
 y joindre pour l'année prochaine.
 
-Nous habitons dans un immeuble avec une connection en fibre optique partagée.
+Nous habitons dans un immeuble avec une connexion en fibre optique partagée.
 Bon ping vers la métropole, mais le débit pour les gros téléchargements est
 catastrophique le soir quand toutes les familles sont connectées en même temps.
 Impossible de réussir un simple `sbuild-update -dragu unstable`, alors je n'ai
@@ -19,7 +19,7 @@ malheureusement pas réussi à contribuer qui que ce soit à Debian.  C'est
 frustrant mais il y a peut-être des solutions à chercher du côté de notre
 [forge GitLab](https://salsa.debian.org).
 
-Côté travail, j'ai rejoint l'université Okinawa Institue of Science and
+Côté travail, j'ai rejoint l'université Okinawa Institute of Science and
 Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, [ouvert
 au public](https://www.oist.jp/unguided-campus-visit) même le week-end (notez
 les horaires du [café](https://www.oist.jp/visitors-center-shops-restaurants#grano)).

updated PO files
diff --git "a/Debian/debi\303\242neries/okinawa.en.po" "b/Debian/debi\303\242neries/okinawa.en.po"
new file mode 100644
index 0000000..6f35f48
--- /dev/null
+++ "b/Debian/debi\303\242neries/okinawa.en.po"
@@ -0,0 +1,68 @@
+# SOME DESCRIPTIVE TITLE
+# Copyright (C) YEAR Free Software Foundation, Inc.
+# This file is distributed under the same license as the PACKAGE package.
+# FIRST AUTHOR <EMAIL@ADDRESS>, YEAR.
+#
+#, fuzzy
+msgid ""
+msgstr ""
+"Project-Id-Version: PACKAGE VERSION\n"
+"POT-Creation-Date: 2018-09-23 12:34+0000\n"
+"PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n"
+"Last-Translator: FULL NAME <EMAIL@ADDRESS>\n"
+"Language-Team: LANGUAGE <LL@li.org>\n"
+"Language: \n"
+"MIME-Version: 1.0\n"
+"Content-Type: text/plain; charset=UTF-8\n"
+"Content-Transfer-Encoding: 8bit\n"
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta date=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta updated=\"Sun, 23 Sep 2018 21:33:11 +0900\"]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!tag Debian]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta title=\"J'ai déménagé à Okinawa !\"]]\n"
+msgstr ""
+
+#. type: Plain text
+msgid ""
+"J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier "
+"d'Akano, ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs "
+"[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses "
+"traditionelles faisant usage d'un grand nombre de tambours, ayant souvent "
+"lieu vers la fin de mois d'août.  Chaque quartier a sa propre troupe et nous "
+"espérons pouvoir nous y joindre pour l'année prochaine."
+msgstr ""
+
+#. type: Plain text
+msgid ""
+"Nous habitons dans un immeuble avec une connection en fibre optique "
+"partagée.  Bon ping vers la métropole, mais le débit pour les gros "
+"téléchargements est catastrophique le soir quand toutes les familles sont "
+"connectées en même temps.  Impossible de réussir un simple `sbuild-update "
+"-dragu unstable`, alors je n'ai malheureusement pas réussi à contribuer qui "
+"que ce soit à Debian.  C'est frustrant mais il y a peut-être des solutions à "
+"chercher du côté de notre [forge GitLab](https://salsa.debian.org)."
+msgstr ""
+
+#. type: Plain text
+msgid ""
+"Côté travail, j'ai rejoint l'université Okinawa Institue of Science and "
+"Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, "
+"[ouvert au public](https://www.oist.jp/unguided-campus-visit) même le "
+"week-end (notez les horaires du "
+"[café](https://www.oist.jp/visitors-center-shops-restaurants#grano)).  Si "
+"vous venez le visiter, faites-moi signe !"
+msgstr ""

Yasasa
diff --git "a/Debian/debi\303\242neries/okinawa.mdwn" "b/Debian/debi\303\242neries/okinawa.mdwn"
new file mode 100644
index 0000000..b8aaaa7
--- /dev/null
+++ "b/Debian/debi\303\242neries/okinawa.mdwn"
@@ -0,0 +1,26 @@
+[[!meta date="Sun, 23 Sep 2018 21:33:11 +0900"]]
+[[!meta updated="Sun, 23 Sep 2018 21:33:11 +0900"]]
+[[!tag Debian]]
+
+[[!meta title="J'ai déménagé à Okinawa !"]]
+
+J'ai déménagé avec ma famille à Okinawa depuis août, dans le quartier d'Akano,
+ville d'Uruma.  Nous sommes arrivés à temps pour vois plusieurs
+[eisaa](https://en.wikipedia.org/wiki/Eisa_(dance)), des danses traditionelles
+faisant usage d'un grand nombre de tambours, ayant souvent lieu vers la fin de
+mois d'août.  Chaque quartier a sa propre troupe et nous espérons pouvoir nous
+y joindre pour l'année prochaine.
+
+Nous habitons dans un immeuble avec une connection en fibre optique partagée.
+Bon ping vers la métropole, mais le débit pour les gros téléchargements est
+catastrophique le soir quand toutes les familles sont connectées en même temps.
+Impossible de réussir un simple `sbuild-update -dragu unstable`, alors je n'ai
+malheureusement pas réussi à contribuer qui que ce soit à Debian.  C'est
+frustrant mais il y a peut-être des solutions à chercher du côté de notre
+[forge GitLab](https://salsa.debian.org).
+
+Côté travail, j'ai rejoint l'université Okinawa Institue of Science and
+Technology [OIST](https://www.oist.jp).  C'est un endroit formidable, [ouvert
+au public](https://www.oist.jp/unguided-campus-visit) même le week-end (notez
+les horaires du [café](https://www.oist.jp/visitors-center-shops-restaurants#grano)).
+Si vous venez le visiter, faites-moi signe !

Found what "Fol, 1872" stands for.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 5af5724..80701f1 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -18,7 +18,8 @@ Some links:
  - Oikopleura Histone Database: <http://apps.cbu.uib.no/oikohistonedb>
  - Genoscope's genome browser: <http://www.genoscope.cns.fr/externe/GenomeBrowser/Oikopleura/>
  - OikoBase: <http://oikoarrays.biology.uiowa.edu/Oiko/> ([[Danks et al., 2013|biblio/23185044]])
-
+ - Études sur les Appendiculaires du Détroit de Messine, Hermann Fol, 1872
+   ([[ark:/13960/t7fr0vj77|https://archive.org/details/cbarchive_100233_etudessurlesappendiculairesdud1821]]).
 
 Phylogeny
 ---------

Avant café
diff --git a/biblio/30217597.mdwn b/biblio/30217597.mdwn
new file mode 100644
index 0000000..4700286
--- /dev/null
+++ b/biblio/30217597.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Development of the house secreting epithelium, a major innovation of tunicate larvaceans, involves multiple homeodomain transcription factors."]]
+[[!tag Oikopleura]]
+
+Mikhaleva Y, Skinnes R, Sumic S, Thompson EM, Chourrout D.
+
+Dev Biol. 2018 Sep 11. pii: S0012-1606(18)30157-X. doi:10.1016/j.ydbio.2018.09.006
+
+Development of the house secreting epithelium, a major innovation of tunicate larvaceans, involves multiple homeodomain transcription factors.
+
+[[!pmid 30217597 desc="The tandem-duplicated propA and probB genes participate to the development of the house secreting epitelium and control (directly or indirectly) oik41a."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index b026220..5af5724 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -153,6 +153,9 @@ Development
    who noted that it is exceptional in invertebrates, and hypothethise that it may
    be caused by neofunctionalisation (house production, ...) or by the small size of
    the genome (doubling the genes would then double the amount of regulatory sequences).
+ - The tandem _propA_ and _propB_ genes control directly or indirectly _oik41a_
+   and proper development of the house-secreting epithelium ([[Mikhaleva et
+   al., 2018|biblio/30217597]]).
 
 
 Physiology

schpoump
diff --git a/biblio/22343429.mdwn b/biblio/22343429.mdwn
new file mode 100644
index 0000000..893e24b
--- /dev/null
+++ b/biblio/22343429.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Preparation of megabase-sized DNA from a variety of organisms using the nuclei method for advanced genomics research."]]
+[[!tag method nucleus]]
+
+Zhang M, Zhang Y, Scheuring CF, Wu CC, Dong JJ, Zhang HB.
+
+Nat Protoc. 2012 Feb 16;7(3):467-78. doi:10.1038/nprot.2011.455
+
+Preparation of megabase-sized DNA from a variety of organisms using the nuclei method for advanced genomics research.
+
+[[!pmid 22343429 desc="Method to produce low melting agarose plugs or beads."]]

Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro.
diff --git a/biblio/26579937.mdwn b/biblio/26579937.mdwn
new file mode 100644
index 0000000..e316361
--- /dev/null
+++ b/biblio/26579937.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro."]]
+[[!tag CRISPR not_read]]
+
+Hinz JM, Laughery MF, Wyrick JJ.
+
+J Biol Chem. 2016 Nov 25;291(48):24851-24856 doi:10.1074/jbc.C116.758706
+
+Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro.
+
+[[!pmid 26579937 desc="Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro."]]

Debranched.
diff --git a/biblio/24213699.mdwn b/biblio/24213699.mdwn
index 7ddff5e..041b09a 100644
--- a/biblio/24213699.mdwn
+++ b/biblio/24213699.mdwn
@@ -7,4 +7,4 @@ Nat Biotechnol. 2013 Dec;31(12):1126-32. doi: 10.1038/nbt.2720
 
 Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells.
 
-[[!pmid 24213699 desc="Tn5 is not efficient on hyperbranched DNA"]]
+[[!pmid 24213699 desc="Tn5 is not efficient on hyperbranched DNA.  Random hexamers and DNA polymerase I were used to debranch the DNA."]]

Old
diff --git a/biblio/28973477.mdwn b/biblio/28973477.mdwn
new file mode 100644
index 0000000..43763bb
--- /dev/null
+++ b/biblio/28973477.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Self-biotinylation of DNA G-quadruplexes via intrinsic peroxidase activity."]]
+[[!tag method structure]]
+
+Nucleic Acids Res. 2017 Sep 29;45(17):9813-9822. doi:10.1093/nar/gkx765
+
+Einarson OJ, Sen D.
+
+Self-biotinylation of DNA G-quadruplexes via intrinsic peroxidase activity.
+
+[[!pmid 28973477 desc="Could it be turned into a single-cell method ?"]]

Correct tag.
diff --git a/biblio/30154186.mdwn b/biblio/30154186.mdwn
index fe84ccf..896ea95 100644
--- a/biblio/30154186.mdwn
+++ b/biblio/30154186.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler"]]
-[[!tag method sequence_tag nucleus]]
+[[!tag method sequence_tags nucleus]]
 
 J Cell Biol. 2018 Aug 28. pii: jcb.201807108. doi:10.1083/jcb.201807108
 

Prevent smiley.
diff --git a/biblio/30154186.mdwn b/biblio/30154186.mdwn
index ecbc8a1..fe84ccf 100644
--- a/biblio/30154186.mdwn
+++ b/biblio/30154186.mdwn
@@ -7,4 +7,4 @@ Chen Y, Zhang Y, Wang Y, Zhang L, Brinkman EK, Adam SA, Goldman R, van Steensel
 
 Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler 
 
-[[!pmid 30154186 desc="Tyramide free radicals can label DNA directly.  In TSA-Seq (Tyramide Signal Amplification-Sequencing), HRP is targeted on proteins of interest, biotinylated TSA labels neighboring DNA, and biotin-DNA complexes are purified and sequenced.  Distances between chromosome domains and nuclear speckles is reproducible across experiments. Between peripheral lamina (marked by lamin A and B) and nuclear speckles (marked by SON), an increasing gradient of transcriptional activity is clearly visible."]]
+[[!pmid 30154186 desc="Tyramide free radicals can label DNA directly.  In TSA-Seq (Tyramide Signal Amplification-Sequencing), HRP is targeted on proteins of interest, biotinylated TSA labels neighboring DNA, and biotin-DNA complexes are purified and sequenced.  Distances between chromosome domains and nuclear speckles is reproducible across experiments. Between peripheral lamina, marked by lamin A and B, and nuclear speckles (marked by SON), an increasing gradient of transcriptional activity is clearly visible."]]

Old.
diff --git a/biblio/30154186.mdwn b/biblio/30154186.mdwn
new file mode 100644
index 0000000..ecbc8a1
--- /dev/null
+++ b/biblio/30154186.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler"]]
+[[!tag method sequence_tag nucleus]]
+
+J Cell Biol. 2018 Aug 28. pii: jcb.201807108. doi:10.1083/jcb.201807108
+
+Chen Y, Zhang Y, Wang Y, Zhang L, Brinkman EK, Adam SA, Goldman R, van Steensel B, Ma J, Belmont AS.
+
+Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler 
+
+[[!pmid 30154186 desc="Tyramide free radicals can label DNA directly.  In TSA-Seq (Tyramide Signal Amplification-Sequencing), HRP is targeted on proteins of interest, biotinylated TSA labels neighboring DNA, and biotin-DNA complexes are purified and sequenced.  Distances between chromosome domains and nuclear speckles is reproducible across experiments. Between peripheral lamina (marked by lamin A and B) and nuclear speckles (marked by SON), an increasing gradient of transcriptional activity is clearly visible."]]

Old
diff --git a/biblio/29895867.mdwn b/biblio/29895867.mdwn
new file mode 100644
index 0000000..179f50f
--- /dev/null
+++ b/biblio/29895867.mdwn
@@ -0,0 +1,11 @@
+[[!meta title="A photoelectrochemical platform for the capture and release of rare single cells."]]
+[[!tag single_cell microfluidic]]
+
+Parker SG, Yang Y, Ciampi S, Gupta B, Kimpton K, Mansfeld FM, Kavallaris M,
+Gaus K, Gooding JJ.
+
+Nat Commun. 2018 Jun 12;9(1):2288. doi:10.1038/s41467-018-04701-y
+
+A photoelectrochemical platform for the capture and release of rare single cells.
+
+[[!pmid 29895867 desc="Cells captured by an antibody by an electrochemically cleavable linker."]]

Normalisation.
diff --git a/biblio/21596820.mdwn b/biblio/21596820.mdwn
index 340bdb9..47716c3 100644
--- a/biblio/21596820.mdwn
+++ b/biblio/21596820.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Unamplified cap analysis of gene expression on a single-molecule sequencer."]]
-[[!tag CAGE Helicos sequence_tag method]]
+[[!tag CAGE Helicos sequence_tags method]]
 
 Genome Res. 2011 Jul;21(7):1150-9. doi:10.1101/gr.115469.110
 
diff --git a/tags/sequence_tag.mdwn b/tags/sequence_tag.mdwn
deleted file mode 100644
index 244d1cd..0000000
--- a/tags/sequence_tag.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged sequence tag"]]
-
-[[!inline pages="tagged(sequence_tag)" actions="no" archive="yes"
-feedshow=10]]

Old
diff --git a/biblio/28973448.mdwn b/biblio/28973448.mdwn
new file mode 100644
index 0000000..6fafeed
--- /dev/null
+++ b/biblio/28973448.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Targeted chromatin ligation, a robust epigenetic profiling technique for small cell numbers."]]
+[[!tag sequence_tags epigenetic method]]
+
+Nucleic Acids Res. 2017 Sep 29;45(17):e153. doi:10.1093/nar/gkx648
+
+Zarnegar MA, Reinitz F, Newman AM, Clarke MF.
+
+Targeted chromatin ligation, a robust epigenetic profiling technique for small cell numbers.
+
+[[!pmid 28973448 desc="Proximity ligation between DNA ends and antibody-linked adaptors."]]

Café
diff --git a/biblio/17829536.mdwn b/biblio/17829536.mdwn
new file mode 100644
index 0000000..d70c5ed
--- /dev/null
+++ b/biblio/17829536.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Zooplankton Species Groups in the North Pacific"]]
+[[!tag richness statistics]]
+
+Science. 1963 May 3;140(3566):453-60 doi:10.1126/science.140.3566.453
+
+Fager EW, McGowan JA.
+
+Zooplankton Species Groups in the North Pacific
+
+[[!pmid 17829536 desc="Fager & McGowan index of affinity: [J/√(Na.Nb)] - 1/2√Nb, where J is number of joined occurences and Na and Nb are the number of occurences of a and b respectively.  Nb is chosen to be greater or equal to Na.  Scores higher than 0.5 denote affinity.  The paper then explores the geographical distribution of groups of species, where all species in the same group have affinity for each other."]]

Splice leader sequence.
diff --git a/biblio/15314184.mdwn b/biblio/15314184.mdwn
index 2ca7c3e..b45e7b3 100644
--- a/biblio/15314184.mdwn
+++ b/biblio/15314184.mdwn
@@ -7,4 +7,4 @@ Mol Cell Biol. 2004 Sep;24(17):7795-805. doi:10.1128/MCB.24.17.7795-7805.2004
 
 Spliced-Leader RNA trans Splicing in a Chordate, Oikopleura dioica, with a Compact Genome.
 
-[[!pmid 15314184 desc="5′ splice leader (SL) found in 90/158 ESTs containing a start codon.  The SL RNA is found downstream of the 5S RNA in at least 40 occurences, and aproximately 2/3 of all the 5S rRNA genes.  O. doica is the first chordate where gene operons have been described."]]
+[[!pmid 15314184 desc="5′ splice leader (SL) found in 90/158 ESTs containing a start codon.  The SL RNA is found downstream of the 5S RNA in at least 40 occurences, and aproximately 2/3 of all the 5S rRNA genes.  Its sequence is ACTCATCCCATTTTTGAGTCCGATTTCGATTGTCTAACAG. O. doica is the first chordate where gene operons have been described."]]

Old
diff --git a/biblio/29320473.mdwn b/biblio/29320473.mdwn
new file mode 100644
index 0000000..e7a9587
--- /dev/null
+++ b/biblio/29320473.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Systems of mechanized and reactive droplets powered by multi-responsive surfactants."]]
+[[!tag emulsion]]
+
+Nature. 2018 Jan 18;553(7688):313-318. doi:10.1038/nature25137
+
+Yang Z, Wei J, Sobolev YI, Grzybowski BA.
+
+Systems of mechanized and reactive droplets powered by multi-responsive surfactants.
+
+[[!pmid 29320473 desc="New amphiphilic surfactants containing gold, iron oxide or lead sulfide were used to create droplets that aggregate in magnetic fields, translate or rotate under laser illumination, and weld together electric fields. Combining these three manipulations allowed for the creation of complex structures used as microreactors for chemical reactions between reagents brought by individual droplets."]]
diff --git a/tags/emulsion.mdwn b/tags/emulsion.mdwn
index b72e5ee..dc83bbe 100644
--- a/tags/emulsion.mdwn
+++ b/tags/emulsion.mdwn
@@ -21,4 +21,8 @@ Different kinds of surfactants:
  - Sun Soft No. 818SK (polyglycerol esters of intersesterified ricinoleic acid; primary paper: [[Kojima _et al._, 2005|biblio/16214800]])
  - DC 5225C Formulation Aid / DC 749 Fluid (Dow Chemical Co.) [[Margulies _et al._, 2005|biblio/16056220]]
 
+Reactive droplets:
+
+ - Illumination changing magnetic or electric properties of droplets ([[Yang et al., 2018|biblio/29320473]]).
+
 [[!inline pages="tagged(emulsion)" actions="no" limit=0]]

Link to BOLD.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index a21d1f5..b026220 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -191,5 +191,7 @@ Ecology
    population size” ([[Denoeud et al., 2010|biblio/21097902]], according to a study
    of silent and non-silent substitution rates in coding sequences).
  - It was already reported to be frequent in Japanese waters [[in 1907 by T. Aida|biblio/AA0069577]].
+ - As of August 2018, _O. dioica_ is not yet found in the [BOLD](http://www.boldsystems.org/)
+   database of DNA barcodes.
 
 [[!inline pages="tagged(Oikopleura)" actions="no" limit=0]]

Tiling.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index b16538d..a21d1f5 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -17,7 +17,7 @@ Some links:
 
  - Oikopleura Histone Database: <http://apps.cbu.uib.no/oikohistonedb>
  - Genoscope's genome browser: <http://www.genoscope.cns.fr/externe/GenomeBrowser/Oikopleura/>
- - OikoBase: <http://oikoarrays.biology.uiowa.edu/Oiko/>
+ - OikoBase: <http://oikoarrays.biology.uiowa.edu/Oiko/> ([[Danks et al., 2013|biblio/23185044]])
 
 
 Phylogeny
@@ -131,6 +131,7 @@ Transcriptome
    by reverse splicing, ([[Denoeud et al., 2010|biblio/21097902]]).  Larger introns tend
    to be older, and among the large introns, the older contain repeat elements less frequently
    than the newer ([[Denoeud et al., 2010|biblio/21097902]]). 
+ - 12 developmental stages were studied with tiling arrays by [[Danks et al., 2013|biblio/23185044]].
 
 
 Tools

Tiling array.
diff --git a/biblio/23185044.mdwn b/biblio/23185044.mdwn
new file mode 100644
index 0000000..b5e9c64
--- /dev/null
+++ b/biblio/23185044.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica."]]
+[[!tag Oikopleura]]
+
+Nucleic Acids Res. 2013 Jan;41(Database issue):D845-53. doi:10.1093/nar/gks1159
+
+Danks G, Campsteijn C, Parida M, Butcher S, Doddapaneni H, Fu B, Petrin R, Metpally R, Lenhard B, Wincker P, Chourrout D, Thompson EM, Manak JR.
+
+OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica.
+
+[[!pmid 23185044 desc="Tiling array expression data for 12 developmental stages."]]

Café.
diff --git a/biblio/1929090.mdwn b/biblio/1929090.mdwn
new file mode 100644
index 0000000..48feb89
--- /dev/null
+++ b/biblio/1929090.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="The Seasonal Distribution of the Appendicularia in the Region of San Diego, California"]]
+[[!tag Oikopleura]]
+
+Ecology Vol. 3, No. 1 (Jan., 1922), pp. 55-64
+
+Christine E. Essenberg
+
+The Seasonal Distribution of the Appendicularia in the Region of San Diego, California
+
+[[!doi 10.2307/1929090 desc="Higher abundances of O. dioica in cool temperatures during winter."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index a27282b..b16538d 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -183,6 +183,9 @@ Ecology
 
  - _O. dioica_ populations may have a higher fitness in warmer and more acid oceans
    ([[Bouquet et al., 2018|biblio/29298334]]).
+ - In California, _O. dioica_ was reported by C. Essenberg
+   ([[1922|biblio/1929090]]) to be rare in summer's warm (> 20ºC) waters and
+   more abundant in winter's cool (13~16 ºC) waters.
  - _O. dioica_ has “a very large mutation rate, and/or a very large effective
    population size” ([[Denoeud et al., 2010|biblio/21097902]], according to a study
    of silent and non-silent substitution rates in coding sequences).

Methylation.
diff --git a/biblio/28115992.mdwn b/biblio/28115992.mdwn
index 3a7c736..8c32193 100644
--- a/biblio/28115992.mdwn
+++ b/biblio/28115992.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Sex-specific chromatin landscapes in an ultra-compact chordate genome."]]
-[[!tag Oikopleura epigenetic]]
+[[!tag Oikopleura methylation epigenetic]]
 
 Navratilova P, Danks GB, Long A, Butcher S, Manak JR, Thompson EM.
 
@@ -7,4 +7,4 @@ Epigenetics Chromatin. 2017 Jan 17;10:3. doi:10.1186/s13072-016-0110-4
 
 Sex-specific chromatin landscapes in an ultra-compact chordate genome.
 
-[[!pmid 28115992 desc="Chromatin domains usually smaller than 7 nucleosomes."]]
+[[!pmid 28115992 desc="Chromatin domains usually smaller than 7 nucleosomes.  5-methylcytosine detected by immunoprecipitation and microarray analysis (MeDIP-chip)."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index dfb3fe6..a27282b 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -55,6 +55,7 @@ Genome
    level of conserved synteny at larger distances.” ([[Denoeud et al.,
    2010|biblio/21097902]])
  - Chromatin domains are rarely longer than 7 nucleosomes ([[Navratilova et al., 2017|biblio/28115992]]).
+ - Some 5-methylcytosine was detected by MeDIP-chip by ([[Navratilova et al., 2017|biblio/28115992]]).
  - The entire machinery required for performing NHEJ repair of DSB (which is
    conserved from yeast to mammals) is undetectable ([[Denoeud et al., 2010|biblio/21097902]]).
  - Only a partial mitochondrial genome was reconstituted in [[Denoeud et al.,

Normalisation.
diff --git a/biblio/29291348.mdwn b/biblio/29291348.mdwn
index 3a713b6..7225a5c 100644
--- a/biblio/29291348.mdwn
+++ b/biblio/29291348.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Retrieval of a million high-quality, full-length microbial 16S and 18S rRNA gene sequences without primer bias."]]
-[[!tag fingerprint transcriptomics]]
+[[!tag fingerprint transcriptome]]
 
 Karst SM, Dueholm MS, McIlroy SJ, Kirkegaard RH, Nielsen PH, Albertsen M.
 

Au bureau
diff --git a/biblio/29945865.mdwn b/biblio/29945865.mdwn
new file mode 100644
index 0000000..3ba0182
--- /dev/null
+++ b/biblio/29945865.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="SLAM-ITseq: sequencing cell type-specific transcriptomes without cell sorting."]]
+[[!tag transcriptome cell_type]]
+
+Development. 2018 Jul 11;145(13). pii: dev164640. doi:10.1242/dev.164640
+
+Matsushima W, Herzog VA, Neumann T, Gapp K, Zuber J, Ameres SL, Miska EA.
+
+SLAM-ITseq: sequencing cell type-specific transcriptomes without cell sorting.
+
+[[!pmid 29945865 desc="SLAMseq in tissue (SLAM-ITseq).  Tissue-specific UPRT expression selectively incorporates 4-thiouracil in RNA.  Alkylation with iodoacetamide (IAA) leads to G → A mutations during reverse transcription, which are detected and quantified during data analysis."]]

Café encore.
diff --git a/biblio/29986741.mdwn b/biblio/29986741.mdwn
new file mode 100644
index 0000000..6c81d5b
--- /dev/null
+++ b/biblio/29986741.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Splicing heterogeneity: separating signal from noise."]]
+[[!tag splicing review single_cell]]
+
+Genome Biol. 2018 Jul 9;19(1):86. doi:10.1186/s13059-018-1467-4
+
+Wan Y, Larson DR.
+
+Splicing heterogeneity: separating signal from noise.
+
+[[!pmid 29986741 desc="Review covering splicing at the single-cell level"]]

Café
diff --git a/biblio/3138163.mdwn b/biblio/3138163.mdwn
new file mode 100644
index 0000000..b753818
--- /dev/null
+++ b/biblio/3138163.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Splice site selection, rate of splicing, and alternative splicing on nascent transcripts."]]
+[[!tag Drosophila splicing]]
+
+Genes Dev. 1988 Jun;2(6):754-65.
+
+Beyer AL, Osheim YN.
+
+Splice site selection, rate of splicing, and alternative splicing on nascent transcripts.
+
+[[!pmid 3138163 desc="Chromatin spread illustrating alternative splicing."]]

Precisions
diff --git a/biblio/27897270.mdwn b/biblio/27897270.mdwn
index a3048b3..431ea4e 100644
--- a/biblio/27897270.mdwn
+++ b/biblio/27897270.mdwn
@@ -7,4 +7,4 @@ Nat Commun. 2016 Nov 29;7:13296. doi:10.1038/ncomms13296
 
 TruePrime is a novel method for whole-genome amplification from single cells based on TthPrimPol.
 
-[[!pmid 27897270 desc="Isothermal amplification for 3 h at 30 °C using a mixture of TthPrimPol for priming and and Φ29DNApol for extension."]]
+[[!pmid 27897270 desc="Isothermal amplification for 3 h at 30 °C using a mixture of TthPrimPol for priming and and Φ29DNApol for extension.  Target DNA was first denatured in an alkaline buffer."]]

Ketchup
diff --git a/biblio/27897270.mdwn b/biblio/27897270.mdwn
new file mode 100644
index 0000000..a3048b3
--- /dev/null
+++ b/biblio/27897270.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="TruePrime is a novel method for whole-genome amplification from single cells based on TthPrimPol."]]
+[[!tag method amplification enzyme primase]]
+
+Picher ÁJ, Budeus B, Wafzig O, Krüger C, García-Gómez S, Martínez-Jiménez MI, Díaz-Talavera A, Weber D, Blanco L, Schneider A.
+
+Nat Commun. 2016 Nov 29;7:13296. doi:10.1038/ncomms13296
+
+TruePrime is a novel method for whole-genome amplification from single cells based on TthPrimPol.
+
+[[!pmid 27897270 desc="Isothermal amplification for 3 h at 30 °C using a mixture of TthPrimPol for priming and and Φ29DNApol for extension."]]

creating tag page tags/primase
diff --git a/tags/primase.mdwn b/tags/primase.mdwn
new file mode 100644
index 0000000..2b277c1
--- /dev/null
+++ b/tags/primase.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged primase"]]
+
+[[!inline pages="tagged(primase)" actions="no" archive="yes"
+feedshow=10]]

Prima
diff --git a/biblio/28911121.mdwn b/biblio/28911121.mdwn
index b30a1ab..e10b3df 100644
--- a/biblio/28911121.mdwn
+++ b/biblio/28911121.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Engineering human PrimPol into an efficient RNA-dependent-DNA primase/polymerase."]]
-[[!tag enzyme reverse_transcription]]
+[[!tag enzyme primase reverse_transcription]]
 
 Nucleic Acids Res. 2017 Sep 6;45(15):9046-9058. doi:10.1093/nar/gkx633
 

Café
diff --git a/biblio/30005597.mdwn b/biblio/30005597.mdwn
new file mode 100644
index 0000000..7969492
--- /dev/null
+++ b/biblio/30005597.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy."]]
+[[!tag nanopore review]]
+
+Genome Biol. 2018 Jul 13;19(1):90. doi:10.1186/s13059-018-1462-9
+
+Rang FJ, Kloosterman WP, de Ridder J.
+
+From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy.
+
+[[!pmid 30005597 desc="From R6 to R9.5."]]

Cleanup encore
diff --git a/tags/rna-seq.mdwn b/tags/rna-seq.mdwn
deleted file mode 100644
index bba2247..0000000
--- a/tags/rna-seq.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged rna-seq"]]
-
-[[!inline pages="tagged(rna-seq)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/rna.mdwn b/tags/rna.mdwn
deleted file mode 100644
index 36d49c2..0000000
--- a/tags/rna.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged rna"]]
-
-[[!inline pages="tagged(rna)" actions="no" archive="yes"
-feedshow=10]]

Cleanup.
diff --git a/biblio/17373481.mdwn b/biblio/17373481.mdwn
index ce7e81d..e4568cf 100644
--- a/biblio/17373481.mdwn
+++ b/biblio/17373481.mdwn
@@ -1,3 +1,3 @@
 [[!meta title="5′-tailed sequencing primers improve sequencing quality of PCR products."]]
-[[!tag sanger sequencing]]
+[[!tag Sanger sequencing]]
 [[!pmid 17373481 desc="A long tail (40 bp, for instance) increases the size of the fragments to separate on gel, and therefore resolution in 5′"]]
diff --git a/tags/RNA-Seq.mdwn b/tags/RNA-Seq.mdwn
deleted file mode 100644
index bfbf634..0000000
--- a/tags/RNA-Seq.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged RNA-Seq"]]
-
-[[!inline pages="tagged(RNA-Seq)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/heliscope.mdwn b/tags/heliscope.mdwn
deleted file mode 100644
index f1764df..0000000
--- a/tags/heliscope.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged heliscope"]]
-
-[[!inline pages="tagged(heliscope)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/parkinson.mdwn b/tags/parkinson.mdwn
deleted file mode 100644
index 0502e73..0000000
--- a/tags/parkinson.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged parkinson"]]
-
-[[!inline pages="tagged(parkinson)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/sanger.mdwn b/tags/sanger.mdwn
deleted file mode 100644
index c4e7100..0000000
--- a/tags/sanger.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged sanger"]]
-
-[[!inline pages="tagged(sanger)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/tfbs.mdwn b/tags/tfbs.mdwn
deleted file mode 100644
index 984b40b..0000000
--- a/tags/tfbs.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged tfbs"]]
-
-[[!inline pages="tagged(tfbs)" actions="no" archive="yes"
-feedshow=10]]

BUSCO
diff --git a/biblio/26059717.mdwn b/biblio/26059717.mdwn
new file mode 100644
index 0000000..7e725d2
--- /dev/null
+++ b/biblio/26059717.mdwn
@@ -0,0 +1,8 @@
+[[!meta title="BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs."]]
+[[!tag assembly]]
+
+Bioinformatics. 2015 Oct 1;31(19):3210-2. doi:10.1093/bioinformatics/btv351
+
+BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.
+
+[[!pmid 26059717 desc="Benchmarking Universal Single-Copy Orthologs. Can be used to train predictors such as Augustus."]]
diff --git a/biblio/29220515.mdwn b/biblio/29220515.mdwn
new file mode 100644
index 0000000..342e62b
--- /dev/null
+++ b/biblio/29220515.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="BUSCO applications from quality assessments to gene prediction and phylogenomics."]]
+[[!tag assembly]]
+
+Waterhouse RM, Seppey M, Simão FA, Manni M, Ioannidis P, Klioutchnikov G, Kriventseva EV, Zdobnov EM.
+
+Mol Biol Evol. 2017 Dec 6. doi:10.1093/molbev/msx319
+
+BUSCO applications from quality assessments to gene prediction and phylogenomics.
+
+[[!pmid 29220515 desc="BUSCO v3 and examples of use."]]

Normalise.
diff --git a/biblio/30018084.mdwn b/biblio/30018084.mdwn
index 15291cb..dc0ce8c 100644
--- a/biblio/30018084.mdwn
+++ b/biblio/30018084.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Rapid Low-Cost Assembly of the Drosophila melanogaster Reference Genome Using Low-Coverage, Long-Read Sequencing."]]
-[[!tag Drosophila Nanopore assembly]]
+[[!tag Drosophila nanopore assembly]]
 
 G3 (Bethesda). 2018 Jul 17. pii: g3.200162.2018. doi:10.1534/g3.118.200162
 
diff --git a/biblio/30087105.mdwn b/biblio/30087105.mdwn
index ed9f085..e0bb1a0 100644
--- a/biblio/30087105.mdwn
+++ b/biblio/30087105.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Highly Contiguous Genome Assemblies of 15 Drosophila Species Generated Using Nanopore Sequencing."]]
-[[!tag Drosophila Nanopore assembly]]
+[[!tag Drosophila nanopore assembly]]
 
 G3 (Bethesda). 2018 Aug 7. pii: g3.200160.2018. doi:10.1534/g3.118.200160
 

ketchup
diff --git a/biblio/30087105.mdwn b/biblio/30087105.mdwn
new file mode 100644
index 0000000..ed9f085
--- /dev/null
+++ b/biblio/30087105.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Highly Contiguous Genome Assemblies of 15 Drosophila Species Generated Using Nanopore Sequencing."]]
+[[!tag Drosophila Nanopore assembly]]
+
+G3 (Bethesda). 2018 Aug 7. pii: g3.200160.2018. doi:10.1534/g3.118.200160
+
+Miller DE, Staber C, Zeitlinger J, Hawley RS.
+
+Highly Contiguous Genome Assemblies of 15 Drosophila Species Generated Using Nanopore Sequencing.
+
+[[!pmid 30087105 desc="29× coverage and N50 of 4.4. Mb in average.  A multiplexed NextSeq 500 run was used for polishing.  Optimisation of Nanopore throughput by reorganising pore groups periodically, extracting high molecular weight DNA with phenol/chloroform extration, and using more DNA in the library preparation.  Benchmark of various tools including minimap/miniasm and canu."]]

Merge branch 'master' of ssh://charles-plessy-org.branchable.com
Mot manquant
diff --git "a/Debian/debi\303\242neries/imprimanteBrother.en.po" "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
index d9f3c39..d515191 100644
--- "a/Debian/debi\303\242neries/imprimanteBrother.en.po"
+++ "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
@@ -7,7 +7,7 @@ msgid ""
 msgstr ""
 "Project-Id-Version: \n"
 "POT-Creation-Date: 2018-08-22 12:55+0000\n"
-"PO-Revision-Date: 2018-08-22 21:59+0900\n"
+"PO-Revision-Date: 2018-08-22 22:01+0900\n"
 "Language: en\n"
 "MIME-Version: 1.0\n"
 "Content-Type: text/plain; charset=UTF-8\n"
@@ -47,9 +47,10 @@ msgid ""
 "tout semble se passer parfaitement sauf que rien ne sort de l'imprimante."
 msgstr ""
 "I ran into circles for more than one hour, before eventually understanding "
-"that one needs to install the `lib32stdc++6` in order to use the Brother "
-"drivers (HL-L2365DW printer) on an `amd64` system, since they are provided "
-"as `i386` packages. Only after, I realised that there was more than a hint "
-"in the [online instructions](http://support.brother.com/g/s/id/linux/en/"
-"before.html).  The hardest part was that without `lib32stdc++6`, everything "
-"seemed to work fine, except that nothing was coming out from the printer."
+"that one needs to install the `lib32stdc++6` package in order to use the "
+"Brother drivers (HL-L2365DW printer) on an `amd64` system, since they are "
+"provided as `i386` packages. Only after, I realised that there was more "
+"than a hint in the [online instructions](http://support.brother.com/g/s/id/"
+"linux/en/before.html).  The hardest part was that without `lib32stdc++6`, "
+"everything seemed to work fine, except that nothing was coming out from the "
+"printer."

updated PO files
diff --git "a/Debian/debi\303\242neries/imprimanteBrother.en.po" "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
index d9f3c39..2534769 100644
--- "a/Debian/debi\303\242neries/imprimanteBrother.en.po"
+++ "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
@@ -6,14 +6,14 @@
 msgid ""
 msgstr ""
 "Project-Id-Version: \n"
-"POT-Creation-Date: 2018-08-22 12:55+0000\n"
+"POT-Creation-Date: 2018-08-22 13:00+0000\n"
 "PO-Revision-Date: 2018-08-22 21:59+0900\n"
+"Last-Translator: Charles Plessy <toto@example.com>\n"
+"Language-Team: \n"
 "Language: en\n"
 "MIME-Version: 1.0\n"
 "Content-Type: text/plain; charset=UTF-8\n"
 "Content-Transfer-Encoding: 8bit\n"
-"Last-Translator: Charles Plessy <toto@example.com>\n"
-"Language-Team: \n"
 "X-Generator: Poedit 1.8.11\n"
 
 #. type: Plain text

Brother
diff --git "a/Debian/debi\303\242neries/imprimanteBrother.en.po" "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
index 9abb6d7..d9f3c39 100644
--- "a/Debian/debi\303\242neries/imprimanteBrother.en.po"
+++ "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
@@ -3,38 +3,38 @@
 # This file is distributed under the same license as the PACKAGE package.
 # FIRST AUTHOR <EMAIL@ADDRESS>, YEAR.
 #
-#, fuzzy
 msgid ""
 msgstr ""
-"Project-Id-Version: PACKAGE VERSION\n"
+"Project-Id-Version: \n"
 "POT-Creation-Date: 2018-08-22 12:55+0000\n"
-"PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n"
-"Last-Translator: FULL NAME <EMAIL@ADDRESS>\n"
-"Language-Team: LANGUAGE <LL@li.org>\n"
-"Language: \n"
+"PO-Revision-Date: 2018-08-22 21:59+0900\n"
+"Language: en\n"
 "MIME-Version: 1.0\n"
 "Content-Type: text/plain; charset=UTF-8\n"
 "Content-Transfer-Encoding: 8bit\n"
+"Last-Translator: Charles Plessy <toto@example.com>\n"
+"Language-Team: \n"
+"X-Generator: Poedit 1.8.11\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta date=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
-msgstr ""
+msgstr "[[!meta date=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta updated=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
-msgstr ""
+msgstr "[[!meta updated=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!tag Debian]]\n"
-msgstr ""
+msgstr "[[!tag Debian]]\n"
 
 #. type: Plain text
 #, no-wrap
 msgid "[[!meta title=\"Imprimer avec Brother sur Debian\"]]\n"
-msgstr ""
+msgstr "[[!meta title=\"Print with Brother from Debian\"]]\n"
 
 #. type: Plain text
 msgid ""
@@ -42,8 +42,14 @@ msgid ""
 "qu'il faut aussi installer le paquet `lib32stdc++6` quand on utilise les "
 "pilotes Brother (imprimante HL-L2365DW) sur un système `amd64`, puisqu'ils "
 "sont fournis sous la forme de paquets `i386`.  Pourtant il y a plus d'une "
-"piste dans les [instructions en "
-"ligne](http://support.brother.com/g/s/id/linux/en/before.html).  Le plus "
-"difficile était que sans `lib32stdc++6`, tout semble se passer parfaitement "
-"sauf que rien ne sort de l'imprimante."
+"piste dans les [instructions en ligne](http://support.brother.com/g/s/id/"
+"linux/en/before.html).  Le plus difficile était que sans `lib32stdc++6`, "
+"tout semble se passer parfaitement sauf que rien ne sort de l'imprimante."
 msgstr ""
+"I ran into circles for more than one hour, before eventually understanding "
+"that one needs to install the `lib32stdc++6` in order to use the Brother "
+"drivers (HL-L2365DW printer) on an `amd64` system, since they are provided "
+"as `i386` packages. Only after, I realised that there was more than a hint "
+"in the [online instructions](http://support.brother.com/g/s/id/linux/en/"
+"before.html).  The hardest part was that without `lib32stdc++6`, everything "
+"seemed to work fine, except that nothing was coming out from the printer."

updated PO files
diff --git "a/Debian/debi\303\242neries/imprimanteBrother.en.po" "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
new file mode 100644
index 0000000..9abb6d7
--- /dev/null
+++ "b/Debian/debi\303\242neries/imprimanteBrother.en.po"
@@ -0,0 +1,49 @@
+# SOME DESCRIPTIVE TITLE
+# Copyright (C) YEAR Free Software Foundation, Inc.
+# This file is distributed under the same license as the PACKAGE package.
+# FIRST AUTHOR <EMAIL@ADDRESS>, YEAR.
+#
+#, fuzzy
+msgid ""
+msgstr ""
+"Project-Id-Version: PACKAGE VERSION\n"
+"POT-Creation-Date: 2018-08-22 12:55+0000\n"
+"PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n"
+"Last-Translator: FULL NAME <EMAIL@ADDRESS>\n"
+"Language-Team: LANGUAGE <LL@li.org>\n"
+"Language: \n"
+"MIME-Version: 1.0\n"
+"Content-Type: text/plain; charset=UTF-8\n"
+"Content-Transfer-Encoding: 8bit\n"
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta date=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta updated=\"Wed, 22 Aug 2018 21:41:32 +0900\"]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!tag Debian]]\n"
+msgstr ""
+
+#. type: Plain text
+#, no-wrap
+msgid "[[!meta title=\"Imprimer avec Brother sur Debian\"]]\n"
+msgstr ""
+
+#. type: Plain text
+msgid ""
+"J'ai tourné en rond pendant plus d'une heure, avant de finir par comprendre "
+"qu'il faut aussi installer le paquet `lib32stdc++6` quand on utilise les "
+"pilotes Brother (imprimante HL-L2365DW) sur un système `amd64`, puisqu'ils "
+"sont fournis sous la forme de paquets `i386`.  Pourtant il y a plus d'une "
+"piste dans les [instructions en "
+"ligne](http://support.brother.com/g/s/id/linux/en/before.html).  Le plus "
+"difficile était que sans `lib32stdc++6`, tout semble se passer parfaitement "
+"sauf que rien ne sort de l'imprimante."
+msgstr ""

Grand frère II.
diff --git "a/Debian/debi\303\242neries/imprimanteBrother.mdwn" "b/Debian/debi\303\242neries/imprimanteBrother.mdwn"
new file mode 100644
index 0000000..c47656b
--- /dev/null
+++ "b/Debian/debi\303\242neries/imprimanteBrother.mdwn"
@@ -0,0 +1,13 @@
+[[!meta date="Wed, 22 Aug 2018 21:41:32 +0900"]]
+[[!meta updated="Wed, 22 Aug 2018 21:41:32 +0900"]]
+[[!tag Debian]]
+
+[[!meta title="Imprimer avec Brother sur Debian"]]
+
+J'ai tourné en rond pendant plus d'une heure, avant de finir par comprendre
+qu'il faut aussi installer le paquet `lib32stdc++6` quand on utilise les
+pilotes Brother (imprimante HL-L2365DW) sur un système `amd64`, puisqu'ils sont
+fournis sous la forme de paquets `i386`.  Pourtant il y a plus d'une piste dans
+les [instructions en ligne](http://support.brother.com/g/s/id/linux/en/before.html).
+Le plus difficile était que sans `lib32stdc++6`, tout semble se passer parfaitement
+sauf que rien ne sort de l'imprimante.

Droso
diff --git a/biblio/30018084.mdwn b/biblio/30018084.mdwn
index 51ea447..15291cb 100644
--- a/biblio/30018084.mdwn
+++ b/biblio/30018084.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Rapid Low-Cost Assembly of the Drosophila melanogaster Reference Genome Using Low-Coverage, Long-Read Sequencing."]]
-[[!tag Nanopore assembly]]
+[[!tag Drosophila Nanopore assembly]]
 
 G3 (Bethesda). 2018 Jul 17. pii: g3.200162.2018. doi:10.1534/g3.118.200162
 

Normalisation.
diff --git a/biblio/20615941.mdwn b/biblio/20615941.mdwn
index 694c505..5a28f17 100644
--- a/biblio/20615941.mdwn
+++ b/biblio/20615941.mdwn
@@ -1,3 +1,3 @@
 [[!meta title="Global analysis of trans-splicing in Drosophila."]]
-[[!tag drosophila trans-splicing]]
+[[!tag Drosophila trans-splicing]]
 [[!pmid 20615941 desc="Hybrid experiment found cases of trans-splicing, but few."]]
diff --git a/biblio/20868489.mdwn b/biblio/20868489.mdwn
index 096fdae..bfc37a0 100644
--- a/biblio/20868489.mdwn
+++ b/biblio/20868489.mdwn
@@ -1,3 +1,3 @@
 [[!meta title="An arthropod cis-regulatory element functioning in sensory organ precursor development dates back to the Cambrian."]]
-[[!tag enhancer sequence-conservation drosophila]]
+[[!tag enhancer sequence-conservation Drosophila]]
 [[!pmid 20868489 desc="The atonal sensory organ precursor enhancer (SOPE)"]]
diff --git a/biblio/23537633.mdwn b/biblio/23537633.mdwn
index 94ec47a..377c760 100644
--- a/biblio/23537633.mdwn
+++ b/biblio/23537633.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="A Sequence in the Drosophila H3-H4 Promoter Triggers Histone Locus Body Assembly and Biosynthesis of Replication-Coupled Histone mRNAs."]]
-[[!tag histone nuclear_body promoter bidirectional drosophila ]]
+[[!tag histone nuclear_body promoter bidirectional Drosophila ]]
 
 Salzler HR, Tatomer DC, Malek PY, McDaniel SL, Orlando AN, Marzluff WF, Duronio RJ.
 
diff --git a/biblio/24631403.mdwn b/biblio/24631403.mdwn
index fdda40c..2a240b5 100644
--- a/biblio/24631403.mdwn
+++ b/biblio/24631403.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Dedifferentiation of Neurons Precedes Tumor Formation in lola Mutants."]]
-[[!tag drosophila cell_cycle]]
+[[!tag Drosophila cell_cycle]]
 
 Southall TD, Davidson CM, Miller C, Carr A, Brand AH.
 
diff --git a/biblio/26098021.mdwn b/biblio/26098021.mdwn
index 29639b7..92c76b6 100644
--- a/biblio/26098021.mdwn
+++ b/biblio/26098021.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Combining protein and mRNA quantification to decipher transcriptional regulation."]]
-[[!tag single_cell transcription_factor imaging drosophila]]
+[[!tag single_cell transcription_factor imaging Drosophila]]
 
 Xu H, Sepúlveda LA, Figard L, Sokac AM, Golding I.
 
diff --git a/biblio/26680200.mdwn b/biblio/26680200.mdwn
index 55c27dc..1233ffb 100644
--- a/biblio/26680200.mdwn
+++ b/biblio/26680200.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="An essential cell cycle regulation gene causes hybrid inviability in Drosophila."]]
-[[!tag drosophila cell_cycle]]
+[[!tag Drosophila cell_cycle]]
 
 Phadnis N, Baker EP, Cooper JC, Frizzell KA, Hsieh E, de la Cruz AF, Shendure 
 J, Kitzman JO, Malik HS.
diff --git a/tags/drosophila.mdwn b/tags/drosophila.mdwn
deleted file mode 100644
index 619c2eb..0000000
--- a/tags/drosophila.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged drosophila"]]
-
-[[!inline pages="tagged(drosophila)" actions="no" archive="yes"
-feedshow=10]]

Typo.
diff --git a/biblio/29934612.mdwn b/biblio/29934612.mdwn
index 26b5948..2df471a 100644
--- a/biblio/29934612.mdwn
+++ b/biblio/29934612.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Experimental evidence that thermal selection shapes mitochondrial genome evolution."]]
-[[!tag Drosophia mitochondrion evolution temperature]]
+[[!tag Drosophila mitochondrion evolution temperature]]
 
 Sci Rep. 2018 Jun 22;8(1):9500. doi:10.1038/s41598-018-27805-3
 
diff --git a/tags/Drosophia.mdwn b/tags/Drosophia.mdwn
deleted file mode 100644
index fb8b636..0000000
--- a/tags/Drosophia.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged Drosophia"]]
-
-[[!inline pages="tagged(Drosophia)" actions="no" archive="yes"
-feedshow=10]]

creating tag page tags/Drosophia
diff --git a/tags/Drosophia.mdwn b/tags/Drosophia.mdwn
new file mode 100644
index 0000000..fb8b636
--- /dev/null
+++ b/tags/Drosophia.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged Drosophia"]]
+
+[[!inline pages="tagged(Drosophia)" actions="no" archive="yes"
+feedshow=10]]

Café
diff --git a/biblio/29934612.mdwn b/biblio/29934612.mdwn
new file mode 100644
index 0000000..26b5948
--- /dev/null
+++ b/biblio/29934612.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Experimental evidence that thermal selection shapes mitochondrial genome evolution."]]
+[[!tag Drosophia mitochondrion evolution temperature]]
+
+Sci Rep. 2018 Jun 22;8(1):9500. doi:10.1038/s41598-018-27805-3
+
+Lajbner Z, Pnini R, Camus MF, Miller J, Dowling DK.
+
+Experimental evidence that thermal selection shapes mitochondrial genome evolution.
+
+[[!pmid 29934612 desc="Experimental evidence for the “mitochondrial climatic hypothesis”.  Haplotypes only differ by non-coding or synonymous changes.  Wolbachia infection was a confounding factor and needed to be removed by antibiotic treatment."]]

creating tag page tags/coral
diff --git a/tags/coral.mdwn b/tags/coral.mdwn
new file mode 100644
index 0000000..3e793a9
--- /dev/null
+++ b/tags/coral.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged coral"]]
+
+[[!inline pages="tagged(coral)" actions="no" archive="yes"
+feedshow=10]]

Café
diff --git a/biblio/26656261.mdwn b/biblio/26656261.mdwn
new file mode 100644
index 0000000..36bc9c6
--- /dev/null
+++ b/biblio/26656261.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago."]]
+[[!tag coral population]]
+
+Sci Rep. 2015 Dec 10;5:18211. doi:10.1038/srep18211
+
+Shinzato C, Mungpakdee S, Arakaki N, Satoh N.
+
+Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago.
+
+[[!pmid 26656261 desc="Single population (K = 1 in ADMIXTURE analyisis).  PCA on 905,561 SNPs from 122 individuals shows four subpopulations corresponding roughly to island groups and suggests migration of only a few individuals."]]

creating tag page tags/chromosome
diff --git a/tags/chromosome.mdwn b/tags/chromosome.mdwn
new file mode 100644
index 0000000..c857eb3
--- /dev/null
+++ b/tags/chromosome.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged chromosome"]]
+
+[[!inline pages="tagged(chromosome)" actions="no" archive="yes"
+feedshow=10]]

Café
diff --git a/biblio/26848124.mdwn b/biblio/26848124.mdwn
new file mode 100644
index 0000000..6413ad5
--- /dev/null
+++ b/biblio/26848124.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Chromosome-scale shotgun assembly using an in vitro method for long-range linkage."]]
+[[!tag sequencing method chromosome assembly]]
+
+Genome Res. 2016 Mar;26(3):342-50. doi:10.1101/gr.193474.115
+
+Putnam NH, O'Connell BL, Stites JC, Rice BJ, Blanchette M, Calef R, Troll CJ, Fields A, Hartley PD, Sugnet CW, Haussler D, Rokhsar DS, Green RE.
+
+Chromosome-scale shotgun assembly using an in vitro method for long-range linkage.
+
+[[!pmid 26848124 desc="“Chicago”: in vitro assembly of artificial chromosomes, followed by Hi-C.  Sold as a kit by Dovetail genomics."]]

Syntax
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 39dde63..dfb3fe6 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -54,7 +54,7 @@ Genome
    indistinguishable from random for distances smaller than 30 genes and a modest
    level of conserved synteny at larger distances.” ([[Denoeud et al.,
    2010|biblio/21097902]])
- - Chromatin domains are rarely longer than 7 nucleosomes ([Navratilova et al., 2017|biblio/28115992]).
+ - Chromatin domains are rarely longer than 7 nucleosomes ([[Navratilova et al., 2017|biblio/28115992]]).
  - The entire machinery required for performing NHEJ repair of DSB (which is
    conserved from yeast to mammals) is undetectable ([[Denoeud et al., 2010|biblio/21097902]]).
  - Only a partial mitochondrial genome was reconstituted in [[Denoeud et al.,

creating tag page tags/LAST
diff --git a/tags/LAST.mdwn b/tags/LAST.mdwn
new file mode 100644
index 0000000..12a6a69
--- /dev/null
+++ b/tags/LAST.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged LAST"]]
+
+[[!inline pages="tagged(LAST)" actions="no" archive="yes"
+feedshow=10]]

Last-train
diff --git a/biblio/28039163.mdwn b/biblio/28039163.mdwn
new file mode 100644
index 0000000..b947998
--- /dev/null
+++ b/biblio/28039163.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Training alignment parameters for arbitrary sequencers with LAST-TRAIN."]]
+[[!tag LAST]]
+
+Bioinformatics. 2017 Mar 15;33(6):926-928. doi:10.1093/bioinformatics/btw742
+
+Hamada M, Ono Y, Asai K, Frith MC.
+
+Training alignment parameters for arbitrary sequencers with LAST-TRAIN.
+
+[[!pmid 28039163 desc="Using trained parameters helps to reduce reference bias."]]

Correction.
diff --git a/biblio/20335363.mdwn b/biblio/20335363.mdwn
index 3834962..afde758 100644
--- a/biblio/20335363.mdwn
+++ b/biblio/20335363.mdwn
@@ -1,6 +1,10 @@
-[[!meta title=""]]
-[[!tag ]]
+[[!meta title="Functional specialization of cellulose synthase genes of prokaryotic origin in chordate larvaceans."]]
+[[!tag Oikopleura]]
 
+Development. 2010 May;137(9):1483-92. doi:10.1242/dev.044503
 
+Sagane Y, Zech K, Bouquet JM, Schmid M, Bal U, Thompson EM.
 
-[[!pmid desc=""]]
+Functional specialization of cellulose synthase genes of prokaryotic origin in chordate larvaceans.
+
+[[!pmid 20335363 desc="O. dioica has two cellulose synthase genes (Od-CesA1 and Od-CesA2)."]]

Cellulose.
diff --git a/biblio/20335363.mdwn b/biblio/20335363.mdwn
new file mode 100644
index 0000000..3834962
--- /dev/null
+++ b/biblio/20335363.mdwn
@@ -0,0 +1,6 @@
+[[!meta title=""]]
+[[!tag ]]
+
+
+
+[[!pmid desc=""]]
diff --git a/biblio/20972815.mdwn b/biblio/20972815.mdwn
new file mode 100644
index 0000000..9f2f695
--- /dev/null
+++ b/biblio/20972815.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="The crystalline phase of cellulose changes under developmental control in a marine chordate."]]
+[[!tag Oikopleura]]
+
+Cell Mol Life Sci. 2011 May;68(9):1623-31. doi:10.1007/s00018-010-0556-7
+
+Nakashima K, Nishino A, Horikawa Y, Hirose E, Sugiyama J, Satoh N.
+
+The crystalline phase of cellulose changes under developmental control in a marine chordate.
+
+[[!pmid 20972815 desc="O. dioica has two cellulose synthase genes (Od-CesA1 and Od-CesA2) that are 68 % similar."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 246ca18..39dde63 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -95,7 +95,10 @@ Genes and pathways
 (See also other sections)
 
  - ~80 "house proteins" have been identified and more than half lack similarity
-   to known proteins ([[Hosp et al., 2012|biblio/22792236]]). 
+   to known proteins ([[Hosp et al., 2012|biblio/22792236]]).
+ - 2 cellulose synthase genes were found by [[Sagane et al. (2010)|biblio/20335363]]
+   and [[Nakashima et al. (2011)|biblio/20972815]].  They are used to produce different
+   crystalline forms of cellulose ([[Nakashima et al., 2011|biblio/20972815]]).
  - _O. dioica_ has multiple CDK1 and Cyclin B paraplogs, some of which are
    implicated in oogenesis ([[Feng & Thompson, 2018|biblio/29969934]]).
  - _O. dioica_ only has the Dnmt2 methyltransferase, and lacks Dnmt1 and Dnmt3.

creating tag page tags/muscle
diff --git a/tags/muscle.mdwn b/tags/muscle.mdwn
new file mode 100644
index 0000000..4788562
--- /dev/null
+++ b/tags/muscle.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged muscle"]]
+
+[[!inline pages="tagged(muscle)" actions="no" archive="yes"
+feedshow=10]]

Muscle genes.
diff --git a/biblio/29319812.mdwn b/biblio/29319812.mdwn
new file mode 100644
index 0000000..be2c934
--- /dev/null
+++ b/biblio/29319812.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Deuterostome Genomics: Lineage-Specific Protein Expansions That Enabled Chordate Muscle Evolution."]]
+[[!tag Oikopleura muscle]]
+
+Inoue J, Satoh N.
+
+Mol Biol Evol. 2018 Apr 1;35(4):914-924. doi:10.1093/molbev/msy002
+
+Deuterostome Genomics: Lineage-Specific Protein Expansions That Enabled Chordate Muscle Evolution.
+
+[[!pmid 29319812 desc="Duplication of some muscle genes in the stem Oikopleura lineage, perhaps reflecting the importance of tail movement during larval and adult stages."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 92ac076..246ca18 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -103,6 +103,10 @@ Genes and pathways
    ([[Yadetie et al, 2012|biblio/22300585]]).
  - _O. dioica_, like other deuterostomes, has acid-sensing ion channels (ASICs).
    They are expressed in the nervous system ([[Lynagh et al., 2018|biblio/30061402]]).
+ - Some muscle genes were duplicated in the _Oikopleura_ stem lineage
+   ([[Inoue & Satoh|biblio/29319812]]), prehaps reflecting the importance of
+   tail movements at larval and adult stages.
+
 
 Transcriptome
 -------------

NCBI Taxon ID.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 0cc7071..92ac076 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -3,14 +3,15 @@
 Oikopleura
 ==========
 
-_Oikopleura dioica_ is a tunicate larvacean (synonym: urochordate
-appendicularian) plankton.  Thus, it belongs to the same "chordate" phylum as
-us.  As the name indicates, it is the only _dioecious_ species of _Oikopleura_
-(that is: male and female organisms are distinct).  Its reproduction is
-_semelparous_: the animals die afer releasing its gametes.  Each animal
-secretes a mucus "house" that is used for feeding (and perhaps defending).  The
-main house proteins are called _oikosins_ and half or them are unique to
-Oikopleura and related animals ("_Appendicularia_").
+_Oikopleura dioica_ ([NCBI:txid34765](http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?lvl=0&amp;id=34765))
+is a tunicate larvacean (synonym: urochordate appendicularian) plankton.  Thus,
+it belongs to the same "chordate" phylum as us.  As the name indicates, it is
+the only _dioecious_ species of _Oikopleura_ (that is: male and female
+organisms are distinct).  Its reproduction is _semelparous_: the animals die
+afer releasing its gametes.  Each animal secretes a mucus "house" that is used
+for feeding (and perhaps defending).  The main house proteins are called
+_oikosins_ and half or them are unique to Oikopleura and related animals
+("_Appendicularia_").
 
 Some links:
 

Suppressive PCR.
diff --git a/biblio/7731798.mdwn b/biblio/7731798.mdwn
new file mode 100644
index 0000000..78722da
--- /dev/null
+++ b/biblio/7731798.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="An improved PCR method for walking in uncloned genomic DNA."]]
+[[!tag method library]]
+
+Nucleic Acids Res. 1995 Mar 25;23(6):1087-8.
+
+Siebert PD, Chenchik A, Kellogg DE, Lukyanov KA, Lukyanov SA.
+
+An improved PCR method for walking in uncloned genomic DNA.
+
+[[!pmid 7731798 desc="First description of suppressive PCR in English ?"]]
diff --git a/biblio/rjbc1994_20_701-704.mdwn b/biblio/rjbc1994_20_701-704.mdwn
new file mode 100644
index 0000000..833e8ba
--- /dev/null
+++ b/biblio/rjbc1994_20_701-704.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Highly efficient subtractive hybridization of cDNA"]]
+[[!tag method library]]
+
+Russian Journal of Bioorganic Chemistry 1994, 20 (6):701-704
+
+S. A. Lukyanov, N. G. Gurskaya, K. A. Lukyanov, V. S. Tarabykin, E. D. Sverdlov
+
+Highly efficient subtractive hybridization of cDNA
+
+[First publication of the suppressive PCR ? (PDF, in Russian)](http://www.rjbc.ru/arc/20/6/0701-0704.pdf)

Latest in PubMed.
diff --git a/biblio/30061402.mdwn b/biblio/30061402.mdwn
new file mode 100644
index 0000000..5e609a3
--- /dev/null
+++ b/biblio/30061402.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Acid-sensing ion channels emerged over 600 Mya and are conserved throughout the deuterostomes."]]
+[[!tag Oikopleura]]
+
+Proc Natl Acad Sci U S A. 2018 Jul 30. pii: 201806614. doi:10.1073/pnas.1806614115
+
+Lynagh T, Mikhaleva Y, Colding JM, Glover JC, Pless SA.
+
+Acid-sensing ion channels emerged over 600 Mya and are conserved throughout the deuterostomes.
+
+[[!pmid 30061402 desc="O. dioica, like other deuterostomes, has acid-sensing ion channels (ASICs).  They are expressed in the nervous system."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index ce67d9a..0cc7071 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -100,7 +100,8 @@ Genes and pathways
  - _O. dioica_ only has the Dnmt2 methyltransferase, and lacks Dnmt1 and Dnmt3.
  - CYP1 family genes and their regulator AhR are not detectable
    ([[Yadetie et al, 2012|biblio/22300585]]).
-
+ - _O. dioica_, like other deuterostomes, has acid-sensing ion channels (ASICs).
+   They are expressed in the nervous system ([[Lynagh et al., 2018|biblio/30061402]]).
 
 Transcriptome
 -------------

tag correction.
diff --git a/biblio/18007650.mdwn b/biblio/18007650.mdwn
index b9b753b..b83519c 100644
--- a/biblio/18007650.mdwn
+++ b/biblio/18007650.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="Evolutionary developmental biology and genomics."]]
-[[!tag Oikopleura epigenetics]]
+[[!tag Oikopleura epigenetic]]
 
 Nat Rev Genet. 2007 Dec;8(12):932-42 doi:10.1038/nrg2226
 
diff --git a/tags/epigenetics.mdwn b/tags/epigenetics.mdwn
deleted file mode 100644
index 276b2d1..0000000
--- a/tags/epigenetics.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged epigenetics"]]
-
-[[!inline pages="tagged(epigenetics)" actions="no" archive="yes"
-feedshow=10]]

Methyl tranferases.
diff --git a/biblio/18007650.mdwn b/biblio/18007650.mdwn
new file mode 100644
index 0000000..b9b753b
--- /dev/null
+++ b/biblio/18007650.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Evolutionary developmental biology and genomics."]]
+[[!tag Oikopleura epigenetics]]
+
+Nat Rev Genet. 2007 Dec;8(12):932-42 doi:10.1038/nrg2226
+
+Cañestro C, Yokoi H, Postlethwait JH.
+
+Evolutionary developmental biology and genomics.
+
+[[!pmid 18007650 desc="O. dioica only has the Dnmt2 methyltransferase, and lacks Dnmt1 and Dnmt3."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 312a25b..ce67d9a 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -56,9 +56,6 @@ Genome
  - Chromatin domains are rarely longer than 7 nucleosomes ([Navratilova et al., 2017|biblio/28115992]).
  - The entire machinery required for performing NHEJ repair of DSB (which is
    conserved from yeast to mammals) is undetectable ([[Denoeud et al., 2010|biblio/21097902]]).
- - CYP1 family genes and their regulator AhR are not detectable ([[Yadetie et al, 2012|biblio/22300585]]).
- - ~80 "house proteins" have been identified and more than half lack similarity
-   to known proteins ([[Hosp et al., 2012|biblio/22792236]]). 
  - Only a partial mitochondrial genome was reconstituted in [[Denoeud et al.,
    2010|biblio/21097902]], due to cloning and sequencing difficulties that may
    have been caused by oligo-dT stretches.  A/T-rich codons are more frequent than
@@ -89,8 +86,21 @@ Genome
    “Spots of sequence ultraconservation are almost systematically located
    in non coding regions, including introns that are larger than average
    in such genes than in others.” ([[Denoeud et al., 2010|biblio/21097902]]).
+
+
+Genes and pathways
+------------------
+
+(See also other sections)
+
+ - ~80 "house proteins" have been identified and more than half lack similarity
+   to known proteins ([[Hosp et al., 2012|biblio/22792236]]). 
  - _O. dioica_ has multiple CDK1 and Cyclin B paraplogs, some of which are
    implicated in oogenesis ([[Feng & Thompson, 2018|biblio/29969934]]).
+ - _O. dioica_ only has the Dnmt2 methyltransferase, and lacks Dnmt1 and Dnmt3.
+ - CYP1 family genes and their regulator AhR are not detectable
+   ([[Yadetie et al, 2012|biblio/22300585]]).
+
 
 Transcriptome
 -------------

Polish
diff --git a/tags/reverse_transcriptase.mdwn b/tags/reverse_transcriptase.mdwn
deleted file mode 100644
index 73bd59d..0000000
--- a/tags/reverse_transcriptase.mdwn
+++ /dev/null
@@ -1,4 +0,0 @@
-[[!meta title="pages tagged reverse transcriptase"]]
-
-[[!inline pages="tagged(reverse_transcriptase)" actions="no" archive="yes"
-feedshow=10]]
diff --git a/tags/reverse_transcription.mdwn b/tags/reverse_transcription.mdwn
index a8ba77b..9e31aa1 100644
--- a/tags/reverse_transcription.mdwn
+++ b/tags/reverse_transcription.mdwn
@@ -18,6 +18,7 @@ _(redaction in progress)_
    that is mistaken for a first-strand cDNA.  ActinomycinD inhibits DNA-dependent,
    but not RNA-dependent polymerase activity and is used to suppress these
    artefacts ([[Perocchi et al., 2007|biblio/17897965]], [[Kanamori-Katayama et al., 2011|biblio/21596820]]).
+ - Its error profile is different from other DNA polymerases ([[de Paz et al., 2018|biblio/29718339]]).
 
 ### Terminal desoxynucleotidyl transferase (TdT) activity
 

Polish.
diff --git a/biblio/29718339.mdwn b/biblio/29718339.mdwn
index 3aed4e2..5791394 100644
--- a/biblio/29718339.mdwn
+++ b/biblio/29718339.mdwn
@@ -1,5 +1,5 @@
 [[!meta title="High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing"]]
-[[!tag method reverse_transcriptase]]
+[[!tag method reverse_transcription]]
 
 Nucleic Acids Res. 2018 Jul 27;46(13):e78. doi:10.1093/nar/gky296
 

creating tag page tags/reverse_transcriptase
diff --git a/tags/reverse_transcriptase.mdwn b/tags/reverse_transcriptase.mdwn
new file mode 100644
index 0000000..73bd59d
--- /dev/null
+++ b/tags/reverse_transcriptase.mdwn
@@ -0,0 +1,4 @@
+[[!meta title="pages tagged reverse transcriptase"]]
+
+[[!inline pages="tagged(reverse_transcriptase)" actions="no" archive="yes"
+feedshow=10]]

Dans le train.
diff --git a/biblio/29718339.mdwn b/biblio/29718339.mdwn
new file mode 100644
index 0000000..3aed4e2
--- /dev/null
+++ b/biblio/29718339.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing"]]
+[[!tag method reverse_transcriptase]]
+
+Nucleic Acids Res. 2018 Jul 27;46(13):e78. doi:10.1093/nar/gky296
+
+de Paz AM, Cybulski TR, Marblestone AH, Zamft BM, Church GM, Boyden ES, Kording KP, Tyo KEJ
+
+High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing
+
+[[!pmid 29718339 desc="Magnification via Nucleotide Imbalance Fidelity (MagNIFi).  Investigates Dpo4, Taq, AMV RT, Sequenase 2.0 and Phi29.  Confirms previous reports that when using a DNA template, the preferred misincorporation of the AMV reverse-transcriptase is A:dCTP (but other misincorporations are also frequent)."]]

minor.
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index c82d9ad..312a25b 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -75,21 +75,22 @@ Genome
    ([[Denoeud et al., 2010|biblio/21097902]]).
  - Operons are enriched for houskeeping genes and depleted for developmental genes
    ([[Denoeud et al., 2010|biblio/21097902]]).
- - “LTR retrotransposons account for a significant part of the indel polymorphism in the Oikopleura genome.”
+ - “LTR retrotransposons account for a significant part of the indel polymorphism
+   in the _Oikopleura_ genome.”
    “Tor-3G elements are frequently inserted into exons and can be transcribed
-    together with their host gene, although transcripts initiated in the LTR
-    are also detected (Figure S11).”
+   together with their host gene, although transcripts initiated in the LTR
+   are also detected (Figure S11).”
    “The low allelic frequency of Tor-3G insertions is correlated with the
-    almost exclusive occurrence of heterozygous genotypes in the populations.
-    Moreover, experimental crosses between selected heterozygous parents for
-    the same insertion have thus far not resulted in homozygous offsprings.”
-    ([[Denoeud et al., 2010|biblio/21097902]]).
+   almost exclusive occurrence of heterozygous genotypes in the populations.
+   Moreover, experimental crosses between selected heterozygous parents for
+   the same insertion have thus far not resulted in homozygous offsprings.”
+   ([[Denoeud et al., 2010|biblio/21097902]]).
  - “Highly conserved elements (HCEs) lie around these developmental genes.”
    “Spots of sequence ultraconservation are almost systematically located
-    in non coding regions, including introns that are larger than average
-    in such genes than in others.” ([[Denoeud et al., 2010|biblio/21097902]]).
+   in non coding regions, including introns that are larger than average
+   in such genes than in others.” ([[Denoeud et al., 2010|biblio/21097902]]).
  - _O. dioica_ has multiple CDK1 and Cyclin B paraplogs, some of which are
-   implicated in oogenesis [[Feng & Thompson, 2018|biblio/29969934]].
+   implicated in oogenesis ([[Feng & Thompson, 2018|biblio/29969934]]).
 
 Transcriptome
 -------------

Dans le train.
diff --git a/biblio/29969934.mdwn b/biblio/29969934.mdwn
new file mode 100644
index 0000000..0a48e32
--- /dev/null
+++ b/biblio/29969934.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Specialization of CDK1 and Cyclin B paralog functions in a coenocystic mode of oogenic meiosis."]]
+[[!tag Oikopleura cell_cycle]]
+
+Cell Cycle. 2018 Jul 4. doi:10.1080/15384101.2018.1486167
+
+Feng H & Thompson EM
+
+Specialization of CDK1 and Cyclin B paralog functions in a coenocystic mode of oogenic meiosis. 
+
+[[!pmid 29969934 desc="_O. dioica_ has multiple CDK1 and Cyclin B paralogs."]]
diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index e5c5bdf..c82d9ad 100644
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -84,11 +84,12 @@ Genome
     Moreover, experimental crosses between selected heterozygous parents for
     the same insertion have thus far not resulted in homozygous offsprings.”
     ([[Denoeud et al., 2010|biblio/21097902]]).
- - ”Highly conserved elements (HCEs) lie around these developmental genes.”
+ - “Highly conserved elements (HCEs) lie around these developmental genes.”
    “Spots of sequence ultraconservation are almost systematically located
     in non coding regions, including introns that are larger than average
     in such genes than in others.” ([[Denoeud et al., 2010|biblio/21097902]]).
-
+ - _O. dioica_ has multiple CDK1 and Cyclin B paraplogs, some of which are
+   implicated in oogenesis [[Feng & Thompson, 2018|biblio/29969934]].
 
 Transcriptome
 -------------