Lost genes.

diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 04e24f6cdf6927396a40f4efcd12ce2e1d3b3cfc..420e327e29b0689f6bef1dc0d5765e5bbea24e22 100644 (file)
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -73,10 +73,6 @@ Genome
    by [[Berná and Alvarez-Valin (2014)|biblio/25008364]].
  - 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 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
@@ -85,10 +81,7 @@ Genome
    2008|biblio/18612321]]).
  - Analysis of sex-linked markers supports genetic sex determination with male heterogamety –
    that is: X chromosomes for females and Y for males.  ([[Denoeud et al., 2010|biblio/21097902]])
- - The minor spliceosome could not be found in _Oikopleura_'s genome ([[Martz
-   et al., 2008|biblio/19030770]], [[Denoeud et al., 2010|biblio/21097902]]).
-   It is found in _Ciona_ but not in _C. elegans_ ()[[Martz et al.,
-   2008|biblio/19030770]]. The major spliceosome is hypothethised to have evolved
+ - The major spliceosome is hypothethised to have evolved
    to become more permissive in order to splice G*-AG sites.  ”A large fraction
    (more than 10%) of the (...) introns displayed non-canonical (non GT-AG)
    splice sites, whereas the usual proportion is around 1%-1.5% in other genomes”
@@ -161,6 +154,15 @@ Genes and pathways
    ([[Niimura, 2009|biblio/20333175]]).
  - Most members of retinoic acid pathway gene network (biosynthesis, signalling
    and degradation) are lost in _O. dioica_ ([[Martí-Solans et al., 2016|biblio/27406791]]).
+ - 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]]).
+ - The minor spliceosome could not be found in _Oikopleura_'s genome ([[Martz
+   et al., 2008|biblio/19030770]], [[Denoeud et al., 2010|biblio/21097902]]).
+   It is found in _Ciona_ but not in _C. elegans_ ()[[Martz et al.,
+   2008|biblio/19030770]].
+
 
 
 Transcriptome