From: Charles Date: Fri, 22 Mar 2019 02:22:18 +0000 (+0900) Subject: Lost genes. X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=96b311fb27fc9fb389d5b07723d260179626d22e;p=source%2F.git Lost genes. --- diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn index 04e24f6c..420e327e 100644 --- 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