From: Charles Date: Mon, 26 Oct 2020 07:29:41 +0000 (+0900) Subject: Café X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=7af9241a78cdaffac6ab0c3864647b57c3ef98c5;p=source.git Café --- diff --git a/biblio/10.1101_2020.05.07.078311.mdwn b/biblio/10.1101_2020.05.07.078311.mdwn new file mode 100644 index 00000000..be6a0ea9 --- /dev/null +++ b/biblio/10.1101_2020.05.07.078311.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Conservative route to genome compaction in a miniature annelid"]] +[[!tag genome synteny]] + +José M. Martín-Durán, Bruno C. Vellutini, Ferdinand Marlétaz, Viviana Cetrangolo, Nevena Cvetesic, Daniel Thiel, Simon Henriet, Xavier Grau-Bové, Allan M. Carrillo-Baltodano, Wenjia Gu, Alexandra Kerbl, Yamile Marquez, Nicolas Bekkouche, Daniel Chourrout, Jose Luis Gómez-Skarmeta, Manuel Irimia, Boris Lenhard, Katrine Worsaae, Andreas Hejnol + +bioRxiv 2020.05.07.078311; doi:10.1101/2020.05.07.078311 + +Conservative route to genome compaction in a miniature annelid + +[[!doi 10.1101/2020.05.07.078311 desc="Genome assembly (PacBio, 73.8 Mb, 95.8% BUSCO genes, 2.24 Mb N50, 4.87% transposable elements, 14,203 protein-coding genes) for the annelid Dimorphilus gyrociliatus, a meiobenthic segmented worm. Synteny with the scallop genome is visible. The Hox cluster is present and lacks only one gene, post1. However, in situ hybridisation suggests lack of temporal colinearity. The Myc pathway “lacks the regulators mad (in D. gyrociliatus) and mnt (in all Dinophilidae), a condition also shared with the appendicularian O. dioica”. “Open chromatin regions [ATAC-seq peaks] are short and mostly found in promoters.” “Promoters [CAGE] are narrow (<150 bp) and use pyrimidine-purine dinucleotides as preferred initiators.”"]] diff --git a/tags/synteny.mdwn b/tags/synteny.mdwn index 9b27c1df..5899c801 100644 --- a/tags/synteny.mdwn +++ b/tags/synteny.mdwn @@ -14,7 +14,9 @@ The ancestral chordate has 17 chromosomes according to amphioxus assemblies of The scallop genome has 19 chromosomes, which are syntenic to the 17 ancestral chordate chromosomes. _Drosophila_ has no synteny with scallop, but _C. -elegans_ still has some [[Wang and coll., 2017|biblio/28812685]]. +elegans_ still has some [[Wang and coll., 2017|biblio/28812685]]. The annelid +worm _Dimorphilus gyrociliatus_ also has +([[Martín-Durán and coll., 2020|biblio/10.1101_2020.05.07.078311]]). The ancestral amniote has 49 chromosomes according to [[Sacerdot and coll., 2018|biblio/30333059]].