From: Charles Plessy Date: Fri, 2 Jun 2023 09:19:14 +0000 (+0900) Subject: Dans l'avion X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=56c77283a86e4f12ef47c207d73d2110c1fa7497;p=setup%2F.git Dans l'avion --- diff --git a/biblio/36161960.mdwn b/biblio/36161960.mdwn new file mode 100644 index 00000000..38c577af --- /dev/null +++ b/biblio/36161960.mdwn @@ -0,0 +1,33 @@ +[[!meta title="Evolution of the ancestral mammalian karyotype and syntenic regions."]] +[[!tag synteny]] + +Damas J, Corbo M, Kim J, Turner-Maier J, Farré M, Larkin DM, Ryder OA, Steiner C, Houck ML, Hall S, Shiue L, Thomas S, Swale T, Daly M, Korlach J, Uliano-Silva M, Mazzoni CJ, Birren BW, Genereux DP, Johnson J, Lindblad-Toh K, Karlsson EK, Nweeia MT, Johnson RN; Zoonomia Consortium; Lewin HA. + +Proc Natl Acad Sci U S A. 2022 Oct 4;119(40):e2209139119. doi: 10.1073/pnas.2209139119 + +Evolution of the ancestral mammalian karyotype and syntenic regions. + +[[!pmid 36161960 desc="Analyses the number of breakpoints between nodes of the +phylogenetic tree, thanks to ancestral genome reconstruction. “2 extant +mammals (Dataset S1), representing all 19 eutherian, 3 marsupial, and the +monotreme orders, were used to reconstruct ancestral karyotypes at 16 nodes of +the mammalian phylogeny” “We used DESCHRAMBLER to generate reconstructed +ancestral chromosome fragments (RACFs) for each of 16 mammalian ancestors at +300-kbp syntenic fragment (SF) resolution” “The reconstructed mammalian +ancestor karyotype has 19 autosomes plus X, except for the cattle genome-based +reconstruction, which has two fewer chromosomes and the lowest total +reconstruction length” “The differences between the mammalian and therian (n = +17 + X) ancestors’ chromosomes resulted from 96 chromosomal rearrangements over +18 My.” “The eutherian ancestor (n = 19 + X) is the most recent common +ancestor of the three lineages represented by the reference genomes. Its +karyotype evolved from that of the therian ancestor as a result of 124 +chromosomal rearrangements over 53 My.” “We identified 323, 262, and 257 EBRs +that occurred along the lineage from the mammalian ancestor to the human, +sloth, and cattle genomes, respectively” “Inversions were most frequent, +accounting for 76 to 85% of all rearrangements identified for each lineage” +“The highest number of interchromosomal rearrangements (i.e., fissions and +fusions) was observed on the branch from the therian to the eutherian ancestor +(n = 30)” “We observed that 9 of 14 small MAMs have 1:1 orthology to chicken +chromosomes (GGA) and reconstructed chromosomes of the avian and amniote +ancestors” “EBRs were found to have a significantly higher density of +repeats”"]] diff --git a/tags/synteny.mdwn b/tags/synteny.mdwn index d9fd0d0f..12f886c3 100644 --- a/tags/synteny.mdwn +++ b/tags/synteny.mdwn @@ -62,7 +62,9 @@ but higher than in plants ([[Li and coll., 2022|biblio/36334587]]). ### Ancestral karyotpyes - - The ancestral mammalian genome has 30 chromosomes ([[Zhou and coll., 2021|biblio/33408411]]). + - The ancestral mammalian genome has 30 chromosomes ([[Zhou and coll., + 2021|biblio/33408411]]), or 19 + X ([[Damas and coll., + 2022|biblio/36161960]]). - The ancestral chordate has 17 chromosomes according to amphioxus assemblies ([[Putnam and coll, 2008|biblio/18563158]], [[Simakov and coll., 2020|biblio/32313176]]).