From 071f4b0abee3af75e41d3368a8000ab2a4fd9552 Mon Sep 17 00:00:00 2001 From: Charles Plessy Date: Tue, 29 Jul 2025 15:57:58 +0900 Subject: [PATCH] Rhum raisin --- biblio/40327505.mdwn | 10 ++++++++++ tags/variants.mdwn | 4 ++++ 2 files changed, 14 insertions(+) create mode 100644 biblio/40327505.mdwn diff --git a/biblio/40327505.mdwn b/biblio/40327505.mdwn new file mode 100644 index 00000000..3c6efd1a --- /dev/null +++ b/biblio/40327505.mdwn @@ -0,0 +1,10 @@ +[[!meta title="How repeats rearrange chromosomes: The molecular basis of chromosomal inversions in deer mice."]] +[[!tag mouse variants]] + +Gozashti L, Harringmeyer OS, Hoekstra HE. + +Cell Rep. 2025 May 27;44(5):115644. doi:10.1016/j.celrep.2025.115644 + +How repeats rearrange chromosomes: The molecular basis of chromosomal inversions in deer mice. + +[[!pmid 40327505 desc="Centromeres based on repeat analysis and methylation calls of PacBio HiFi data. “at least 14 [inversions] are likely pericentric [...] based on our predicted centromere locations” “[we] found examples of independently derived inversions sharing the same breakpoint (within 10 kb)”. “We found no evidence for the overrepresentation of LINE or SINE retrotransposons at the breakpoints of megabase-scale inversions [... where we observed ...] a 4-fold increase in SD occupancy with respect to random expectations.” “We also observed a strong enrichment of PMSat at the breakpoints of large inversions”. “the inversion breakpoints often coincide with contig boundaries from the initial hifi-asm contig-level assemblies”. “highly similar LINE copies [occupy] >1% of the deer mouse genome”. “9 [large] inversions had PMSat arrays at both breakpoints in at least one of the ancestral or derived haplotypes”"]] diff --git a/tags/variants.mdwn b/tags/variants.mdwn index c280fbe4..4b204848 100644 --- a/tags/variants.mdwn +++ b/tags/variants.mdwn @@ -91,6 +91,10 @@ on sister chromatids in G2 phase. recombination between X and Y chromosomes was low despite the absence of large-scale inversions. +In deer mice, [[Gozashti, Harringmeyer and Hoekstra, 2025|biblio/40327505]] +propose that megabase-scale inversions are caused by structural duplications, +some of which being centromere-like repeats (possible ancient centromeres). + ## Indels Indel-seq ([[Min and coll., 2023|biblio/37402370]]) shows insertions at -- 2.47.3