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The repetitive DNA landscape in sheep

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conference contribution
posted on 2018-04-23, 09:07 authored by Sarbast Mustafa, Trude Schwarzacher, J. S. (Pat) Heslop-Harrison
Repetitive DNA sequences, representing the majority of most mammalian genomes, can be broadly divided into tandemly repeated or satellite sequences (mostly located in the heterochromatin) and transposable elements (TEs) dispersed over the genome. Some repetitive DNA sequences are highly conserved but other sequences show substantial diversification in copy number, sequence and organization between individuals, breeds, and related species. Here, we report the repetitive DNA landscape of sheep (Ovis aries) based on de novo analysis of >6Gbp of sequence from each of five individuals. Major classes of repetitive DNA sequences were identified and quantified by network analysis (using the program RepeatExplorer), frequency analysis of short motifs (K-mers), and alignment to reference genome assemblies. The genomic organization of the major repetitive motifs was characterized by in situ hybridization to chromosomes. The well-known c. 816 bplong centromere-associated satellite SatI represented 4 to 6 % of the genome while SatII (c. 600 bp long) was 1 to 2 % of the genome. Notably, these satellites showed contrasting behaviour at meiotic prophase: Sat I sequences cover a larger area indicating a looser chromatin loop organization. While, Sat II sequences are tightly organized and are attached to the synaptonemal complex (SC) at a more distal position than SatI sequences at the end of SCs of acrocentric chromosomes. The repetitive sequence analysis identified other much less abundant satellite sequences and simple repeats, some with novel genomic distributions. Families of non-LTR retrotransposons including LINEs (L1 and RTE) and derived SINEs represented more than 25 % of the genome. Non-LTR families showed characteristic distributions on chromosomes with some showing greater abundance on metacentric autosomes or on sex chromosomes. Endogenous retrovirus classes grouped into clusters with some families showing centromeric and others more dispersed distributions. Rapidly evolving repetitive sequences allow us to study processes of chromosome or genome evolution and diversification in sheep, and more broadly across the Bovidae.

History

Citation

Chromosome Research, 2016, 24, pp. S39-S39 (1)

Author affiliation

/Organisation/COLLEGE OF LIFE SCIENCES/Biological Sciences/Genetics and Genome Biology

Source

22nd International Colloquium on Animal Cytogenetics and Genomics, Toulouse, FRANCE

Version

  • AO (Author's Original)

Published in

Chromosome Research

Publisher

Springer Verlag (Germany)

issn

0967-3849

eissn

1573-6849

Copyright date

2016

Available date

2018-04-23

Publisher version

https://link.springer.com/article/10.1007/s10577-016-9532-x

Notes

This is an abstract only.

Temporal coverage: start date

2016-07-02

Temporal coverage: end date

2016-07-05

Language

en

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