Limits...
Crossing-over in a hypervariable species preferentially occurs in regions of high local similarity.

Seplyarskiy VB, Logacheva MD, Penin AA, Baranova MA, Leushkin EV, Demidenko NV, Klepikova AV, Kondrashov FA, Kondrashov AS, James TY - Mol. Biol. Evol. (2014)

Bottom Line: Furthermore, CO events preferentially occurred in regions under stronger negative selection, in particular within exons that showed reduced levels of nucleotide diversity.Apparently, in hypervariable species CO must avoid regions of higher divergence between the recombining genomes due to limitations imposed by the mismatch repair system, with regions under strong negative selection providing the opportunity for recombination.These patterns are opposite to those observed in a number of less variable species indicating that population genomics of hypervariable species may reveal novel biological phenomena.

View Article: PubMed Central - PubMed

Affiliation: School of Bioengineering and Bioinformatics, Moscow State University, Moscow, Russia Institute of Information Transmission Problems, Russian Academy of Sciences, Moscow, Russia pamjat@mail.ru.

Show MeSH

Related in: MedlinePlus

Low LD near COs. Values of LD for (A) ten Russian individuals and (B) for ten US individuals. Red dots correspond to pairs of SNPs separated by the middle of a COR, and green dots correspond to pairs of SNPs located 10,000 nt away from a COR. Parental sequences were not included in these analyses.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4209137&req=5

msu242-F7: Low LD near COs. Values of LD for (A) ten Russian individuals and (B) for ten US individuals. Red dots correspond to pairs of SNPs separated by the middle of a COR, and green dots correspond to pairs of SNPs located 10,000 nt away from a COR. Parental sequences were not included in these analyses.

Mentions: In both the US and the Russian populations, LD between pairs of SNPs at opposite sides of a CO is markedly reduced (fig. 7). Indeed, LD for close SNPs not separated by CO is high, and disappears only when the distance between such SNPs exceeds ≈1,000 nt. By contrast, LD is low even for very close SNPs separated by a CO. This effect indicates that recombination is frequent between most SNPs associated with COs and, thus, that COs mostly occurred at recombination hotspots. Higher LD in the Russian population, together with its lower nucleotide diversity, indicates that this population has a lower population effective size than the US population, consistent with earlier estimates of global population structure and diversity (James et al. 2001).Fig. 7.


Crossing-over in a hypervariable species preferentially occurs in regions of high local similarity.

Seplyarskiy VB, Logacheva MD, Penin AA, Baranova MA, Leushkin EV, Demidenko NV, Klepikova AV, Kondrashov FA, Kondrashov AS, James TY - Mol. Biol. Evol. (2014)

Low LD near COs. Values of LD for (A) ten Russian individuals and (B) for ten US individuals. Red dots correspond to pairs of SNPs separated by the middle of a COR, and green dots correspond to pairs of SNPs located 10,000 nt away from a COR. Parental sequences were not included in these analyses.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4209137&req=5

msu242-F7: Low LD near COs. Values of LD for (A) ten Russian individuals and (B) for ten US individuals. Red dots correspond to pairs of SNPs separated by the middle of a COR, and green dots correspond to pairs of SNPs located 10,000 nt away from a COR. Parental sequences were not included in these analyses.
Mentions: In both the US and the Russian populations, LD between pairs of SNPs at opposite sides of a CO is markedly reduced (fig. 7). Indeed, LD for close SNPs not separated by CO is high, and disappears only when the distance between such SNPs exceeds ≈1,000 nt. By contrast, LD is low even for very close SNPs separated by a CO. This effect indicates that recombination is frequent between most SNPs associated with COs and, thus, that COs mostly occurred at recombination hotspots. Higher LD in the Russian population, together with its lower nucleotide diversity, indicates that this population has a lower population effective size than the US population, consistent with earlier estimates of global population structure and diversity (James et al. 2001).Fig. 7.

Bottom Line: Furthermore, CO events preferentially occurred in regions under stronger negative selection, in particular within exons that showed reduced levels of nucleotide diversity.Apparently, in hypervariable species CO must avoid regions of higher divergence between the recombining genomes due to limitations imposed by the mismatch repair system, with regions under strong negative selection providing the opportunity for recombination.These patterns are opposite to those observed in a number of less variable species indicating that population genomics of hypervariable species may reveal novel biological phenomena.

View Article: PubMed Central - PubMed

Affiliation: School of Bioengineering and Bioinformatics, Moscow State University, Moscow, Russia Institute of Information Transmission Problems, Russian Academy of Sciences, Moscow, Russia pamjat@mail.ru.

Show MeSH
Related in: MedlinePlus