Fine-scale crossover rate variation on the Caenorhabditis elegans X chromosome

Max R. Bernstein, Matthew Rockman

Research output: Contribution to journalArticle

Abstract

Meiotic recombination creates genotypic diversity within species. Recombination rates vary substantially across taxa, and the distribution of crossovers can differ significantly among populations and between sexes. Crossover locations within species have been found to vary by chromosome and by position within chromosomes, where most crossover events occur in small regions known as recombination hotspots. However, several species appear to lack hotspots despite significant crossover heterogeneity. The nematode Caenorhabditis elegans was previously found to have the least fine-scale variation in crossover distribution among organisms studied to date. It is unclear whether this pattern extends to the X chromosome given its unique compaction through the pachytene stage of meiotic prophase in hermaphrodites. We generated 798 recombinant nested near-isogenic lines (NILs) with crossovers in a 1.41 Mb region on the left arm of the X chromosome to determine if its recombination landscape is similar to that of the autosomes. We find that the fine-scale variation in crossover rate is lower than that of other model species, and is inconsistent with hotspots. The relationship of genomic features to crossover rate is dependent on scale, with GC content, histone modifications, and nucleosome occupancy being negatively associated with crossovers. We also find that the abundances of 4- to 6-bp DNA motifs significantly explain crossover density. These results are consistent with recombination occurring at unevenly distributed sites of open chromatin.

Original languageEnglish (US)
Pages (from-to)1767-1776
Number of pages10
JournalG3: Genes, Genomes, Genetics
Volume6
Issue number6
DOIs
StatePublished - 2016

Fingerprint

Caenorhabditis elegans
X Chromosome
Genetic Recombination
Histone Code
Chromosomes
Pachytene Stage
Prophase
Nucleotide Motifs
Nucleosomes
Base Composition
Chromatin
Population

Keywords

  • C. elegans
  • Crossovers
  • Meiosis
  • Recombination rate variation

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology
  • Genetics(clinical)

Cite this

Fine-scale crossover rate variation on the Caenorhabditis elegans X chromosome. / Bernstein, Max R.; Rockman, Matthew.

In: G3: Genes, Genomes, Genetics, Vol. 6, No. 6, 2016, p. 1767-1776.

Research output: Contribution to journalArticle

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