Genomic correlates of recombination rate and its variability across eight recombination maps in the western honey bee (Apis mellifera L.)

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• 作者：Caitlin R Ross (1)
  Dominick S DeFelice (2)
  Greg J Hunt (3)
  Kate E Ihle (4)
  Gro V Amdam (4) (5)
  Olav Rueppell (2)
  
  1. Department of Computer Sciences ; The University of North Carolina at Greensboro ; Greensboro ; NC ; 27402 ; USA
  2. Department of Biology ; 312 Eberhart Building ; The University of North Carolina at Greensboro ; 321 McIver Street ; Greensboro ; NC ; 27402 ; USA
  3. Department of Entomology ; Purdue University ; West Lafayette ; IN ; 47907 ; USA
  4. School of Life Sciences ; Arizona State University ; Tempe ; AZ ; 85287 ; USA
  5. Department of Chemistry ; Biotechnology and Food Science ; Norwegian University of Life Sciences ; 1432 ; Aas ; Norway
  
• 关键词：Meiotic recombination ; Genome evolution ; Red queen hypothesis ; Hotspots ; GC content ; Sociality ; Comparative genomics
• 刊名：BMC Genomics
• 出版年：2015
• 出版时间：December 2015
• 年：2015
• 卷：16
• 期：1
• 全文大小：1,842 KB
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• 刊物主题：Life Sciences, general; Microarrays; Proteomics; Animal Genetics and Genomics; Microbial Genetics and Genomics; Plant Genetics & Genomics;
• 出版者：BioMed Central
• ISSN：1471-2164

文摘

Background Meiotic recombination has traditionally been explained based on the structural requirement to stabilize homologous chromosome pairs to ensure their proper meiotic segregation. Competing hypotheses seek to explain the emerging findings of significant heterogeneity in recombination rates within and between genomes, but intraspecific comparisons of genome-wide recombination patterns are rare. The honey bee (Apis mellifera) exhibits the highest rate of genomic recombination among multicellular animals with about five cross-over events per chromatid. Results Here, we present a comparative analysis of recombination rates across eight genetic linkage maps of the honey bee genome to investigate which genomic sequence features are correlated with recombination rate and with its variation across the eight data sets, ranging in average marker spacing ranging from 1 Mbp to 120 kbp. Overall, we found that GC content explained best the variation in local recombination rate along chromosomes at the analyzed 100 kbp scale. In contrast, variation among the different maps was correlated to the abundance of microsatellites and several specific tri- and tetra-nucleotides. Conclusions The combined evidence from eight medium-scale recombination maps of the honey bee genome suggests that recombination rate variation in this highly recombining genome might be due to the DNA configuration instead of distinct sequence motifs. However, more fine-scale analyses are needed. The empirical basis of eight differing genetic maps allowed for robust conclusions about the correlates of the local recombination rates and enabled the study of the relation between DNA features and variability in local recombination rates, which is particularly relevant in the honey bee genome with its exceptionally high recombination rate.