Automated Author Profile

Liu, George E.

United States Department of Agriculture

Current S-Index

2.0

Sum of Dataset Indices for all datasets

Average Dataset Index per Dataset

2.0

Average Dataset Index per dataset

Total Datasets

1

Total datasets for this author

Average FAIR Score

76.9%

Average FAIR Score per dataset

Total Citations

1

Total citations to the author's datasets

Total Mentions

0

Total mentions of the author's datasets

S-Index Interpretation

S-Index Over Time

Cumulative Citations Over Time

Cumulative Mentions Over Time

Datasets

Data from: Cattle sex-specific recombination and genetic control from a large pedigree analysis (Version: 1)

Meiotic recombination is an essential biological process that generates genetic diversity and ensures proper segregation of chromosomes during meiosis. From a large USDA dairy cattle pedigree with over half million genotyped animals, we extracted 186,927 three-generation families, identified over 8.5 million maternal and paternal recombination events, and constructed sex-specific recombination maps for 59,309 autosomal SNPs. The recombination map spans for 25.5 Morgans in males and 23.2 Morgans in females, for a total studied region of 2,516 Mb (986 kb/cM in males and 1,085 kb/cM in females). The male map is 10% longer than the female map and the sex difference is most pronounced in the subtelomeric regions. We identified 1,792 male and 1,885 female putative recombination hotspots, with 720 hotspots shared between sexes. These hotspots encompass 3% of the genome but account for 25% of the genome-wide recombination events in both sexes. Both males and females showed a decreasing trend in recombination rate during the past forty years that coincided with the artificial selection for milk production, with males exhibiting a more striking reduction. Sex-specific GWAS analyses identified PRDM9 and CPLX1 to have significant effects on genome-wide recombination rate in both sexes. Two novel loci, NEK9 and REC114, were associated with recombination rate in both sexes, whereas three loci, MSH4, SMC3 and CEP55, affected recombination rate in females only. Among the multiple PRDM9 paralogues on the bovine genome, our GWAS of recombination hotspot usage together with linkage analysis clearly identified the one on chromosome 1 to be the only PRDM9 paralogue affecting cattle recombination. Given the largest sample size ever reported for such studies, our results reveal new insights into the understanding of cattle and mammalian recombination.

Authors

  • Ma, Li ;
  • O'Connell, Jeffrey R. ;
  • Vanraden, Paul M. ;
  • Shen, Botong ;
  • Padhi, Abinash ;
  • Sun, Chuanyu ;
  • Bickhart, Derek M. ;
  • Cole, John B. ;
  • Null, Daniel J. ;
  • Liu, George E. ;
  • Da, Yang ;
  • Wiggans, George R.
1 Citation0 Mentions77% FAIR2.0 Dataset Index
10.5061/dryad.q2q84September 2016