ArticleScientific reports2020
Patterns of DNA variation between the autosomes, the X chromosome and the Y chromosome in Bos taurus genome.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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5 citing papers in PubMed.
- Cross-species comparative transcriptomic analysis of spermatozoa reveals species-specific regulatory networks linked to fertilization-associated genes in cattle, sheep and goats.Science China. Life sciences · 2026Article
- Runs of homozygosity analysis and genomic inbreeding estimation in Sumba Ongole cattle (Veterinary world · 2024Article
- Whole genome sequences of 70 indigenous Ethiopian cattle.Scientific data · 2024Article
- Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local LatvianAnimals : an open access journal from MDPI · 2023Article
- The Role of microRNAs in the Mammary Gland Development, Health, and Function of Cattle, Goats, and Sheep.Non-coding RNA · 2021Review
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3 authors.
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Abstract
The new ARS-UCD1.2 assembly of the bovine genome has considerable improvements over the previous assembly and thus more accurate identification of patterns of genetic variation can be achieved with it. We explored differences in genetic variation between autosomes, the X chromosome, and the Y chromosome. In particular, variant densities, annotations, lengths (only for InDels), nucleotide divergence, and Tajima's D statistics between chromosomes were considered. Whole-genome DNA sequences of 217 individuals representing different cattle breeds were examined. The analysis included the alignment to the new reference genome and variant identification. 23,655,295 SNPs and 3,758,781 InDels were detected. In contrast to autosomes, both sex chromosomes had negative values of Tajima's D and lower nucleotide divergence. That implies a correlation between nucleotide diversity and recombination rate, which is obviously reduced for sex chromosomes. Moreover, the accumulation of nonsynonymous mutations on the Y chromosome could be associated with loss of recombination. Also, the relatively lower effective population size for sex chromosomes leads to a lower expected density of variants.
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