ArticleBMC genomics2020
Genome-wide detection of signatures of selection in indicine and Brazilian locally adapted taurine cattle breeds using whole-genome re-sequencing data.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Genomic Characterization of Crossbred-Driven Adaptation in the Endangered Yangba Cattle of China.Animals : an open access journal from MDPI · 2025Article
- Resequencing Composite Kazakh Whiteheaded Cattle: Insights into Ancestral Breed Contributions, Selection Signatures, and Candidate Genetic Variants.Animals : an open access journal from MDPI · 2025Article
- The Evolution and Role of Molecular Tools in Measuring Diversity and Genomic Selection in Livestock Populations (Traditional and Up-to-Date Insights): A Comprehensive Exploration.Veterinary sciences · 2024Review
- Genomic Insights and Conservation Priorities for Kongshan Cattle: A Whole-Genome Resequencing Approach.Animals : an open access journal from MDPI · 2024Article
- Identification of consensus homozygous regions and their associations with growth and feed efficiency traits in American mink.BMC genomic data · 2024Article
- A Pilot Detection and Associate Study of Gene Presence-Absence Variation in Holstein Cattle.Animals : an open access journal from MDPI · 2024Article
- Runs of homozygosity and selection signature analyses reveal putative genomic regions for artificial selection in layer breeding.BMC genomics · 2024Article
- Genomic insights into adaptation and inbreeding among Sub-Saharan African cattle from pastoral and agropastoral systems.Frontiers in genetics · 2024Article
- Analysis of runs of homozygosity of cattle living in different climate zones.Journal of animal science · 2023Article
- Assessing genomic diversity and signatures of selection in Pinan cattle using whole-genome sequencing data.BMC genomics · 2022Article
- Identification of selection signatures in Iranian dromedary and Bactrian camels using whole genome sequencing data.Scientific reports · 2022Article
- How imputation can mitigate SNP ascertainment Bias.BMC genomics · 2021Article
- The distribution of runs of homozygosity in the genome of river and swamp buffaloes reveals a history of adaptation, migration and crossbred events.Genetics, selection, evolution : GSE · 2021Article
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10 authors.
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Abstract
backgroundThe cattle introduced by European conquerors during the Brazilian colonization period were exposed to a process of natural selection in different types of biomes throughout the country, leading to the development of locally adapted cattle breeds. In this study, whole-genome re-sequencing data from indicine and Brazilian locally adapted taurine cattle breeds were used to detect genomic regions under selective pressure. Within-population and cross-population statistics were combined separately in a single score using the de-correlated composite of multiple signals (DCMS) method. Putative sweep regions were revealed by assessing the top 1% of the empirical distribution generated by the DCMS statistics.
resultsA total of 33,328,447 biallelic SNPs with an average read depth of 12.4X passed the hard filtering process and were used to access putative sweep regions. Admixture has occurred in some locally adapted taurine populations due to the introgression of exotic breeds. The genomic inbreeding coefficient based on runs of homozygosity (ROH) concurred with the populations' historical background. Signatures of selection retrieved from the DCMS statistics provided a comprehensive set of putative candidate genes and revealed QTLs disclosing cattle production traits and adaptation to the challenging environments. Additionally, several candidate regions overlapped with previous regions under selection described in the literature for other cattle breeds.
conclusionThe current study reported putative sweep regions that can provide important insights to better understand the selective forces shaping the genome of the indicine and Brazilian locally adapted taurine cattle breeds. Such regions likely harbor traces of natural selection pressures by which these populations have been exposed and may elucidate footprints for adaptation to the challenging climatic conditions.
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