ArticleGenetics, selection, evolution : GSE2021
The distribution of runs of homozygosity in the genome of river and swamp buffaloes reveals a history of adaptation, migration and crossbred events.
Article in Genetics, selection, evolution : GSE, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Integration of Morphological and Genome-Wide SNP Data Reveals Regional Diversity in Thai Swamp Buffalo.Animals : an open access journal from MDPI · 2026Article
- Runs of homozygosity reveal population dynamics and selection across global cattle.Journal of animal science and biotechnology · 2026Article
- Genome-wide association study identifies significant SNPs for milk production and stature traits in Karan Fries cattle.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- A genome-structure adaptive framework for ROH-based inbreeding estimation in Penaeus vannamei.Scientific reports · 2026Article
- Runs of homozygosity in Italian Holstein bulls: a permutation approach and time-based mapping of the genomic regions potentially under selection.BMC genomics · 2026Article
- Genome-wide assessment of runs of homozygosity and inbreeding in Inner Mongolia cashmere goats reveals candidate genes for economic traits.Frontiers in veterinary science · 2026Article
- Heterogeneity of Variances in Milk Yield in Murrah Buffaloes.Animals : an open access journal from MDPI · 2025Article
- Integrating Genomic Selection and Genome-Wide Association Study to Enhance Reproductive Traits in Thai Swamp Buffalo.Animals : an open access journal from MDPI · 2025Article
- Comparative genomic insights into adaptation, selection signatures, and population dynamics in indigenous Indian sheep and foreign breeds.Frontiers in genetics · 2025Article
- Article
- Analysis of Runs of Homozygosity in Aberdeen Angus Cattle.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 comparative analysis reveals the genomic diversity among 8 Muscovy duck populations.G3 (Bethesda, Md.) · 2024Article
- Article
- Effect of genotyping density on the detection of runs of homozygosity and heterozygosity in cattle.Journal of animal science · 2024Article
- Analysis of runs of homozygosity of cattle living in different climate zones.Journal of animal science · 2023Article
- Relationship between inbreeding and milk production traits in two Italian dairy sheep breeds.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2023Article
- Article
- Genetic Diversity and Selection Signatures in Jianchang Black Goats Revealed by Whole-Genome Sequencing Data.Animals : an open access journal from MDPI · 2022Article
- Runs of Homozygosity and Quantitative Trait Locus/Association for Semen Parameters in Selected Chinese and South African Beef Cattle.Animals : an open access journal from MDPI · 2022Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWater buffalo is one of the most important livestock species in the world. Two types of water buffalo exist: river buffalo (Bubalus bubalis bubalis) and swamp buffalo (Bubalus bubalis carabanensis). The buffalo genome has been recently sequenced, and thus a new 90 K single nucleotide polymorphism (SNP) bead chip has been developed. In this study, we investigated the genomic population structure and the level of inbreeding of 185 river and 153 swamp buffaloes using runs of homozygosity (ROH). Analyses were carried out jointly and separately for the two buffalo types.
resultsThe SNP bead chip detected in swamp about one-third of the SNPs identified in the river type. In total, 18,116 ROH were detected in the combined data set (17,784 SNPs), and 16,251 of these were unique. ROH were present in both buffalo types mostly detected (~ 59%) in swamp buffalo. The number of ROH per animal was larger and genomic inbreeding was higher in swamp than river buffalo. In the separated datasets (46,891 and 17,690 SNPs for river and swamp type, respectively), 19,760 and 10,581 ROH were found in river and swamp, respectively. The genes that map to the ROH islands are associated with the adaptation to the environment, fitness traits and reproduction.
conclusionsAnalysis of ROH features in the genome of the two water buffalo types allowed their genomic characterization and highlighted differences between buffalo types and between breeds. A large ROH island on chromosome 2 was shared between river and swamp buffaloes and contained genes that are involved in environmental adaptation and reproduction.
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