Molecular Diversity of the Casein Gene Cluster in Bovidae: Insights from SNP Microarray Analysis DOI Creative Commons
Tadeusz Malewski, Stanisław Kamiński, J Smiełowski

и другие.

Animals, Год журнала: 2024, Номер 14(20), С. 3034 - 3034

Опубликована: Окт. 19, 2024

The casein gene cluster spans 250 to 350 kb across mammalian species and is flanked by non-coding DNA with largely unknown functions. These regions likely harbor elements regulating the expression of 4 genes. In Bovidae, this well studied in domestic cattle a lesser extent zebu water buffalo. This study used cattle-specific SNP microarray analyze 12 Bovidae taxa estimate variability 5 bovid subfamilies. Genotyping identified 126 SNPs covering entire 2 Mb upstream downstream regions. Dairy cattle, watusi, showed highest polymorphism: 63.7–68.2% 5′-upstream region, 35.6–40.0% cluster, 40.4–89.4% 3′-downstream region. Among wild bovids, only ‘semi-aquatic’ lechwe revealed high polymorphism similar cattle. Other exhibited lower variability, ranging from 9.1–27.3% 5′-upstream, 8.9–20.0% casein, 4.2–10.6% For first time, genome data were obtained for impala, waterbuck, lechwe. It appears that higher cattle’s may relate its intense expression. confirms effectiveness cattle-derived microarrays genotyping Bovidae.

Язык: Английский

Genome-wide study for signatures of selection identifies genomic regions and candidate genes associated with milk traits in sheep DOI
Fatemeh Ebrahimi, Mohsen Gholizadeh,

Hamid Sahebalam

и другие.

Mammalian Genome, Год журнала: 2025, Номер 36(1), С. 140 - 150

Опубликована: Фев. 4, 2025

Язык: Английский

Процитировано

0
Analysis of Population Structure and Selective Signatures for Milk Production Traits in Xinjiang Brown Cattle and Chinese Simmental Cattle DOI Open Access
Ke Ma, Xue Li, Shengchao Ma

и другие.

International Journal of Molecular Sciences, Год журнала: 2025, Номер 26(5), С. 2003 - 2003

Опубликована: Фев. 25, 2025

This study aims to elucidate the population structure and genetic diversity of Xinjiang brown cattle (XJBC) Chinese Simmental (CSC) while conducting genome-wide selective signatures analyses identify selected genes associated with milk production traits in both breeds. Based on whole-genome resequencing technology, single nucleotide polymorphisms (SNPs) 83 80 were detected resolve two populations, elimination analysis was performed for breeds using fixation index (Fst) (θπ ratio), enrichment explore their biological functions further. Both exhibited relatively rich diversity, demonstrating higher than cattle. The IBS G matrix results indicated that most individuals populations farther apart from each other. PCA neighbor-joining tree revealed no hybridization between breeds, but there a certain degree differences among Population optimal number ancestors three when K = 3. resulted clear differentiation only few having one ancestor majority or common ancestors. A combined Fst θπ used screen 112 candidate related SNP markers reveal structure, selection characteristics also screened traits, providing theoretical basis conserving resources improving

Язык: Английский

Процитировано

0
Genome-wide insights into selection signatures for transcription factor binding sites in cattle ROH regions DOI

Sonali Sonejita Nayak,

Manjit Panigrahi, Triveni Dutt

и другие.

Mammalian Genome, Год журнала: 2025, Номер unknown

Опубликована: Фев. 21, 2025

Язык: Английский

Процитировано

0
Genetic parameters for somatic cell score, differential somatic cell count, and milk electrical conductivity in dairy buffaloes DOI Creative Commons
Johanna Ramírez-Díaz, Tania Bobbo, Roberta Matera

и другие.

Italian Journal of Animal Science, Год журнала: 2025, Номер 24(1), С. 905 - 909

Опубликована: Апрель 4, 2025

Язык: Английский

Процитировано

0
Rethinking River Buffalo Domestication Through the Lens of Population Genetics Tools: Mehsana Buffalo Is a Unique Population DOI

Rangasai Chandra Goli,

Kiyevi G Chishi,

Karan Mahar

и другие.

OMICS A Journal of Integrative Biology, Год журнала: 2025, Номер unknown

Опубликована: Апрель 15, 2025

Riverine buffalo domestication likely occurred around 6300 years ago in Northwestern India. Murrah and Surti are important breeds that originated this region the gene flow from these buffaloes to Mehsana has long been proposed. However, extent which ancestry diffused across not investigated thoroughly. Therefore, we global local of Indian using double digest restriction-site associated DNA sequencing data. Principal component analysis, admixture dating, three population tests revealed with statistical significance is a unique population. Hence, hypothesis crossbreed between supported by findings. noticed some individuals Mehsana, 6 out 15, were admixed having 41% Murrah-specific 11% Surti-specific ancestry. Local post-admixture selection signatures (PASS) PASS genome, is, on Bubalus bubalis autosomes (BBA), 1-23 linked BBA, 24 Murrah. Interestingly, upon functional enrichment signatures, several adaptation-related genes pathways ascertained Surti, while Murrah-derived regions featured involved fatty acid synthesis (Acyl-CoA Synthetase Short-Chain Family Member 2 (ACSS2)) milk production. Based infer introgression genome into happened recent times ancient generations. The finding an independent highlights importance recognizing distinct genetic lineages domesticated species. This implications for reevaluating origins uniqueness other livestock often assumed be hybrids. Practically, findings open up new avenues selective breeding preserve traits such as disease resistance, adaptability, production efficiency. Further studies larger samples called for.

Язык: Английский

Процитировано

0
Genome-wide association studies for milk production traits and persistency of first calving Holstein cattle in Türkiye DOI Creative Commons
Metin Erdoğan, Samet Çinkaya, Bertram Brenig

и другие.

Frontiers in Veterinary Science, Год журнала: 2024, Номер 11

Опубликована: Окт. 24, 2024

The study presents a comprehensive investigation into the genetic determinants of 100-day milk yield (100DMY), 305-day (305DMY), total (TMY), and persistency using first lactation records 374 Holstein heifers reared in private farm at Çanakkale province Türkiye, employing genome-wide association (GWAS) approach. research underscores substantial component underlying these economically important traits through detailed descriptive statistics heritability estimations. estimated moderate to high heritabilities (0.32-0.54) for production suggest feasibility targeted improvement strategies. By leveraging GWAS, identifies many significant suggestively single nucleotide polymorphisms (SNP) associated with studied traits. Noteworthy genes have identified this analysis include BCAS3, MALRD1, CTNND2, DOCK1, TMEM132C, NRP1, CNTNAP2, GPRIN2, PLEKHA5, GLRA1, SCN7A, HHEX, KTM2C, RAB40C, RAB11FIP3, FXYD6. These findings provide valuable understandings background cattle, shedding light on specific genomic regions candidate playing pivotal roles This contributes knowledge field dairy cattle genetics informs future breeding efforts improve sustainability efficiency populations.

Язык: Английский

Процитировано

3
West African cattle share non-random heterozygosity-rich region islands enriched on adaptation-related genes despite their different origins DOI Creative Commons
Katherine D. Arias, I. Fernández, Amadou Traoré

и другие.

Frontiers in Animal Science, Год журнала: 2024, Номер 5

Опубликована: Ноя. 19, 2024

Methods Up to 237 individuals belonging 10 different taurine ( Bos taurus ), zebu B. indicus and × sanga cattle populations sampled in Benin, Burkina Faso, Niger were typed using the BovineHD BeadChip of Illumina ascertain patterns importance heterozygosity-rich regions (HRRs) West African cattle. To account for among-population gene flow, further classified into three groups (Qtaurine, Qzebu, admixed) according maximum likelihood estimates individual ancestries q^ ) obtained program Admixture v1.23. Results discussion The 967 HRRs identified on 27 out 29 bovine chromosomes 231 summarized 103 HRR islands, covering 40.7 Mb genome. Only islands at least 10% animals or type admixture class considered relevant characterize genomic background. one taurine- zebu-specific, respectively. Most (14) present despite which they (waHRR), suggesting that can give advantages adaptation harsh environments. A total 202 potential candidate genes 14 waHRR islands. them belonged families coding zinc finger, protocadherin, adhesion G protein-coupled receptors, solute carrier, arachidonate lipoxygenase proteins, involved immune response, with a putative role adaptation. Furthermore, waHRRs also enriched 18 11 olfactory receptors pregnancy-associated glycoproteins, respectively, giving additional support suggested adaptive ability Our research new areas be targeted ability.

Язык: Английский

Процитировано

2
Unknown parent groups and truncated pedigree in single-step genomic evaluations of Murrah buffaloes DOI Creative Commons
Teresa Pinho e Melo,

A.K. Zwirtes,

A.A. Silva

и другие.

Journal of Dairy Science, Год журнала: 2024, Номер unknown

Опубликована: Май 1, 2024

Missing pedigree may produce bias in genomic evaluations. Thus, strategies to deal with this problem have been proposed as using unknown parent groups (UPG) or truncated pedigrees. The aim of study was investigate the impact modeling missing under ssGBLUP evaluations for productive and reproductive traits dairy buffalos different approaches: 1) traditional BLUP without UPG (BLUP), 2) including (BLUP/UPG), 3) (ssGBLUP), 4) A A22 matrices (ssGBLUP/A_UPG), 5) all elements H matrix (ssGBLUP/H_UPG), 6) truncation last 3 generations (BLUP/truncated), 7) (ssGBLUP/ truncated). UPGs were not used scenarios pedigree. total 3,717, 4,126 3,823 records first lactation accumulated 305 d milk yield (MY), age at calving (AFC) length (LL), respectively used. Accuracies ranged from 0.27 LL (BLUP) 0.46 MY −0.62 (ssGBLUP) 0.0002 AFC dispersion 0.88 (BLUP/ A_UPG) 1.13 (BLUP). Genetic trend showed genetic gains across 20 years selection either information, GEBV accuracies among evaluated traits. Overall, methods UPGs, information exhibited potential improve accuracies, compared other methods. Truncated promoted high gains. In small populations few genotyped animals, combining is a feasible approach

Язык: Английский

Процитировано

0
Mitochondrial DNA D-loop SNPs unveil molecular signatures of milk production variation in Murrah buffalo DOI

A. N. Ampadi,

E. M. Sadeesh,

Madhuri S. Lahamge

и другие.

Molecular Biology Reports, Год журнала: 2024, Номер 51(1)

Опубликована: Авг. 10, 2024

Язык: Английский

Процитировано

0
Molecular Diversity of the Casein Gene Cluster in Bovidae: Insights from SNP Microarray Analysis DOI Creative Commons
Tadeusz Malewski, Stanisław Kamiński, J Smiełowski

и другие.

Animals, Год журнала: 2024, Номер 14(20), С. 3034 - 3034

Опубликована: Окт. 19, 2024

The casein gene cluster spans 250 to 350 kb across mammalian species and is flanked by non-coding DNA with largely unknown functions. These regions likely harbor elements regulating the expression of 4 genes. In Bovidae, this well studied in domestic cattle a lesser extent zebu water buffalo. This study used cattle-specific SNP microarray analyze 12 Bovidae taxa estimate variability 5 bovid subfamilies. Genotyping identified 126 SNPs covering entire 2 Mb upstream downstream regions. Dairy cattle, watusi, showed highest polymorphism: 63.7–68.2% 5′-upstream region, 35.6–40.0% cluster, 40.4–89.4% 3′-downstream region. Among wild bovids, only ‘semi-aquatic’ lechwe revealed high polymorphism similar cattle. Other exhibited lower variability, ranging from 9.1–27.3% 5′-upstream, 8.9–20.0% casein, 4.2–10.6% For first time, genome data were obtained for impala, waterbuck, lechwe. It appears that higher cattle’s may relate its intense expression. confirms effectiveness cattle-derived microarrays genotyping Bovidae.

Язык: Английский

Процитировано

0