Population structure and selection signatures over generations in the composite Montana tropical ® DOI Creative Commons
Camila Alves dos Santos, Tiago do Prado Paim, José Bento Sterman Ferraz

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Jan. 17, 2023

Abstract Knowledge of population structure and breed composition is important for managing information within a breeding program. Composite Montana Tropical® was developed by crossing animals four different biological types or racial groups. By using genomic data it possible to conduct several studies selection signatures. Pedigree genotype (51962 SNP) from 3215 were used (1) predict the groups in pedigree how this relates generations composite breed; (2) characterize distribution runs homozygosity (ROH) relation (3) estimate compare inbreeding coefficient (F) based on markers (FROH) (FPED); (4) identify regions islands ROH; (5) related traits each significant region under selection. The (PCA ADMIXTURE) not has strong relationship with number breed. There an increase FROH as equivalent increased. Estimates also showed that generation five onwards, there reduced equal zero. It believed PCA results breed’s genetic improvement program correct interesting alternative replace correction NABC proportions pedigree. study signatures chromosomes 4, 6, 20 26. frequency which observed increased breed, demonstrating really process occurring after formation population. Most these signature present carcass quality QTLs objective developing cattle pasture production systems being achieved at level over

Language: Английский

Genome-wide association study for carcass weight in pasture-finished beef cattle in Hawai’i DOI Creative Commons
Mandeep Adhikari, Michael B. Kantar, Ryan J. Longman

et al.

Frontiers in Genetics, Journal Year: 2023, Volume and Issue: 14

Published: May 9, 2023

Introduction: Genome-wide association studies (GWAS) have identified genetic markers for cattle production and reproduction traits. Several publications reported Single Nucleotide Polymorphisms (SNPs) carcass-related traits in cattle, but these were rarely conducted pasture-finished beef cattle. Hawai'i, however, has a diverse climate, 100% of its are pasture-fed. Methods: Blood samples collected from 400 raised Hawai'i islands at the commercial harvest facility. Genomic DNA was isolated, 352 high-quality genotyped using Neogen GGP Bovine 100 K BeadChip. SNPs that did not meet quality control standards removed PLINK 1.9, 85 k 351 used mapping with carcass weight GAPIT (Version 3.0) R 4.2. Four models GWAS analysis: General Linear Model (GLM), Mixed (MLM), Fixed Random Circulating Probability Unification (FarmCPU), Bayesian-Information Linkage-Disequilibrium Iteratively Nested Keyway (BLINK). Results Discussion: Our results indicated two multi-locus models, FarmCPU BLINK, outperformed single-locus GLM MLM, herds this study. Specifically, five significant FarmCPU, while BLINK each other three. Also, three eleven ("BTA-40510-no-rs", "BovineHD1400006853", "BovineHD2100020346") shared by multiple models. The mapped to genes such as EIF5, RGS20, TCEA1, LYPLA1, MRPL15, which previously be associated traits, growth, feed intake several tropical breeds. This confirms study could candidate pasture-fed can selected further breeding programs improve yield productivity beyond.

Language: Английский

Citations

15
Repeatability of carbon dioxide and methane emissions and oxygen consumption by forage-consuming beef heifers DOI Creative Commons
M. D. MacNeil, Richard C. Waterman

animal, Journal Year: 2025, Volume and Issue: 19(4), P. 101469 - 101469

Published: Feb. 20, 2025

Language: Английский

Citations

0
Selection signatures detection in Nelore, Gir, and Red Sindhi cattle breeds DOI

Maria Victória Henrique Genuíno,

Ayrton Fernandes de Oliveira Bessa,

Ricardo Miguel Gonçalves da Silva

et al.

Mammalian Genome, Journal Year: 2025, Volume and Issue: unknown

Published: April 2, 2025

Language: Английский

Citations

0
Uncovering genomic diversity and signatures of selection in red Angus × Chinese red steppe crossbred cattle population DOI Creative Commons

Elaheh Rostamzadeh Mahdabi,

Rugang Tian, Jing Tian

et al.

Scientific Reports, Journal Year: 2025, Volume and Issue: 15(1)

Published: April 15, 2025

Crossbreeding is a cornerstone of modern livestock improvement, combining desirable traits to enhance productivity and environmental resilience. This study conducts the first comprehensive genomic analysis Red Angus × Chinese Steppe (RACS) crossbred cattle, evaluating their genetic architecture, diversity, selection signatures relative founder breeds (Red Steppe) global populations. A total 119 comprising 104 RACS crossbreds 15 Steppes were genotyped using GGP Bovine 100k SNP array. Additionally, public available genotypic data generated BovineSNP50 chip from 550 animals across eight beef (Angus, Hereford, Limousin, Charolais, Mongolian, Shorthorn, Angus, Simmental) one dairy breed (Holstein) incorporated into analysis. We aimed (1) define population structure (2) quantify diversity inbreeding levels, (3) pinpoint regions under linked adaptive economic traits. employed runs homozygosity (ROH) differentiation (Fst) analyses detect signals. The results revealed that (RACS), exhibited similar clustering patterns in principal component (PCA), but showed highest nucleotide lowest coefficients compared other breeds. Notably, candidate associated with immune response, cold adaptation, carcass identified within population. These findings our understanding makeup cattle highlight potential for informing future breeding strategies at optimizing production challenging environments.

Language: Английский

Citations

0
Genomic diversity of Cameroonian Gudali and Gudali-cross cattle DOI Creative Commons

Youchahou Poutougnigni Matenchi,

Matthew Hegarty

Scientific Reports, Journal Year: 2025, Volume and Issue: 15(1)

Published: April 29, 2025

Abstract Information on population structure and diversity in cattle breeds is critical for understanding environmental adaptation, as well optimal utilisation of genetic resources breed improvement. In this study, we investigated at the genomic level structure, admixture local Gudali its crossbred with Italian Simmental (Simgud) three agroecological zones Cameroon. A total 717 139 Simgud were genotyped using GeneSeek® Genomic Profiler TM (GGP) Bovine 100K array analyzed together reference data from public databases. Principal component (PCA) analysis separated European Bos taurus Asian indicus , African breeds. These analyses showed that, except recently admixed cattle, all indigenous are either pure (N’dama) or admixtures . Analysis revealed an ancient origin a more recent ongoing introgression. unmanaged crossbreed expected to be primarily 50% Simmental. We show here that is, actuality, composed two groups representing between $$\sim$$ 25% proportion. Diversity high average heterozygosity ( $$Ho=0.34\pm 0.14$$ $$He=0.35\pm 0.13$$ ) $$Ho=0.42\pm $$He=0.40\pm 0.11$$ respectively. Inbreeding measures based mean F IS coefficient 0.03 0.07 Simgud. general decline effective size was observed large (N e =2475), 959 generations (4797 years ago), back 13 (65 years) =1404) ago. results expected, given breeding efforts began 1952 introduction various exotic (imported taurine) selection initiative. This has affected Gudali, despite increase ranches over period. highlight need structured program Cameroon improving productivity, while maintaining base population.

Language: Английский

Citations

0
Selective signatures in composite MONTANA TROPICAL beef cattle reveal potential genomic regions for tropical adaptation DOI Creative Commons
Camila Alves dos Santos, Joanir Pereira Eler, E. C. Mattos

et al.

PLoS ONE, Journal Year: 2024, Volume and Issue: 19(4), P. e0301937 - e0301937

Published: April 25, 2024

Genomic regions related to tropical adaptability are of paramount importance for animal breeding nowadays, especially in the context global climate change. Moreover, understanding genomic architecture these may be very relevant aiding programs choosing best selection scheme adaptation and/or implementing a crossbreeding scheme. The composite MONTANA TROPICAL® population was developed by crossing cattle four different biological types improve production harsh environments. Pedigree and genotype data (51962 SNPs) from 3215 were used i) characterize structure; ii) identify signatures with complementary approaches, i.e. Integrated Haplotype Score (iHS) Runs Homozygosity (ROH); iii) understand genes traits each selected region. structure based on principal components had weak relationship genetic contribution types. Clustering analyses (ADMIXTURE) showed clusters according number generations within population. Considering results both we identified only one consensus region chromosome 20 (35399405-40329703 bp). Genes this immune function, regulation epithelial cell differentiation, response ionizing radiation. This harbors slick locus which is hair epidermis anatomy, heat stress adaptation. Also, QTLs feed intake, milk yield, mastitis, reproduction, coat. detected here arose few after between contrasting breeds. Therefore, it shows how important animals thrive conditions. Further investigations sequencing can candidate gene editing tackle challenges

Language: Английский

Citations

2
A comprehensive review of livestock development: insights into domestication, phylogenetics, diversity, and genomic advances DOI

Sonali Sonejita Nayak,

Divya Rajawat,

Karan Jain

et al.

Mammalian Genome, Journal Year: 2024, Volume and Issue: 35(4), P. 577 - 599

Published: Oct. 14, 2024

Language: Английский

Citations

1
Integrating Genomic Selection and a Genome-Wide Association Study to Improve Days Open in Thai Dairy Holstein Cattle: A Comprehensive Genetic Analysis DOI Creative Commons
Akhmad Fathoni, Wuttigrai Boonkum, Vibuntita Chankitisakul

et al.

Animals, Journal Year: 2024, Volume and Issue: 15(1), P. 43 - 43

Published: Dec. 27, 2024

Days open (DO) is a critical economic and reproductive trait that commonly employed in genetic selection. Making improvements using conventional techniques exceedingly challenging. Therefore, new are required to improve the accuracy of selection genomic data. This study examined approaches traditional AIREML single-step (ssGAIREML) assess parameters estimated breeding values while also investigating SNP regions associated with DO identifying candidate genes through genome-wide association (GWAS). The dataset included 59415 records from 36368 Thai–Holstein crossbred cows 882 genotyped animals. were classified according their Holstein proportion (breed group, BG) as follows: BG1 (>93.7% genetics), BG2 (87.5% 93.6% BG3 (<87.5% genetics). was utilized estimate variance components. results this reveal average for BG1, BG2, 97.64, 97.25, 96.23 days, respectively. heritability be 0.02 0.03 ssGAIREML approaches, Depending on dataset, method produced more accurate than method, ranging 40.5 45.6%. highest found top 20% dam dataset. For GWAS, we 12 potential (DYRK1A, CALCR, MIR489, MIR653, SLC36A1, GNA14, GNAQ, TRNAC-GCA, XYLB, ACVR2B, SLC22A14, EXOC2) believed have significant influence days open. In summary, has enhance compared those obtained AIREML. Consequently, it viable alternative transitioning methodologies program dairy cattle Thailand. Moreover, identified can future studies select markers regard cattle.

Language: Английский

Citations

1
Genome-wide association study for primal cut lean traits in Canadian beef cattle DOI

Vipasha Sood,

Argenis Rodas‐González, Tiago S. Valente

et al.

Meat Science, Journal Year: 2023, Volume and Issue: 204, P. 109274 - 109274

Published: July 4, 2023

Language: Английский

Citations

3
The effects of genotype-by-environment interactions on body condition score across three winter supplemental feed environments in a composite beef cattle breed in Montana DOI Creative Commons
Ashley Ling, El Hamidi Hay

Translational Animal Science, Journal Year: 2024, Volume and Issue: 8

Published: Jan. 1, 2024

Abstract Cattle operations in the Northern Great Plains region of United States face extreme cold weather conditions and require nutritional supplementation over winter season order for animals to maintain body condition. In cow–calf operations, condition scores (BCS) measured at calving breeding have been shown be associated with several economically important health fertility traits, so maintenance BCS is both an animal welfare economic concern. A low-to-medium heritability has found when across various production stages, indicating a large environmental influence but sufficient genetic basis selection. The present study evaluated prior (late winter) (early summer) under three environments multitrait linear mixed model. Traits were discretized by correlations between considered reflection evidence genotype-by-environment interactions diet. Winter treatments fed October through April varied range access protein content: 1) feedlot environment approximately 15% crude (CP) corn/silage diet, 2) native rangeland 1.8 kg 18% CP pellet supplement, 3) self-fed 50% mineral supplement. total 2,988 2,353 records collected multiple parities on 1,010 800 individuals prebreeding precalving BCS, respectively. Heifers cows came from composite beef cattle breed developed maintained USDA Fort Keogh Livestock Range Research Laboratory near Miles City, Montana. Genetic 1 2, 3, 2 3 0.98, 0.78, 0.65 1.00, 0.99 This provides moderate treatment relative no BCS. Treatment differed substantially content that some differ their ability up spring gradient. These results indicate potential selection increased resilience high protein, restricted energy diets

Language: Английский

Citations

0