Global dispersal and adaptive evolution of domestic cattle: a genomic perspective

Xia, Xiaoting; Qu, Kaixing; Sinding, Mikkel‐Holger S.; Wang, Fuwen; Hanif, Quratulain; Ahmed, Zulfiqar; Lenstra, Johannes A.; Han, Jianlin; Lei, Chuzhao; Chen, Ningbo

doi:10.1007/s44154-023-00085-2

Cited by 14 publications

(6 citation statements)

References 106 publications

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“…Through long‐term adaptation to diverse environments, local breeds have developed unique adaptive traits that enhance their resilience to challenging conditions (Cao et al., 2021; Li et al., 2023; Xia, Qu, et al., 2023). Our study compared Anxi cattle with other breeds to identify specific genomic signatures of selection unique to the Anxi breed.…”

Section: Discussionmentioning

confidence: 99%

“…Due to the substantial contributions of cattle, they were rapidly disseminated to various parts of the globe in tandem with human migratory patterns and trade routes. Previous studies have shown that indigenous cattle have distinct local characteristics and can adapt to diverse environments, including hot, cold, and humid climates and highaltitude regions (Chen et al, 2023;Kim et al, 2020;Xia, Qu, et al, 2023;Xia, Zhang, et al, 2023).…”

Section: Introductionmentioning

confidence: 99%

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Genomic characterization of dryland adaptation in endangered Anxi cattle in China

Lyu,

Yao,

Chen

et al. 2024

Animal Genetics

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Local species exhibit distinctive indigenous characteristics while showing unique productive and phenotypic traits. However, the advent of commercialization has posed a substantial threat to the survival of indigenous species. Anxi cattle, an endangered native breed in China, have evolved unique growth and reproductive characteristics in extreme desert and semidesert ecosystems. In this study, we conducted a genomic comparison of 10 Anxi cattle genomes with those of five other global populations/breeds to assess genetic diversity and identify candidate genomic regions in Anxi cattle. Population structure and genetic diversity analyses revealed that Anxi cattle are part of the East Asian cattle clade, exhibiting higher genetic diversity than commercial breeds. Through selective sweep analysis, we identified specific genetic variations linked to the environmental adaptability of Anxi cattle. Notably, we identified several candidate genes, including CERS3 involved in regulating skin permeability and antimicrobial functions, RBFOX2 associated with cardiac development, SLC16A7 participated in the regulation of pancreatic endocrine function, and SPATA3 related to reproduction. Our findings revealed the distinctive genomic features of Anxi cattle in dryland environments, provided invaluable insights for further research and breed preservation, and had important significance for enriching the domestic cattle breeding gene bank.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genomic characterization of dryland adaptation in endangered Anxi cattle in China

Lyu,

Yao,

Chen

et al. 2024

Animal Genetics

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“…This variability can lead to differences in fat deposition and meat quality traits among individual animals (Ladeira et al., 2016b). Breed differences in cattle lead to differences in transcriptional profiles that affect the animals' physiological responses, productivity attributes and environmental adaptability (Naskar et al., 2012; Terry et al., 2020; Xia et al., 2023). Genetic diversity and selection forces drive transcriptional changes in many cattle breeds.…”

Section: Transcriptomic Profiling Of Adipose Tissuesmentioning

confidence: 99%

“…Genetic diversity and selection forces drive transcriptional changes in many cattle breeds. Because each bovine breed has a unique transcriptional profile, different cattle breeds exhibit variances in growth rates and muscle development (Tian et al., 2023; Xia et al., 2023). For instance, compared to slower‐growing breeds, breeds bred for rapid growth rates, like the Limousin, have differential expression of genes related to muscle development and hypertrophy.…”

Section: Transcriptomic Profiling Of Adipose Tissuesmentioning

confidence: 99%

A review of the role of transcription factors in regulating adipogenesis and lipogenesis in beef cattle

Abebe,

Wang,

et al. 2023

J Animal Breeding Genetics

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In the past few decades, genomic selection and other refined strategies have been used to increase the growth rate and lean meat production of beef cattle. Nevertheless, the fast growth rates of cattle breeds are often accompanied by a reduction in intramuscular fat (IMF) deposition, impairing meat quality. Transcription factors play vital roles in regulating adipogenesis and lipogenesis in beef cattle. Meanwhile, understanding the role of transcription factors in regulating adipogenesis and lipogenesis in beef cattle has gained significant attention to increase IMF deposition and meat quality. Therefore, the aim of this paper was to provide a comprehensive summary and valuable insight into the complex role of transcription factors in adipogenesis and lipogenesis in beef cattle. This review summarizes the contemporary studies in transcription factors in adipogenesis and lipogenesis, genome‐wide analysis of transcription factors, epigenetic regulation of transcription factors, nutritional regulation of transcription factors, metabolic signalling pathways, functional genomics methods, transcriptomic profiling of adipose tissues, transcription factors and meat quality and comparative genomics with other livestock species. In conclusion, transcription factors play a crucial role in promoting adipocyte development and fatty acid biosynthesis in beef cattle. They control adipose tissue formation and metabolism, thereby improving meat quality and maintaining metabolic balance. Understanding the processes by which these transcription factors regulate adipose tissue deposition and lipid metabolism will simplify the development of marbling or IMF composition in beef cattle.

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“…Indeed, this close host-pathogen relationship of B. abortus with cattle and its high prevalence in unmanaged herds suggests that the evolutionary history of B. abortus may provide unique insights into the history of cattle movements. Then by comparing these genetic patterns in B. abortus to cattle genetics, breeding practices, and livestock movements ( Pitt et al, 2019 ; Verdugo et al, 2019 ; Xia et al, 2023 ), we can understand how socioeconomic forces and cultural practices have spread this pathogen.…”

Section: Introductionmentioning

confidence: 99%

Global phylogenomic diversity of Brucella abortus: spread of a dominant lineage

Janke,

Williamson,

Drees

et al. 2023

Front. Microbiol.

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Brucella abortus is a globally important zoonotic pathogen largely found in cattle hosts and is typically transmitted to humans through contaminated dairy products or contact with diseased animals. Despite the long, shared history of cattle and humans, little is known about how trade in cattle has spread this pathogen throughout the world. Whole genome sequencing provides unparalleled resolution to investigate the global evolutionary history of a bacterium such as B. abortus by providing phylogenetic resolution that has been unobtainable using other methods. We report on large-scale genome sequencing and analysis of B. abortus collected globally from cattle and 16 other hosts from 52 countries. We used single nucleotide polymorphisms (SNPs) to identify genetic variation in 1,074 B. abortus genomes and using maximum parsimony generated a phylogeny that identified four major clades. Two of these clades, clade A (median date 972 CE; 95% HPD, 781–1142 CE) and clade B (median date 150 BCE; 95% HPD, 515 BCE–164 CE), were exceptionally diverse for this species and are exclusively of African origin where provenance is known. The third clade, clade C (median date 949 CE; 95% HPD, 766–1102 CE), had most isolates coming from a broad swath of the Middle East, Europe, and Asia, also had relatively high diversity. Finally, the fourth major clade, clade D (median date 1467 CE; 95% HPD, 1367–1553 CE) comprises the large majority of genomes in a dominant but relatively monomorphic group that predominantly infects cattle in Europe and the Americas. These data are consistent with an African origin for B. abortus and a subsequent spread to the Middle East, Europe, and Asia, probably through the movement of infected cattle. We hypothesize that European arrival to the Americas starting in the 15th century introduced B. abortus from Western Europe through the introduction of a few common cattle breeds infected with strains from clade D. These data provide the foundation of a comprehensive global phylogeny of this important zoonotic pathogen that should be an important resource in human and veterinary epidemiology.

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Global dispersal and adaptive evolution of domestic cattle: a genomic perspective

Cited by 14 publications

References 106 publications

Genomic characterization of dryland adaptation in endangered Anxi cattle in China

Genomic characterization of dryland adaptation in endangered Anxi cattle in China

A review of the role of transcription factors in regulating adipogenesis and lipogenesis in beef cattle

Global phylogenomic diversity of Brucella abortus: spread of a dominant lineage

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