RESUMO
BACKGROUND: Nellore cattle (Bos indicus) are well-known for their adaptation to warm and humid environments. Hair length and coat color may impact heat tolerance. The Nellore breed has been strongly selected for white coat, but bulls generally exhibit darker hair ranging from light grey to black on the head, neck, hump, and knees. Given the potential contribution of coat color variation to the adaptation of cattle populations to tropical and sub-tropical environments, our aim was to map positional and functional candidate genetic variants associated with darkness of hair coat (DHC) in Nellore bulls. RESULTS: We performed a genome-wide association study (GWAS) for DHC using data from 432 Nellore bulls that were genotyped for more than 777 k single nucleotide polymorphism (SNP) markers. A single major association signal was detected in the vicinity of the agouti signaling protein gene (ASIP). The analysis of whole-genome sequence (WGS) data from 21 bulls revealed functional variants that are associated with DHC, including a structural rearrangement involving ASIP (ASIP-SV1). We further characterized this structural variant using Oxford Nanopore sequencing data from 13 Australian Brahman heifers, which share ancestry with Nellore cattle; we found that this variant originates from a 1155-bp deletion followed by an insertion of a transposable element of more than 150 bp that may impact the recruitment of ASIP non-coding exons. CONCLUSIONS: Our results indicate that the variant ASIP sequence causes darker coat pigmentation on specific parts of the body, most likely through a decreased expression of ASIP and consequently an increased production of eumelanin.
Assuntos
Proteína Agouti Sinalizadora/genética , Bovinos/genética , Pigmentação/genética , Polimorfismo Genético , Pelo Animal/metabolismo , Animais , Elementos de DNA Transponíveis , Mutação INDEL , Melaninas/genética , Melaninas/metabolismoRESUMO
BACKGROUND: In the early 20th century, Cuban farmers imported Charolais cattle (CHFR) directly from France. These animals are now known as Chacuba (CHCU) and have become adapted to the rough environmental tropical conditions in Cuba. These conditions include long periods of drought and food shortage with extreme temperatures that European taurine cattle have difficulty coping with. RESULTS: In this study, we used whole-genome sequence data from 12 CHCU individuals together with 60 whole-genome sequences from six additional taurine, indicus and crossed breeds to estimate the genetic diversity, structure and accurate ancestral origin of the CHCU animals. Although CHCU animals are assumed to form a closed population, the results of our admixture analysis indicate a limited introgression of Bos indicus. We used the extended haplotype homozygosity (EHH) approach to identify regions in the genome that may have had an important role in the adaptation of CHCU to tropical conditions. Putative selection events occurred in genomic regions with a high proportion of Bos indicus, but they were not sufficient to explain adaptation of CHCU to tropical conditions by Bos indicus introgression only. EHH suggested signals of potential adaptation in genomic windows that include genes of taurine origin involved in thermogenesis (ATP9A, GABBR1, PGR, PTPN1 and UCP1) and hair development (CCHCR1 and CDSN). Within these genes, we identified single nucleotide polymorphisms (SNPs) that may have a functional impact and contribute to some of the observed phenotypic differences between CHCU and CHFR animals. CONCLUSIONS: Whole-genome data confirm that CHCU cattle are closely related to Charolais from France (CHFR) and Canada, but also reveal a limited introgression of Bos indicus genes in CHCU. We observed possible signals of recent adaptation to tropical conditions between CHCU and CHFR founder populations, which were largely independent of the Bos indicus introgression. Finally, we report candidate genes and variants that may have a functional impact and explain some of the phenotypic differences observed between CHCU and CHFR cattle.
Assuntos
Bovinos/genética , Genótipo , Polimorfismo Genético , Termotolerância/genética , Pelo Animal/metabolismo , Animais , Bovinos/fisiologia , Haplótipos , Homozigoto , Termogênese/genética , Clima Tropical , Sequenciamento Completo do GenomaRESUMO
The purpose of this study was to evaluate the relationship between adaptive and productive performance and determine which characteristics related to adaptation could be included as criteria for the selection of Brahman bulls managed in a tropical region. Fifty Brahman bulls were evaluated in relation to productive performance and adaptive capacity to a hot environment. The animals were grouped according to the following characteristics: Respiratory rate (RR), Sweating rate (SR) and coat traits. Three clusters were formed with these different characteristics related to thermoregulation after that these clusters were compared with productive performance that includes weighing of animals, carcass and scrotal circumference. The high adapted group corresponded to the animals with higher productive performance, with heavier animals in terms of weight at 550 days and carcass weight. The principal components analysis (PCA1) showed that carcass weight (0.95), weight at 550 days (0.92) and gain weight (0.71) were characteristics strongly correlated with the performance of the animals. These sets of characteristics were analyzed together (productive characteristics) in a multiple regression. The animals with better productive performance presented shorter hair, a greater capacity to heat dissipate by sweating and a lower rectal temperature. These characteristics were most suitable to inclusion in the breeding programs, resulting in higher economic gains. It is possible to simultaneously select resistant animals to thermal stress as well as to maintain the productivity of the flocks.