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Genome-wide association studies on body weight in Loumen ducks 娄门鸭体重的全基因组关联研究
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-26 DOI: 10.1111/age.13503
Hongxiang Liu, Yifei Wang, Chunhong Zhu, Zhicheng Wang, Weitao Song, Wenjuan Xu, Zhiyun Tao, Shuangjie Zhang, Huifang Li, Honglin Liu
{"title":"Genome-wide association studies on body weight in Loumen ducks","authors":"Hongxiang Liu,&nbsp;Yifei Wang,&nbsp;Chunhong Zhu,&nbsp;Zhicheng Wang,&nbsp;Weitao Song,&nbsp;Wenjuan Xu,&nbsp;Zhiyun Tao,&nbsp;Shuangjie Zhang,&nbsp;Huifang Li,&nbsp;Honglin Liu","doi":"10.1111/age.13503","DOIUrl":"https://doi.org/10.1111/age.13503","url":null,"abstract":"<p>Body weight is an important trait associated with meat production in the poultry industry. To better understand the genetic basis of body weights in ducks, we estimated genetic parameters and performed a genome-wide association study. The phenotypic values of body weights at ages 0 weeks (bw0) and 8 weeks (bw8) were collected individually from 199 Loumen ducks, and their genotypes were assayed with whole genome re-sequencing. The heritability of bw0 and bw8 are 0.32 and 0.43, respectively, and the genetic correlation of bw0 and bw8 was very low (−7.256e-5). The genome-wide association study results identified eight SNPs significantly associated with bw0 and bw8. The two and nine genes nearest to the significant SNPs were selected as candidate genes: <i>PIK3R5</i> and <i>MYH10</i> for bw0, and <i>LOC119717016</i>, <i>RHOJ</i>, <i>PPP2R5E</i>, <i>BRF1</i>, <i>LOC106018961</i>, <i>NUDT14</i>, <i>JAG2</i>, <i>CEP170B</i>, and <i>AKT1</i> for bw8. Together, the SNPs and candidate genes identified in this study advance understanding of the complex genetic architecture of bw0 and bw8, and provide important clues for future implementation of a genomic selection program in Loumen ducks.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143119536","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Comprehensive genomic analysis and selection signature detection in endangered Beigang pigs using whole-genome sequencing data 基于全基因组测序数据的濒危北港猪基因组综合分析与选择特征检测。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-23 DOI: 10.1111/age.13502
Xuejian Ma, Zitao Chen, Zhenyang Zhang, Shengqiang Liu, Meng Wang, Xiaowei Zhang, Jinhu Shi, Hui Gao, Jiamin Gu, He Han, Yuchun Pan, Qishan Wang
{"title":"Comprehensive genomic analysis and selection signature detection in endangered Beigang pigs using whole-genome sequencing data","authors":"Xuejian Ma,&nbsp;Zitao Chen,&nbsp;Zhenyang Zhang,&nbsp;Shengqiang Liu,&nbsp;Meng Wang,&nbsp;Xiaowei Zhang,&nbsp;Jinhu Shi,&nbsp;Hui Gao,&nbsp;Jiamin Gu,&nbsp;He Han,&nbsp;Yuchun Pan,&nbsp;Qishan Wang","doi":"10.1111/age.13502","DOIUrl":"10.1111/age.13502","url":null,"abstract":"<p>The Beigang pig was recently identified as one of the endangered breeds during a Chinese indigenous pig genetic resource survey. The Beigang breed is notable for its remarkable roughage tolerance and high reproductive capacity according to historical records. Morphologically, the Beigang pig resembles many indigenous pigs in eastern China, especially in its large ears. This makes the Beigang pig a valuable reference for studying the genetic mechanisms on large ear size in pigs. However, there is currently a lack of clear understanding regarding the genetic structure and inbreeding levels of the Beigang pig population. This study used whole-genome sequencing data from Beigang pig (<i>N</i> = 145 pigs) and integrated genetic information from commercial pigs and indigenous pigs in eastern China to conduct a comprehensive analysis of the Beigang pig's genetic structure. Three selection signal detection methods—runs of homozygosity, fixation index, and integrated haplotype score—were employed to explore the differences in genomic selection signatures between Beigang pig and other pig populations. Additionally, we used a public project for regulatory variants discovery and molecular phenotype prediction in farm animal species called FarmGtex to explore the expression of three genes (<i>WIF1</i>, <i>LEMD3</i>, and <i>MSRB3</i>) related to ear size in Beigang pig. This research identified five homozygous variant sites in the <i>WIF1</i> gene as important candidate loci potentially influencing ear size in Beigang pig. The results indicate that the Beigang pig holds a unique status among Chinese indigenous pigs, characterized by high genetic diversity and low levels of inbreeding. The study also revealed that <i>WIF1</i> may play a significant role in influencing ear size in this breed. These findings contribute to a deeper understanding of the population structure and genetic characteristics of Beigang pig.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143021737","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Several variants on chromosome 10 are associated with coarse hair diameter in Dazu black goats (Capra hircus) 大足黑山羊(Capra hircus) 10号染色体上的几个变异与粗毛直径有关。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-22 DOI: 10.1111/age.13509
Jipan Zhang, Jiabei Fang, Siyuan Zhang, Jiele Xu, Yongju Zhao
{"title":"Several variants on chromosome 10 are associated with coarse hair diameter in Dazu black goats (Capra hircus)","authors":"Jipan Zhang,&nbsp;Jiabei Fang,&nbsp;Siyuan Zhang,&nbsp;Jiele Xu,&nbsp;Yongju Zhao","doi":"10.1111/age.13509","DOIUrl":"10.1111/age.13509","url":null,"abstract":"<p>Goats typically have double coats, with the outermost coarse hairs providing protection against mechanical and radiation damage. While much attention has been paid to cashmere due to its status as a high-end textile material, there is limited information available on coarse hair. This study aimed to identify genomic variants, such as single nucleotide polymorphisms (SNPs) and insertion/deletions (indels), associated with coarse hair diameter using a genome-wide association study (GWAS). Coarse hairs and blood samples were collected from 263 adult female goats. The diameter of coarse hairs was measured using an inverted microscope, and whole genome sequencing was conducted on the blood samples. After reads mapping, variants calling, and quality control, totals of 11 322 006 SNPs and 863 734 indels were included for SNP-GWAS and indel-GWAS analyses. Eight significant SNPs (<i>p</i> &lt; 8.98e-8) and three significant indels (<i>p</i> &lt; 1.16e-6) were identified. Among those, one SNP was located on Chromosome 4 and near the genes <i>COL28A1</i> and <i>C1GALT1</i>. Seven significant SNPs were found in the region chr10_96664101–96670958, with the genes <i>CDO1</i> and <i>TMED7</i> located upstream and downstream, respectively. Haplotype analysis revealed that the diverse haplotypes of these seven SNPs presented varying values for coarse hair diameter. Notably, the only consistently significant insertion (chr10_96665085, GTA&gt;G) was also located within the region chr10_96664101–96670958, further highlighting the importance of this genomic region in influencing coarse hair diameter. These significant variants and genomic regions provide valuable insights for investigating the genetic mechanisms underlying the variation in fiber diameter.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143021747","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Identification of a global gene expression signature associated with the genetic risk of catastrophic fracture in iPSC-derived osteoblasts from Thoroughbred horses 鉴定与纯种马ipsc衍生成骨细胞灾难性骨折遗传风险相关的全局基因表达特征。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-13 DOI: 10.1111/age.13504
Esther Palomino Lago, Amy K. C. Ross, Alyce McClellan, Deborah J. Guest
{"title":"Identification of a global gene expression signature associated with the genetic risk of catastrophic fracture in iPSC-derived osteoblasts from Thoroughbred horses","authors":"Esther Palomino Lago,&nbsp;Amy K. C. Ross,&nbsp;Alyce McClellan,&nbsp;Deborah J. Guest","doi":"10.1111/age.13504","DOIUrl":"10.1111/age.13504","url":null,"abstract":"<p>Bone fractures are a significant problem in Thoroughbred racehorses. The risk of fracture is influenced by both genetic and environmental factors. To determine the biological processes that are affected in genetically susceptible horses, we utilised polygenic risk scoring to establish induced pluripotent stem cells (iPSCs) from horses at high and low genetic risk. RNA-sequencing on iPSC-derived osteoblasts revealed 112 genes that were significantly differentially expressed. Forty-three of these genes have known roles in bone, 27 are not yet annotated in the equine genome and 42 currently have no described role in bone. However, many of the proteins encoded by the known and unknown genes have reported interactions. Functional enrichment analyses revealed that the differentially expressed genes were overrepresented in processes regulating the extracellular matrix and pathways known to be involved in bone remodelling and bone diseases. Gene set enrichment analysis also detected numerous biological processes and pathways involved in glycolysis with the associated genes having a higher expression in the iPSC-osteoblasts from horses with low polygenic risk scores for fracture. Therefore, the differentially expressed genes may be relevant for maintaining bone homeostasis and contribute to fracture risk. A deeper understanding of the consequences of mis-regulation of these genes and the identification of the DNA variants which underpin their differential expression may reveal more about the molecular mechanisms which are involved in equine bone health and fracture risk.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11726005/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142969473","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Novel insights into sheep domestication in Southwest Asia based on genome-wide sequencing 基于全基因组测序的西南亚绵羊驯化新见解。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-10 DOI: 10.1111/age.13500
Wenwen Fang, Hojjat Asadollahpour Nanaei, Yu Liu, Huanhuan Zhang, Lisheng Miao, Yang Cao, Haiguo Jin, Yang Cao
{"title":"Novel insights into sheep domestication in Southwest Asia based on genome-wide sequencing","authors":"Wenwen Fang,&nbsp;Hojjat Asadollahpour Nanaei,&nbsp;Yu Liu,&nbsp;Huanhuan Zhang,&nbsp;Lisheng Miao,&nbsp;Yang Cao,&nbsp;Haiguo Jin,&nbsp;Yang Cao","doi":"10.1111/age.13500","DOIUrl":"10.1111/age.13500","url":null,"abstract":"<p>The origin of domestic sheep (<i>Ovis aries</i>) can be traced back to the Asian mouflon (<i>Ovis gmelini</i>), in the Near East around 10 000 years ago. Genetic divergence within mouflon populations can occur due to factors such as geographical isolation, social structures, and environmental pressures, leading to different affinities with domestic sheep. However, few studies have reported the extent to which mouflon sheep contribute to domestic sheep in different regions. Here, we implemented the demographic analyses of sheep populations across the globe based on the whole genome resequencing data of 410 samples, Y chromosome genetic variation of 417 rams, and 396 complete mitogenomes of <i>O. aries</i>. This revealed genetic differentiation within Iranian mouflons and a close genetic affinity between northern Iranian mouflons and worldwide domestic populations. The result illustrates that domestic sheep in our study may have derived from the same mouflon populations. Furthermore, analyses of paternal and maternal genetic diversity showed that five Y chromosome haplogroups and seven mitochondrial haplogroups were identified, of which the lineages mtF and mtG were newly found and defined. A phylogeographic interpretation of our data reveals a cline of north to south Iranian mouflons, which may be largely explained by increasing urial introgression.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142942876","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Assessing genomic diversity and signatures of selection in Qingyuan Wapiti 清远瓦皮提植物基因组多样性及选择特征分析。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-09 DOI: 10.1111/age.13505
Te Pi, Wenfeng Yi, Mingyue Hu, Xinjiao Quan, Laiming Tian, Hao Sun, Shouqing Yan
{"title":"Assessing genomic diversity and signatures of selection in Qingyuan Wapiti","authors":"Te Pi,&nbsp;Wenfeng Yi,&nbsp;Mingyue Hu,&nbsp;Xinjiao Quan,&nbsp;Laiming Tian,&nbsp;Hao Sun,&nbsp;Shouqing Yan","doi":"10.1111/age.13505","DOIUrl":"10.1111/age.13505","url":null,"abstract":"<p>Red deer is a species of family Cervidae that is widely distributed in the world and is often raised to provide antlers, as a trophy or traditional medicine materials, and meat. Currently, the whole genomic data for red deer are very limited. Qingyuan Wapiti (QYW), China's first breed of red deer by artificial breeding, is well known for its high yield of antlers and large body size. The phylogenetic tree showed that QYW had a closer genetic relationship with Tarim red deer than European red deer. To explore the genetic diversity and selection signatures, the whole genome of 28 QYW individuals was sequenced, and 19 401 749 biallelic SNPs and 1 849 784 indels were obtained. The value of observed heterozygosity, expected heterozygosity, and nucleotide diversity were 0.258598, 0.268844, and 0.002193, respectively. Based on Tajima's <i>D</i> and integrated haplotype score analyses, the candidate regions containing 187 genes were detected, including <i>PLD1</i>, <i>ANTXR1</i>, <i>PLCL1</i>, <i>CPE</i>, and <i>CTNNA3</i>, which have been reported to be correlated with osteogenesis and mineralization, growth, and body size by previous studies. The results obtained in this study will contribute to elucidating the genetic mechanisms underlying the formation of excellent traits in QYW and provide the whole genome data for future exploration of genomic diversity and adaptation evolution of red deer worldwide.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142942874","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Unexpected recombination at the polled locus in a horned Holstein calf from the mating of a homozygous polled sire and a heterozygous polled cow 在一个纯合子的被投票的父系和一个杂合子的被投票的母牛的交配中,在有角的荷斯坦小牛的投票位点上意外的重组。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2025-01-08 DOI: 10.1111/age.13507
Bertram Brenig
{"title":"Unexpected recombination at the polled locus in a horned Holstein calf from the mating of a homozygous polled sire and a heterozygous polled cow","authors":"Bertram Brenig","doi":"10.1111/age.13507","DOIUrl":"10.1111/age.13507","url":null,"abstract":"<p>In this study, I report an unexpected case of a Holstein calf that developed horns even though the sire was homozygous and the dam was heterozygous for polledness. After verifying and confirming the correct parentage, the parents and offspring were genotyped with the Illumina EuroG_MD BeadChip and the SNPs in the polled region on chromosome 1 were evaluated. In addition, the father was sequenced with next generation sequencing to identify possible, previously unknown variants. The deletion of two base pairs within the causative 80-kb duplication described for the Friesian polled variant was verified by melting curve analysis and the 80-kb duplication by droplet digital PCR. Analysis of all data showed that, as expected, the calf was heterozygous for all SNP positions flanking the 80-kb duplication but was homozygous wild type in the 80-kb duplication region and therefore carried horns. This is certainly a very rare case of a recombination within the highly conserved polled region, which on the one hand confirms that only the 80-kb duplication is responsible for the expression of the Friesian polled variant, but on the other hand also shows that caution is required when interpreting the usual routine genotyping of the horn status based on linked single nucleotide polymorphisms in the polled region on chromosome 1. Based on the present case, it is recommended that, in addition to the evaluation of the SNP data of the BeadChip, an extended diagnosis with direct detection of the 2-bp deletion (1:g.2629156_2629158delGT) should be carried out in any case when detecting the Friesian polled variant.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11707570/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142942877","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Single-step genome-wide association study reveals candidate genes for body mass index trait in Yunong-black pigs 单步全基因组关联研究揭示了云农黑猪体重指数性状的候选基因。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2024-12-23 DOI: 10.1111/age.13501
Ziyi Wu, Tengfei Dou, Jiahao Wu, Liyao Bai, Yongqian Zhang, Shengyuan Zan, Songbai Yang, Hao Zhou, Jinyi Han, Xuelei Han, Ruimin Qiao, Kejun Wang, Feng Yang, Xin-Jian Li, Xiu-Ling Li
{"title":"Single-step genome-wide association study reveals candidate genes for body mass index trait in Yunong-black pigs","authors":"Ziyi Wu,&nbsp;Tengfei Dou,&nbsp;Jiahao Wu,&nbsp;Liyao Bai,&nbsp;Yongqian Zhang,&nbsp;Shengyuan Zan,&nbsp;Songbai Yang,&nbsp;Hao Zhou,&nbsp;Jinyi Han,&nbsp;Xuelei Han,&nbsp;Ruimin Qiao,&nbsp;Kejun Wang,&nbsp;Feng Yang,&nbsp;Xin-Jian Li,&nbsp;Xiu-Ling Li","doi":"10.1111/age.13501","DOIUrl":"10.1111/age.13501","url":null,"abstract":"<p>Body mass index (BMI) can serve as a reasonable indicator of overall body fat content in pigs. This study aimed to identify underlying variants and candidate genes associated with BMI in Yunong-black pigs. A single-step genome-wide association analysis (GWAS) was performed on 1405 BMI records and 924 Yunong-black pigs genotyped using a 50 K SNP Chip. De-regressed estimated breeding values were taken as the response variable in the GWAS. The estimated heritability for BMI was 0.157. Nine significant regions were associated with BMI, accounting for 12.828% of genetic variance, with the highest region explaining 1.969% of the genetic variance. Linkage disequilibrium analysis of the nine significant regions revealed that SNPs in six single-step GWAS-identified genomic regions were all located in the linkage disequilibrium blocks. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses of the 29 protein-coding genes annotated to these regions revealed that <i>FABP2</i>, a key gene associated with BMI in human, was enriched in the fatty acid binding term and the fat digestion and absorption pathway. This study provides a better insight into the genetic architecture of the BMI trait, and offers potential molecular markers for the breeding of Yunong-black pigs.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-12-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142880923","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A TYR-iffic discovery: Identification of a second TYR variant associated with acromelanism in dogs 一项TYR流量发现:鉴定与犬肢黑症相关的第二个TYR变异。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2024-12-22 DOI: 10.1111/age.13496
Samantha L. Van Buren, Anushka Panjwani, Carrie J. Finno
{"title":"A TYR-iffic discovery: Identification of a second TYR variant associated with acromelanism in dogs","authors":"Samantha L. Van Buren,&nbsp;Anushka Panjwani,&nbsp;Carrie J. Finno","doi":"10.1111/age.13496","DOIUrl":"10.1111/age.13496","url":null,"abstract":"","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142875731","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of SLICK allele in African taurine and Zebu cattle breeds 非洲牛磺酸和Zebu牛品种SLICK等位基因分析。
IF 1.8 3区 生物学
Animal genetics Pub Date : 2024-12-22 DOI: 10.1111/age.13499
Samrawit Gebeyehu, Bradley Heins, Tad Sonstegard, Johann Sölkner, Gábor Mészáros, Amadou Traoré, Albert Soudré
{"title":"Analysis of SLICK allele in African taurine and Zebu cattle breeds","authors":"Samrawit Gebeyehu,&nbsp;Bradley Heins,&nbsp;Tad Sonstegard,&nbsp;Johann Sölkner,&nbsp;Gábor Mészáros,&nbsp;Amadou Traoré,&nbsp;Albert Soudré","doi":"10.1111/age.13499","DOIUrl":"10.1111/age.13499","url":null,"abstract":"&lt;p&gt;The SLICK trait enhances heat tolerance by modifying physiological traits, such as improving sweating ability, and is phenotypically expressed as short and sleek coats (Davis et al., &lt;span&gt;2016&lt;/span&gt;; Olson et al., &lt;span&gt;2003&lt;/span&gt;). The SLICK coat trait in cattle is attributed to six naturally occurring truncation mutations in the prolactin receptor (PRLR) gene on bovine chromosome 20 (Flórez et al., &lt;span&gt;2020&lt;/span&gt;; Sosa et al., &lt;span&gt;2021&lt;/span&gt;). This results in frameshift mutations in the PRLR gene, particularly in exons 10 and 11, which disrupt the open reading frame, and leads to truncated receptor proteins that confer the SLICK phenotype (Davis et al., &lt;span&gt;2017&lt;/span&gt;; Porto-Neto et al., &lt;span&gt;2018&lt;/span&gt;). These mutations have been identified in many South American breeds, such as Senepol, Carora and Limonero, and the trait is inherited in an autosomal-dominant manner (Flórez et al., &lt;span&gt;2020&lt;/span&gt;; Flórez Murillo et al., &lt;span&gt;2024&lt;/span&gt;; Nicholas et al., &lt;span&gt;2024&lt;/span&gt;; Olson et al., &lt;span&gt;2003&lt;/span&gt;). The mutation was first identified in Criollo breeds: the Mexican Criollo Lechero has SLICK3 and SLICK4 at frequencies of 0.9 and 0.03; the Colombian Blanco Orejineg has SLICK1 and SLICK5 at frequencies of 0.50 and 0.38; and the Hartón del Valle has SLICK1, SLICK2, SLICK5 and SLICK6 at frequencies of 0.29, 0.18, 0.24 and 0.21 respectively (Flórez et al., &lt;span&gt;2020&lt;/span&gt;). Although the allelic frequency of the mutation is relatively low in some Criollo breeds, the autosomal-dominant inheritance pattern ensures that individuals carrying at least one copy of a SLICK allele exhibit the phenotype.&lt;/p&gt;&lt;p&gt;The SLICK allele is well documented in Criollo breeds of the Caribbean Basin, descended from Iberian taurine cattle (Flórez et al., &lt;span&gt;2020&lt;/span&gt;; Porto-Neto et al., &lt;span&gt;2018&lt;/span&gt;). The allele may also exist in African breeds because these cattle have environmental stressors similar to those of Criollo breeds. However, the specific SLICK mutation in African taurine cattle has not been identified (Xia et al., &lt;span&gt;2023&lt;/span&gt;). Although African cattle possess various tropical adaptations, it is unknown whether they exhibit the SLICK phenotype. Investigation of the presence and frequency of SLICK alleles in West African breeds is crucial for understanding the origins of these mutations and their potential application in breeding programs to enhance adaptability, productivity and resilience in tropical dairy systems. The study evaluated SLICK-causing mutations in African breeds compared with Criollo breeds. No SLICK mutations were found in a panel of 1063 genomic DNA samples from 40 breeds across 15 ecotypes, including 126 African taurine samples (Sonstegard et al., &lt;span&gt;2025&lt;/span&gt;). Genotyping of SLICK mutations (1–5) was done with iPlex assays (Geneseek, Lincoln, NE, USA). Allele frequencies were determined for four Criollo breeds (Mexican Criollo Lechero tropical, &lt;i&gt;n&lt;/i&gt; = 20; Colombian Blanco Orejinegro, &lt;i&gt;n&lt;/i","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"56 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11664028/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142875732","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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