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Unraveling genomic diversity and positive selection signatures of Qaidam cattle through whole-genome re-sequencing 通过全基因组重测序揭示盖达姆牛的基因组多样性和正选择特征。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-03-13 DOI: 10.1111/age.13417
Xudong Wei, Shuang Li, Huixuan Yan, Shengmei Chen, Ruizhe Li, Weizhong Zhang, Shengyu Chao, Weixing Guo, Wenhao Li, Zulfiqar Ahmed, Chuzhao Lei, Zhijie Ma
{"title":"Unraveling genomic diversity and positive selection signatures of Qaidam cattle through whole-genome re-sequencing","authors":"Xudong Wei,&nbsp;Shuang Li,&nbsp;Huixuan Yan,&nbsp;Shengmei Chen,&nbsp;Ruizhe Li,&nbsp;Weizhong Zhang,&nbsp;Shengyu Chao,&nbsp;Weixing Guo,&nbsp;Wenhao Li,&nbsp;Zulfiqar Ahmed,&nbsp;Chuzhao Lei,&nbsp;Zhijie Ma","doi":"10.1111/age.13417","DOIUrl":"10.1111/age.13417","url":null,"abstract":"<p>Qaidam cattle are a typical Chinese native breed inhabiting northwest China. They bear the characteristics of high cold and roughage tolerance, low-oxygen adaptability and good meat quality. To analyze the genetic diversity of Qaidam cattle, 60 samples were sequenced using whole-genome resequencing technology, along with 192 published sets of whole-genome sequencing data of Indian indicine cattle, Chinese indicine cattle, North Chinese cattle breeds, East Asian taurine cattle, Eurasian taurine cattle and European taurine cattle as controls. It was found that Qaidam cattle have rich genetic diversity in <i>Bos taurus</i>, but the degree of inbreeding is also high, which needs further protection. The phylogenetic analysis, principal component analysis and ancestral component analysis showed that Qaidam cattle mainly originated from East Asian taurine cattle. Qaidam cattle had a closer genetic relationship with the North Chinese cattle breeds and the least differentiation from Mongolian cattle. Annotating the selection signals obtained by composite likelihood ratio, nucleotide diversity analysis, integrated haplotype score, genetic differentiation index, genetic diversity ratio and cross-population extended haplotype homozygosity methods, several genes associated with immunity, reproduction, meat, milk, growth and adaptation showed strong selection signals. In general, this study provides genetic evidence for understanding the germplasm characteristics of Qaidam cattle. At the same time, it lays a foundation for the scientific and reasonable protection and utilization of genetic resources of Chinese local cattle breeds, which has great theoretical and practical significance.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140118587","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
Genomic characterization of dryland adaptation in endangered Anxi cattle in China 中国濒危安溪牛旱地适应性的基因组特征。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-03-04 DOI: 10.1111/age.13416
Yang Lyu, Tingting Yao, Zhefu Chen, Ruiyao Huangfu, Haijian Cheng, Weidong Ma, Xingshan Qi, Fuqiang Li, Ningbo Chen, Chuzhao Lei
{"title":"Genomic characterization of dryland adaptation in endangered Anxi cattle in China","authors":"Yang Lyu,&nbsp;Tingting Yao,&nbsp;Zhefu Chen,&nbsp;Ruiyao Huangfu,&nbsp;Haijian Cheng,&nbsp;Weidong Ma,&nbsp;Xingshan Qi,&nbsp;Fuqiang Li,&nbsp;Ningbo Chen,&nbsp;Chuzhao Lei","doi":"10.1111/age.13416","DOIUrl":"10.1111/age.13416","url":null,"abstract":"<p>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 <i>CERS3</i> involved in regulating skin permeability and antimicrobial functions, <i>RBFOX2</i> associated with cardiac development, <i>SLC16A7</i> participated in the regulation of pancreatic endocrine function, and <i>SPATA3</i> 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.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140020811","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 de novo mutation in CACNA1A is associated with autosomal dominant bovine familial convulsions and ataxia in Angus cattle CACNA1A 的一个新突变与安格斯牛常染色体显性家族性牛惊厥和共济失调有关。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-03-01 DOI: 10.1111/age.13409
Rachel R. Reith, Jonathan E. Beever, Joe C. Paschal, Jason Banta, Brian F. Porter, David J. Steffen, Thomas B. Hairgrove, Jessica L. Petersen
{"title":"A de novo mutation in CACNA1A is associated with autosomal dominant bovine familial convulsions and ataxia in Angus cattle","authors":"Rachel R. Reith,&nbsp;Jonathan E. Beever,&nbsp;Joe C. Paschal,&nbsp;Jason Banta,&nbsp;Brian F. Porter,&nbsp;David J. Steffen,&nbsp;Thomas B. Hairgrove,&nbsp;Jessica L. Petersen","doi":"10.1111/age.13409","DOIUrl":"10.1111/age.13409","url":null,"abstract":"<p>Bovine familial convulsions and ataxia (BFCA) is considered an autosomal dominant syndrome with incomplete penetrance. Nine Angus calves from the same herd were diagnosed with BFCA within days of birth. Necropsy revealed cerebellar and spinal cord lesions associated with the condition. Parentage testing confirmed that all affected calves had a common sire. The sire was then bred to 36 cows across two herds using artificial insemination, producing an additional 14 affected calves. The objective of this investigation was to identify hypothesized dominant genetic variation underlying the condition. Whole-genome sequencing was performed on the sire, six affected and seven unaffected paternal half-sibling calves and combined with data from 135 unrelated controls. The sire and five of the six affected calves were heterozygous for a nonsense variant (Chr7 g.12367906C&gt;T, c.5073C&gt;T, p.Arg1681*) in <i>CACNA1A.</i> The other affected calves (<i>N</i> = 8) were heterozygous for the variant but it was absent in the other unaffected calves (<i>N</i> = 7) and parents of the sire. This variant was also absent in sequence data from over 6500 other cattle obtained via public repositories and collaborator projects. The variant in <i>CACNA1A</i> is expressed in the cerebellum of the ataxic calves as detected in the transcriptome and was not differentially expressed compared with controls. The CACNA1A protein is part of a highly expressed cerebellar calcium voltage gated channel. The nonsense variant is proposed to cause haploinsufficiency, preventing proper transmission of neuronal signals through the channel and resulting in BFCA.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13409","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139995298","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
The role of genetic variability of the host on the resistance to Neospora caninum infection in cattle 宿主的遗传变异对牛感染犬新孢子虫的抵抗力的作用。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-28 DOI: 10.1111/age.13410
Anabella Dinon, Franco Fiorani, Lucía María Campero, Dadín Prando Moore, Pablo Marcelo Corva
{"title":"The role of genetic variability of the host on the resistance to Neospora caninum infection in cattle","authors":"Anabella Dinon,&nbsp;Franco Fiorani,&nbsp;Lucía María Campero,&nbsp;Dadín Prando Moore,&nbsp;Pablo Marcelo Corva","doi":"10.1111/age.13410","DOIUrl":"10.1111/age.13410","url":null,"abstract":"<p><i>Neospora caninum</i> is one of the most frequently diagnosed abortifacient pathogens in cattle. There is abundant genomic information about the parasite itself, but very little is known about the genetic variability of resistance in the most common intermediate host. The aim of this review was to compile all the available information about the genetic variability associated with the resistance to <i>N. caninum</i> both between and within cattle breeds. We systematically searched for published studies that investigated the influence of genetics of the host on the prevalence of <i>N. caninum</i> and risk of abortion. Beyond the potential confounding effects of feeding systems, management and animal density, some lines of evidence suggest that Holstein, the most popular breed for milk production, has a comparatively higher risk of abortion due to infections by <i>N. caninum</i>, whereas some beef breeds from Continental Europe seem to be more resistant. It is still not clear if different genetic mechanisms of resistance are involved in the two known routes of infection: postnatal ingestion of oocysts or transplacental transmission from the infected dam to the fetus. Genomic information associated with susceptibility to infection and risk of abortion in different cattle breeds is still scarce. The information reported here could be useful to identify new research alternatives and to define novel strategies to deal with this major problem of animal production.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13410","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139989128","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
Evaluation of the effectiveness of single nucleotide polymorphisms compared to microsatellite markers for parentage verification in Moroccan horses 评估单核苷酸多态性与微卫星标记在摩洛哥马亲子鉴定中的有效性。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-21 DOI: 10.1111/age.13408
O. Aminou, B. Badaoui, M. Machmoum, M. Piro
{"title":"Evaluation of the effectiveness of single nucleotide polymorphisms compared to microsatellite markers for parentage verification in Moroccan horses","authors":"O. Aminou,&nbsp;B. Badaoui,&nbsp;M. Machmoum,&nbsp;M. Piro","doi":"10.1111/age.13408","DOIUrl":"10.1111/age.13408","url":null,"abstract":"<p>The International Society for Animal Genetics (ISAG) currently advocates for a transition towards single nucleotide polymorphism (SNP) markers as a potential alternative for equine parentage verification. To ascertain the efficacy of this transition, it is imperative to evaluate the performance of parentage testing using SNPs in juxtaposition with short tandem repeats (STRs). As per ISAG's recommendation, we used an equine genotyping-by-sequencing panel with 144 SNPs for this purpose. Equine parentage is currently realized using 16 microsatellites (STRs) excluding the LEX3 marker. In this study, 1074 horses were genotyped using the 144 SNPs panel, including 432 foals, 414 mares, and 228 stallions, from five different breeds: 293 Arabians, 167 Barbs, 189 Thoroughbreds, 73 Anglo-Arabians, and 352 Arabian-Barbs. As a result, two SNPs markers were eliminated from the panel system due to inconsistent amplification across all examined individuals leaving 142 SNPs markers for analysis. A comparative analysis between SNPs and STRs markers revealed that the mean expected heterozygosity was 0.457 for SNPs and 0.76 for STRs, while the mean observed heterozygosity stood at 0.472 for SNPs and 0.72 for STRs. Furthermore, the probability of identity was calculated to be 5.722 × 10<sup>−57</sup> for SNPs and 1.25 × 10<sup>−15</sup> for STRs markers. In alignment with the Hardy–Weinberg equilibrium in polyploids test, 110 out of the total SNPs were consistent with the Hardy–Weinberg equilibrium in polyploids test (<i>p</i> &gt; 0.05). Employing both SNPs and STRs markers, the mean polymorphic information content was discerned to be 0.351 for SNPs and 0.72 for STRs. The cumulative exclusion probabilities for SNP markers exceeded 99.99%, indicating that the 142 SNPs panel might be adequate for parentage testing. In contrast, when utilizing STRs markers, the combined average exclusion probabilities for one and both parents were determined to be 99.8% and 99.9%, respectively. Our comprehensive study underscores the potential of SNPs in equine parentage verification, especially when compared to STRs in terms of exclusion probabilities. As a corollary, the application of SNPs for parentage verification and identification can significantly contribute to the conservation initiative for the five Moroccan horse breeds. Nonetheless, further research is required to address and replace the deficient SNPs within the panel.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139929652","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
Phenotypic correlations of carpal gland diverticular number with production traits and its genome-wide association analysis in multiple pig populations 多个猪种群中腕腺憩室数量与生产性状的表型相关性及其全基因组关联分析
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-21 DOI: 10.1111/age.13407
Dengshuai Cui, Longyun Li, Naibiao Yu, Sanya Xiong, Shijun Xiao, Hao Zheng, Zhiyong Huang, Yuanmei Guo, Lusheng Huang
{"title":"Phenotypic correlations of carpal gland diverticular number with production traits and its genome-wide association analysis in multiple pig populations","authors":"Dengshuai Cui,&nbsp;Longyun Li,&nbsp;Naibiao Yu,&nbsp;Sanya Xiong,&nbsp;Shijun Xiao,&nbsp;Hao Zheng,&nbsp;Zhiyong Huang,&nbsp;Yuanmei Guo,&nbsp;Lusheng Huang","doi":"10.1111/age.13407","DOIUrl":"10.1111/age.13407","url":null,"abstract":"<p>Pig carpal glands play crucial roles in territorial recognition, reproductive behavior, and information exchange; however, their effects on production traits and underlying genetic mechanisms remain unclear. In this study, 1028 pigs from six populations were counted for the carpal gland diverticular numbers (CGDNs) on the left (CGDN<sub>L</sub>) and right (CGDN<sub>R</sub>) legs, and their carcass and meat quality traits were assessed. The CGDNs were significantly different among the populations, and Licha Black pigs had a lower CGDN than the Bama Xiang breed. It was also significantly different between sexes, with males having more diverticula than females (<i>p</i> ≤ 0.0391). Moreover, the number was asymmetric, with CGDN<sub>R</sub> being significantly higher than CGDN<sub>L</sub>. Notably, CGDNs was significantly correlated with each other in phenotype and genetics and with 24-h pH, 24-h meat color score, 24-h marbling score, fat content, moisture content, sodium salt content, and saturated fatty acid content in phenotype. Furthermore, genome-wide association analyses identified seven SNPs in association with CGDNs at a 5% genome-wide significance level, all of which were located in a 1.78-Mb (35.347–37.129 Mb) region on chromosome 1. CNC10010837 and CNC10010840 were the top SNPs: both had an additive effect of 0.789 ± 0.120 on CGDN<sub>R</sub> with <i>p</i> = 8.31E-10. These findings provide important insights into the functions and underlying genetic mechanisms of swine carpal glands.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139911905","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
LncRNA ENSGALG00000021686 regulates fat metabolism in chicken hepatocytes via miR-146b/AGPAT2 pathway LncRNA ENSGALG00000021686通过miR-146b/AGPAT2途径调控鸡肝细胞的脂肪代谢
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-18 DOI: 10.1111/age.13405
Wenhao Xing, Shijie Li
{"title":"LncRNA ENSGALG00000021686 regulates fat metabolism in chicken hepatocytes via miR-146b/AGPAT2 pathway","authors":"Wenhao Xing,&nbsp;Shijie Li","doi":"10.1111/age.13405","DOIUrl":"10.1111/age.13405","url":null,"abstract":"<p>The liver contributes to lipid metabolism as the hub of fat synthesis. Long non-coding RNAs (lncRNAs) are considered the regulators of cellular processes. Since <i>LncRNA ENSGALG00000021686</i> (lncRNA 21 686) has been described as a regulator of lipid metabolism, the present study aimed to clarify the role of <i>lncRNA 21 686</i> in chicken hepatocytes’ lipid metabolism. Thirty-two chickens were divided into four groups and were treated with diets containing different amounts of fat, and the hepatic expression of <i>lncRNA 21 686</i> and miR-146b along with the levels of proteins involved in the regulation of fat metabolism, lipid indices and oxidative stress were measured. Moreover, primary chicken hepatocytes were transfected with <i>lncRNA 21 686</i> small interfering RNA or microRNA (miRNA, <i>miR</i>)<i>-146b</i> mimics to measure the consequences of suppressing lncRNA or inducing miRNA expression on the levels of proteins involved in fat metabolism and stress markers. The results showed that the high-fat diet modulated the expression of <i>lncRNA 21 686</i> and <i>miR-146b</i> (<i>p</i>-value &lt; 0.001). Moreover, there was a significant increase in 1-acyl-sn-glycerol-3-phosphate acyltransferase 2 (<i>AGPAT2</i>) gene expression and protein levels and modulated fat-related markers. Furthermore, the results showed that <i>lncRNA 21 686</i> suppression reduced the expression of <i>AGPAT2</i> and its downstream proteins (<i>p</i>-value &lt; 0.05). Overexpression of <i>miR-146b</i> regulated fat metabolism indicator expression. Transfection experiments revealed that <i>lncRNA 21 686</i> suppression increased <i>miR-146b</i> expression. The findings suggested a novel mechanism containing <i>lncRNA 21 686</i>/<i>miR-146b</i>/<i>AGPAT2</i> in the regulation of fat metabolism in chicken hepatocytes.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139899245","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
Comparison of two methods of sperm- and testis-mediated gene transfer in production of transgenic animals: A systematic review 比较精子和睾丸介导的基因转移在转基因动物生产中的两种方法:系统综述。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-15 DOI: 10.1111/age.13404
Zeinab Dehghan, Gholamhossein Darya, Shayesteh Mehdinejadiani, Amin Derakhshanfar
{"title":"Comparison of two methods of sperm- and testis-mediated gene transfer in production of transgenic animals: A systematic review","authors":"Zeinab Dehghan,&nbsp;Gholamhossein Darya,&nbsp;Shayesteh Mehdinejadiani,&nbsp;Amin Derakhshanfar","doi":"10.1111/age.13404","DOIUrl":"10.1111/age.13404","url":null,"abstract":"<p>Transgenic (Tg) animal technology is one of the growing areas in biology. Various Tg technologies, each with its own advantages and disadvantages, are available for generating Tg animals. These include zygote microinjection, electroporation, viral infection, embryonic stem cell or spermatogonial stem cell-mediated production of Tg animals, sperm-mediated gene transfer (SMGT), and testis-mediated gene transfer (TMGT). However, there are currently no comprehensive studies comparing SMGT and TMGT methods, selecting appropriate gene delivery carriers (such as nanoparticles and liposomes), and determining the optimal route for gene delivery (SMGT and TMGT) for producing Tg animal. Here we aim to provide a comprehensive assessment comparing SMGT and TMGT methods, and to introduce the best carriers and gene transfer methods to sperm and testis to generate Tg animals in different species. From 2010 to 2022, 47 studies on SMGT and 25 studies on TMGT have been conducted. Mice and rats were the most commonly used species in SMGT and TMGT. Regarding the SMGT approach, nanoparticles, streptolysin-O, and virus packaging were found to be the best gene transfer methods for generating Tg mice. In the TMGT method, the best gene transfer methods for generating Tg mice and rats were virus packaging, dimethyl sulfoxide, electroporation, and liposome. Our study has shown that the efficiency of producing Tg animals varies depending on the species, gene carrier, and method of gene transfer.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13404","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139740202","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
Towards identification of new genetic determinants for post-weaning diarrhea in piglets 鉴定仔猪断奶后腹泻的新遗传决定因素。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-11 DOI: 10.1111/age.13406
Emil Ibragimov, Esben Østergaard Eriksen, Jens Peter Nielsen, Claus B. Jørgensen, Merete Fredholm, Peter Karlskov-Mortensen
{"title":"Towards identification of new genetic determinants for post-weaning diarrhea in piglets","authors":"Emil Ibragimov,&nbsp;Esben Østergaard Eriksen,&nbsp;Jens Peter Nielsen,&nbsp;Claus B. Jørgensen,&nbsp;Merete Fredholm,&nbsp;Peter Karlskov-Mortensen","doi":"10.1111/age.13406","DOIUrl":"10.1111/age.13406","url":null,"abstract":"<p>Post-weaning diarrhea in pigs is a considerable challenge in the pig farming industry due to its effect on animal welfare and production costs, as well as the large volume of antibiotics, which are used to treat diarrhea in pigs after weaning. Previous studies have revealed loci on SSC6 and SSC13 associated with susceptibility to specific diarrhea causing pathogens. This study aimed to identify new genetic loci for resistance to diarrhea based on phenotypic data. In depth clinical characterization of diarrhea was performed in 257 pigs belonging to two herds during the first 14 days post weaning. The daily diarrhea assessments were used for the classification of pigs into case and control groups. Pigs were assigned to case and control groups based only on the incidence of diarrhea in the second week of the study in order to differentiate between differences in etiology. Genome-wide association studies and metabolomics association analysis were performed in order to identify new biological determinants for diarrhea susceptibility. With the present work, we revealed a new locus for diarrhea resistance on SSC16. Furthermore, studies of metabolomics in the same pigs revealed one metabolite associated with diarrhea.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13406","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139721295","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
Naturally occurring genetic diseases caused by de novo variants in domestic animals 由家畜新变体引起的天然遗传病。
IF 2.4 3区 生物学
Animal genetics Pub Date : 2024-02-07 DOI: 10.1111/age.13403
Luísa Azevedo, Andreia P. Amaro, João Niza-Ribeiro, Mónica Lopes-Marques
{"title":"Naturally occurring genetic diseases caused by de novo variants in domestic animals","authors":"Luísa Azevedo,&nbsp;Andreia P. Amaro,&nbsp;João Niza-Ribeiro,&nbsp;Mónica Lopes-Marques","doi":"10.1111/age.13403","DOIUrl":"10.1111/age.13403","url":null,"abstract":"<p>With the advent of next-generation sequencing, an increasing number of cases of <i>de novo</i> variants in domestic animals have been reported in scientific literature primarily associated with clinically severe phenotypes. The emergence of new variants at each generation is a crucial aspect in understanding the pathology of early-onset diseases in animals and can provide valuable insights into similar diseases in humans. With the aim of collecting deleterious <i>de novo</i> variants in domestic animals, we searched the scientific literature and compiled reports on 42 <i>de novo</i> variants in 31 genes in domestic animals. No clear disease-associated phenotype has been established in humans for three of these genes (<i>NUMB</i>, <i>ANKRD28</i> and <i>KCNG1</i>). For the remaining 28 genes, a strong similarity between animal and human phenotypes was recognized from available information in OMIM and OMIA, revealing the importance of comparative studies and supporting the use of domestic animals as natural models for human diseases, in line with the One Health approach.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13403","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139696831","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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