Animal Biotechnology最新文献_第9页

Bioinformatics analysis and the association of polymorphisms within the caprine GDF9 gene promoter with economically useful traits in Damani goats. 生物信息学分析以及达曼尼山羊 GDF9 基因启动子多态性与经济有用性状的关联。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2022-12-28 DOI: 10.1080/10495398.2022.2154676

Aftab Ullah, Rajwali Khan, Syed Muhammad Suhail, Ijaz Ahmad, Farhan Anwar Khan, Muhammad Subhan Qureshi, Nazir Ahmad Khan, Amel Ayari-Akkari, Dalia Abd El Moneim Ahmed

{"title":"Bioinformatics analysis and the association of polymorphisms within the caprine GDF9 gene promoter with economically useful traits in Damani goats.","authors":"Aftab Ullah, Rajwali Khan, Syed Muhammad Suhail, Ijaz Ahmad, Farhan Anwar Khan, Muhammad Subhan Qureshi, Nazir Ahmad Khan, Amel Ayari-Akkari, Dalia Abd El Moneim Ahmed","doi":"10.1080/10495398.2022.2154676","DOIUrl":"10.1080/10495398.2022.2154676","url":null,"abstract":"The blood sample from 60 Damani does were collected and genomic DNA was extracted, and DNA integrity were investigated. A 447 bp promoter fragment of the GDF9 gene was amplified and Sanger sequenced for the identification of GDF9 gene polymorphism. Three novel SNPs were identified at positions g. 97(T > A), g. 142 (G > G) and g. 313(C > T) in the promoter region of the caprine GDF9 gene which significantly (P < 0.05) influenced litter size, body measurement, and milk production traits in Damani goats. The genotype CT of SNP1 significantly (P < 0.05) improved litter size, genotype GG of SNP2 significantly (P < 0.05) enhanced milk production, while the genotypes CC of SNP3 significant (P < 0.05) increased body measurement traits in Damani goats. Moreover, in SNP1 loss of 3 transcription factors (TF) binding sites occurred, SNP2 caused loss of two TFs binding sites, and SNP3 caused loss of a single TF binding site. Similarly, SNP1 and SNP2 caused the gain of three new potential TF binding sites, and SNP3 caused gain of two new TF binding sites. It is concluded that caprine GDF9 gene could be used as a candidate gene for litter size, milk production and body measurement traits in Damani goats through marker-assisted selection for future breeding program.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"3449-3460"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10809693","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Uncovering genes underlying coat color variation in indigenous cattle breeds through genome-wide positive selection. 通过全基因组正向选择揭示本土牛种毛色变异的基础基因。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-07-26 DOI: 10.1080/10495398.2023.2240387

Divya Rajawat, Manjit Panigrahi, Sonali Sonejita Nayak, Kanika Ghildiyal, Anurodh Sharma, Harshit Kumar, Subhashree Parida, Bharat Bhushan, G K Gaur, B P Mishra, Triveni Dutt

{"title":"Uncovering genes underlying coat color variation in indigenous cattle breeds through genome-wide positive selection.","authors":"Divya Rajawat, Manjit Panigrahi, Sonali Sonejita Nayak, Kanika Ghildiyal, Anurodh Sharma, Harshit Kumar, Subhashree Parida, Bharat Bhushan, G K Gaur, B P Mishra, Triveni Dutt","doi":"10.1080/10495398.2023.2240387","DOIUrl":"10.1080/10495398.2023.2240387","url":null,"abstract":"The identification of candidate genes related to pigmentation and under selective sweep provides insights into the genetic basis of pigmentation and the evolutionary forces that have shaped this variation. The selective sweep events in the genes responsible for normal coat color in Indian cattle groups are still unknown. To find coat color genes displaying signs of selective sweeps in the indigenous cattle, we compiled a list of candidate genes previously investigated for their association with coat color and pigmentation. After that, we performed a genome-wide scan of positive selection signatures using the BovineSNP50K Bead Chip in 187 individuals of seven indigenous breeds. We applied a wide range of methods to find evidence of selection, such as Tajima's D, CLR, iHS, varLD, ROH, and FST. We found a total of sixteen genes under selective sweep, that were involved in coat color and pigmentation physiology. These genes are CRIM1 in Gir, MC1R in Sahiwal, MYO5A, PMEL and POMC in Tharparkar, TYRP1, ERBB2, and ASIP in Red Sindhi, MITF, LOC789175, PAX3 and TYR in Ongole, and IRF2, SDR165 and, KIT in Nelore, ADAMTS19 in Hariana. These genes are related to melanin synthesis, the biology of melanocytes and melanosomes, and the migration and survival of melanocytes during development.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"3920-3933"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9861951","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Detection of single nucleotide polymorphism in HTR4 and its relationship with growth traits in sheep. 绵羊 HTR4 单核苷酸多态性的检测及其与生长性状的关系

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-02-13 DOI: 10.1080/10495398.2023.2174877

Dan Xu, Xiaojuan Wang, Weimin Wang, Deyin Zhang, Xiaolong Li, Yukun Zhang, Yuan Zhao, Jiangbo Cheng, Liming Zhao, Jianghui Wang, Changchun Lin, Xiaobin Yang, Xiuxiu Weng, Xiaoxue Zhang, Wenxin Zheng

{"title":"Detection of single nucleotide polymorphism in HTR4 and its relationship with growth traits in sheep.","authors":"Dan Xu, Xiaojuan Wang, Weimin Wang, Deyin Zhang, Xiaolong Li, Yukun Zhang, Yuan Zhao, Jiangbo Cheng, Liming Zhao, Jianghui Wang, Changchun Lin, Xiaobin Yang, Xiuxiu Weng, Xiaoxue Zhang, Wenxin Zheng","doi":"10.1080/10495398.2023.2174877","DOIUrl":"10.1080/10495398.2023.2174877","url":null,"abstract":"In this study, a single nucleotide polymorphism of HTR4 (hydroxytryptamine receptor 4) was detected using DNA sequencing and KASPar (Kompetitive Allele-Specific PCR) technique with the aim of analyzing its effect on growth traits in 1102 sheep. A synonymous mutation g.101220 C > T located on the fifth intron of the ovis HTR4 gene was detected, and association analysis showed that this mutation was significantly associated with growth traits in sheep (p ＜.05), with TT genotypes having significantly lower body weight, height, length and chest circumference than TC and CC genotypes. It showed that the polymorphism of this locus was significantly associated with growth traits in sheep. In addition, qRT-PCR results showed that HTR4 was expressed in different tissues of sheep. It is highly expressed in the liver, spleen and duodenum. As important metabolic, immune and digestive absorption organs in animals, the above tissues can regulate the excitability of intestinal smooth muscle by participating in the body metabolism and nutrient metabolism of sheep, so that sheep can show better growth characteristics. In conclusion, the polymorphic locus identified in HTR4 gene can be used as candidate molecular marker in sheep breeding.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4600-4607"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9263928","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Potential status of A1 and A2 variants of bovine beta-casein gene in milk samples of Indian cattle breeds. 印度牛种牛奶样本中牛 beta-酪蛋白基因 A1 和 A2 变体的潜在状况。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-04-18 DOI: 10.1080/10495398.2023.2200502

Rupali Khan, Sachinandan De, Rahul Dewangan, Rajendra Tamboli, Reeshu Gupta

{"title":"Potential status of A1 and A2 variants of bovine beta-casein gene in milk samples of Indian cattle breeds.","authors":"Rupali Khan, Sachinandan De, Rahul Dewangan, Rajendra Tamboli, Reeshu Gupta","doi":"10.1080/10495398.2023.2200502","DOIUrl":"10.1080/10495398.2023.2200502","url":null,"abstract":"This study aimed to determine the polymorphism in 7th exon of beta-casein gene (CSN2) gene in seven domestic (Kosali, Tharparkar, Gangatiri, Sahiwal, Gir, Khariar, Motu) and two exotic cattle breeds (Jersey and Holstein-Friesian). Genomic DNA was extracted from 1000 milk samples, and the C > A polymorphism in CSN2 was determined using the tetra-primer amplification refractory mutation system-polymerase chain reaction method. In all Indigenous cattle breeds, the mean frequency of A1A2 and A2A2 genotypes was 0.19 and 0.80, respectively. The A1A1 genotype was absent in all seven domestic cattle breeds. The frequency of the A2A2 genotype was highest in the Gir breed (0.93). However, the Sahiwal, Tharparkar, and Motu breeds also had a higher frequency of A2A2 genotype compared to other breeds. In contrast, Gangatiri breed of India showed lowest frequency of A2A2 genotype. The mean A1 and A2 allele frequency was 0.09 and 0.91, respectively. In exotic breeds, the mean frequencies of the A1A1, A1A2, and A2A2 genotypes were 0.42, 0.55, and 0.03, respectively. Similarly, the mean A1 and A2 allele frequency was 0.69 and 0.31, respectively. This study suggests the high potential of Gir, Sahiwal, Tharparkar, and Motu cattle for A2 milk production since they carry a favorable A2 genotype.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4878-4884"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9323418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Characteristic of the components and the metabolism mechanism of goat colostrum: a review. 山羊初乳的成分特征和代谢机制：综述。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-04-11 DOI: 10.1080/10495398.2023.2199500

Aimin Zhou, Guiqiong Liu, Xunping Jiang

{"title":"Characteristic of the components and the metabolism mechanism of goat colostrum: a review.","authors":"Aimin Zhou, Guiqiong Liu, Xunping Jiang","doi":"10.1080/10495398.2023.2199500","DOIUrl":"10.1080/10495398.2023.2199500","url":null,"abstract":"Colostrum contains large number of nutrients that promote the growth, differentiation, and biological functions for goat kids early somatic cells, which is crucial to meet the nutritional demands, immune function, and the health of goat kids later growth. Great attention has been given not only to nutritional ingredient differences between colostrum and normal milk, but also to function differences, and their effect on the physical and sensory properties of goat kid's growth performance and health status. This paper reviews the research progress of goat colostrum in recent years, mainly including the colostrum yield, components, i.e., proteins, lactose, and immunoglobulin, as well as the influence factor, i.e., number of lactation and littler size, nutrition during the gestation, and breeding environment. In addition, this review aims to summarize the synthesis and secretion mechanisms, and the digestion and absorption mechanism of goat colostrum. We conclude that even though the composition and physicochemical properties of goat colostrum are highly dynamic and variable, and the digestion and absorption mechanism has not been made fully clear until now, direct feed microbial (DFM) may be a promising alternative for improving the quality of colostrum that should be further explored for their practical usage.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4135-4146"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9327634","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A missense SNP in the proopiomelanocortin (POMC) gene is associated with growth traits in Awassi and Karakul sheep. 原绒毛膜促皮质素（POMC）基因中的一个错义 SNP 与阿瓦西羊和卡拉库尔羊的生长特征有关。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-04-18 DOI: 10.1080/10495398.2023.2197469

Thamer R S Aljubouri, Mohammed Baqur S Al-Shuhaib

{"title":"A missense SNP in the proopiomelanocortin (POMC) gene is associated with growth traits in Awassi and Karakul sheep.","authors":"Thamer R S Aljubouri, Mohammed Baqur S Al-Shuhaib","doi":"10.1080/10495398.2023.2197469","DOIUrl":"10.1080/10495398.2023.2197469","url":null,"abstract":"This study was conducted to assess the association between proopiomelanocortin (POMC) gene and growth traits in Awassi and Karakul sheep. PCR-single strand conformation polymorphism (SSCP) method was utilized to assess the polymorphism of POMC PCR amplicons with body weight and length, wither and rump height, chest and abdominal circumference measured at birth, 3, 6, 9, and 12 months intervals. Only one missense SNP (rs424417456:C > A) was detected in exon-2, in which glycine was converted to cysteine in the 65th position in POMC (p.65Gly > Cys). rs424417456 SNP showed significant associations with all growth traits in the third, sixth, ninth, and twelfth months. At the age of 3 months onward, lambs with CC genotype showed higher body weight, body length, wither and rump heights, and chest and abdominal circumferences than lambs with CA and AA genotypes, respectively. Prediction analyses indicated a deleterious effect of p.65Gly > Cys on POMC structure, function, and stability. Owing to the strong correlation between rs424417456:CC and better growth characteristics, this genotype is proposed as a promising marker to enhance growth traits in Awassi and Karakul sheep. The predicted damaging effects caused by rs424417456:CA and rs424417456:AA genotypes may entail a putative mechanism through which lambs with these genotypes exhibit lower growth traits.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4837-4850"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9374172","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Polymorphism and expression level of the FADS3 gene and associated with the growth traits in Hu sheep. FADS3基因的多态性和表达水平及其与胡羊生长性状的关系

IF 1.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-04-11 DOI: 10.1080/10495398.2023.2196313

Xiwen Zeng, Weimin Wang, Deyin Zhang, Xiaolong Li, Yukun Zhang, Yuan Zhao, Liming Zhao, Jianghui Wang, Dan Xu, Jiangbo Cheng, Wenxin Li, Bubo Zhou, Changchun Lin, Xiaobin Yang, Rui Zhai, Zongwu Ma, Jia Liu, Panpan Cui, Xiuxiu Weng, Weiwei Wu, Xiaoxue Zhang, Wenxin Zheng

{"title":"Polymorphism and expression level of the FADS3 gene and associated with the growth traits in Hu sheep.","authors":"Xiwen Zeng, Weimin Wang, Deyin Zhang, Xiaolong Li, Yukun Zhang, Yuan Zhao, Liming Zhao, Jianghui Wang, Dan Xu, Jiangbo Cheng, Wenxin Li, Bubo Zhou, Changchun Lin, Xiaobin Yang, Rui Zhai, Zongwu Ma, Jia Liu, Panpan Cui, Xiuxiu Weng, Weiwei Wu, Xiaoxue Zhang, Wenxin Zheng","doi":"10.1080/10495398.2023.2196313","DOIUrl":"10.1080/10495398.2023.2196313","url":null,"abstract":"Growth traits are the economically important traits of sheep, and screening for genes related to growth and development is helpful for the genetic improvement of ovine growth traits. The fatty acid desaturase 3 (FADS3) is one of the important genes affecting the synthesis and accumulation of polyunsaturated fatty acids in animals. In this study, the expression levels of the FADS3 gene and polymorphism of the FADS3 gene associated with growth traits in Hu sheep were detected using quantitative real-time PCR (qRT-PCR), Sanger sequencing, and KAspar assay. The result showed that the expression levels of the FADS3 gene were widely expressed in all tissues, and the expression level of FADS3 in the lung was significantly higher than in other tissues (p < .05). Then, the polymorphism locus g. 2918 A > C was detected in intron 2 of the FADS3 gene, and associated analysis showed that the mutation in the FADS3 gene was associated significantly with growth traits (including body weight, body height, body length, and chest circumference, p < .05). Therefore, individuals with AA genotype showed significantly better growth traits than those with CC genotype, and FADS3 gene could be a candidate gene for improving growth traits in Hu sheep.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4793-4802"},"PeriodicalIF":1.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9267254","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A 14-bp deletion in bovine EPAS1 gene is associated with carcass traits. 牛 EPAS1 基因中 14-bp 的缺失与胴体特征有关。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-01-22 DOI: 10.1080/10495398.2023.2166841

Enhui Jiang, Hongyang Wang, Xuelan Li, Yi Bi, Cui Mao, Fugui Jiang, Enliang Song, Xianyong Lan

引用次数: 0

Transcriptome profiling of bovine endometrial epithelial cells induced by lipopolysaccharides in vitro. 脂多糖体外诱导的牛子宫内膜上皮细胞转录组图谱。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2023-02-09 DOI: 10.1080/10495398.2023.2174876

GuangWei Zhou, PuXiu Shen, Yu Sun, Xing Zhang, ChenBo Yan, JingCheng Yu, Fang Liu, DeXin Yang, LiXin Deng, EnBu Xu, YiZhen Wang, Lin Liu, Chao Tong, Tao Sun, XueBing Wang

{"title":"Transcriptome profiling of bovine endometrial epithelial cells induced by lipopolysaccharides in vitro.","authors":"GuangWei Zhou, PuXiu Shen, Yu Sun, Xing Zhang, ChenBo Yan, JingCheng Yu, Fang Liu, DeXin Yang, LiXin Deng, EnBu Xu, YiZhen Wang, Lin Liu, Chao Tong, Tao Sun, XueBing Wang","doi":"10.1080/10495398.2023.2174876","DOIUrl":"10.1080/10495398.2023.2174876","url":null,"abstract":"Endometritis is an inflammation of the surface of the endometrium that does not penetrate the submucosa and can cause infertility and increase the elimination rate in cows. Endometrial epithelial cells are the first barrier of the endometrium against foreign stimuli and bacterial infection. Understanding the genetic changes in stimulated endometrial epithelial cells will help in the efforts to prevent and treat endometritis. This study investigated changes in bovine endometrial epithelial (BEEC) gene expression induced by lipopolysaccharide (LPS)-induced inflammation and compared transcriptome-wide gene changes between LPS- and phosphate-buffered saline (PBS)- treated BEECs by RNA sequencing. Compared with the PBS group, the LPS group showed 60 differentially expressed genes (DEGs) (36 upregulated, 24 downregulated). Gene Ontology enrichment analysis revealed that most enrichment occurred during CXCR chemokine receptor binding, inflammatory response, and neutrophil migration. Kyoto Encyclopedia of Genes and Genomes pathway analysis showed DEGs mainly concentrated in cytokine-cytokine receptor interactions; IL-17, tumor necrosis factor, NOD-like receptor, chemokine, Toll-like receptor, and nuclear factor-κB signaling pathways; and the cytoplasmic DNA sensing pathway. Moreover, results revealed that cytokines SAA3 and HP increased significantly after LPS treatment. These effects of LPS on BEECs transcriptome and the molecular mechanism of endometritis provide a basis for improved clinical treatment and novel drug development.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"4588-4599"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10675653","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genome-wide unraveling SNP pairwise epistatic effects associated with sheep body weight. 在全基因组范围内揭示与绵羊体重相关的 SNP 配对外显效应。

IF 3.7 3区农林科学

Animal Biotechnology Pub Date : 2023-12-01 Epub Date: 2022-12-10 DOI: 10.1080/10495398.2022.2152349

Peng Zuo, Chaoxin Zhang, Yupeng Gao, Lijunyi Zhao, Jiaxu Guo, Yonglin Yang, Qian Yu, Yunna Li, Zhipeng Wang, Hua Yang

{"title":"Genome-wide unraveling SNP pairwise epistatic effects associated with sheep body weight.","authors":"Peng Zuo, Chaoxin Zhang, Yupeng Gao, Lijunyi Zhao, Jiaxu Guo, Yonglin Yang, Qian Yu, Yunna Li, Zhipeng Wang, Hua Yang","doi":"10.1080/10495398.2022.2152349","DOIUrl":"10.1080/10495398.2022.2152349","url":null,"abstract":"Epistatic effects are an important part of the genetic effect of complex traits in livestock. In this study, we used 218 synthetic ewes from the Xinjiang Academy of Agricultural Reclamation in China to identify interacting paired with genome-wide single nucleotide polymorphisms (SNPs) associated with birth weight, weaning weight, and one-yearling weight. We detected 2 and 66 SNP-SNP interactions of sheep birth weight and weaning weight, respectively. No significant epistatic interaction of one-year-old body weight was detected. The genetic interaction of sheep body weight is dynamic and time-dependent. Most significant interactions of weaning body weight contributed 1% or higher. In the weaning weight trait, 66 significant SNP pairs consisted of 98 single SNPs covering 23 chromosomes, 5 of which were nonsynonymous SNPs (nsSNPs), resulting in single amino acid substitution. We found that genes that interact with transcription factors (TFs) are target genes for the corresponding TFs. Four epitron networks affecting weaning weight, including subnetworks of HIVEP3 and BACH2 transcription factors, constructed using significant SNP pairs, were also analyzed and annotated. These results suggest that transcription factors may play an important role in explaining epistatic effects. It provides a new idea to study the genetic mechanism of weight developing.","PeriodicalId":7836,"journal":{"name":"Animal Biotechnology","volume":" ","pages":"3416-3427"},"PeriodicalIF":3.7,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10741701","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0