Animal genetics最新文献_第9页

Differential expression of ASIP transcripts reveals genetic mechanism underpinning black-tail independence from body plumage in yellow-bodied chickens ASIP转录本的差异表达揭示了黄腹鸡黑尾独立于体羽的遗传机制。

IF 2.4 3区生物学

Animal genetics Pub Date : 2024-01-09 DOI: 10.1111/age.13395

Xiaotong Zheng, Jianfei Chen, Ruixue Nie, Huanhuan Miao, Ziwei Chen, Jiaheng He, Yinku Xie, Hao Zhang

{"title":"Differential expression of ASIP transcripts reveals genetic mechanism underpinning black-tail independence from body plumage in yellow-bodied chickens","authors":"Xiaotong Zheng, Jianfei Chen, Ruixue Nie, Huanhuan Miao, Ziwei Chen, Jiaheng He, Yinku Xie, Hao Zhang","doi":"10.1111/age.13395","DOIUrl":"10.1111/age.13395","url":null,"abstract":"The genetic foundation of chicken body plumage color has been extensively studied. However, little attention has been paid to the inheritance patterns and molecular mechanisms underlying the formation of distal feather colors (tail and wingtip). Differences in these colors are common; for example, the Chinese Huiyang Beard chicken has black tail feathers, but yellow body plumage. Here, the hybrid offspring of Huiyang Beard and White Leghorn chickens were used to study the inheritance patterns of tail-feather color. The expression levels of pigment genes in differently colored feather follicles were analyzed using quantitative real-time PCR. The results showed that genetic regulation of tail-feather color was independent of body-plumage color. The Dominant White locus inhibited eumelanin synthesis in tail feathers without affecting the formation of yellow body plumage, whereas the Silver locus had the opposite effect. The expression of agouti signaling protein (ASIP) gene class 1 transcripts was significantly lower in black tail-feather follicles than in yellow body follicles, whereas tyrosinase-related protein 1 (TYRP1) gene expression was significantly higher in black tail feathers. These differentially expressed genes were confirmed to exert an effect on eumelanin and pheomelanin formation in feathers, thus influencing the regulation of chicken tail-feather color. In conclusion, this study lays the foundation for further research on the genetic mechanisms of regional differences in feather color, contributing to a better understanding of plumage pigmentation in chickens.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139401523","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 population-informative markers from high-density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds 通过组合特征选择和机器学习算法从高密度基因分型数据中识别种群信息标记：欧洲本土猪种和世界猪种的应用。

IF 2.4 3区生物学

Animal genetics Pub Date : 2024-01-08 DOI: 10.1111/age.13396

Giuseppina Schiavo, Francesca Bertolini, Samuele Bovo, Giuliano Galimberti, María Muñoz, Riccardo Bozzi, Marjeta Čandek-Potokar, Cristina Óvilo, Luca Fontanesi

{"title":"Identification of population-informative markers from high-density genotyping data through combined feature selection and machine learning algorithms: Application to European autochthonous and cosmopolitan pig breeds","authors":"Giuseppina Schiavo, Francesca Bertolini, Samuele Bovo, Giuliano Galimberti, María Muñoz, Riccardo Bozzi, Marjeta Čandek-Potokar, Cristina Óvilo, Luca Fontanesi","doi":"10.1111/age.13396","DOIUrl":"10.1111/age.13396","url":null,"abstract":"Large genotyping datasets, obtained from high-density single nucleotide polymorphism (SNP) arrays, developed for different livestock species, can be used to describe and differentiate breeds or populations. To identify the most discriminating genetic markers among thousands of genotyped SNPs, a few statistical approaches have been proposed. In this study, we applied the Boruta algorithm, a wrapper of the machine learning random forest algorithm, on a database of 23 European pig breeds (20 autochthonous and three cosmopolitan breeds) genotyped with a 70k SNP chip, to pre-select informative SNPs. To identify different sets of SNPs, these pre-selected markers were then ranked with random forest based on their mean decrease accuracy and mean decrease gene indexes. We evaluated the efficiency of these subsets for breed classification and the usefulness of this approach to detect candidate genes affecting breed-specific phenotypes and relevant production traits that might differ among breeds. The lowest overall classification error (2.3%) was reached with a subpanel including only 398 SNPs (ranked based on their mean decrease accuracy), with no classification error in seven breeds using up to 49 SNPs. Several SNPs of these selected subpanels were in genomic regions in which previous studies had identified signatures of selection or genes associated with morphological or production traits that distinguish the analysed breeds. Therefore, even if these approaches have not been originally designed to identify signatures of selection, the obtained results showed that they could potentially be useful for this purpose.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13396","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139401442","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

Genome-wide association analysis revealed new QTL and candidate genes affecting the teat number in Dutch Large White pigs 全基因组关联分析揭示了影响荷兰大白猪乳头数的新 QTL 和候选基因。

IF 2.4 3区生物学

Animal genetics Pub Date : 2024-01-08 DOI: 10.1111/age.13397

Michao Deng, Zijian Qiu, Chenxi Liu, Lijing Zhong, Xinfeng Fan, Yuquan Han, Ran Wang, Pinghua Li, Ruihua Huang, Qingbo Zhao

{"title":"Genome-wide association analysis revealed new QTL and candidate genes affecting the teat number in Dutch Large White pigs","authors":"Michao Deng, Zijian Qiu, Chenxi Liu, Lijing Zhong, Xinfeng Fan, Yuquan Han, Ran Wang, Pinghua Li, Ruihua Huang, Qingbo Zhao","doi":"10.1111/age.13397","DOIUrl":"10.1111/age.13397","url":null,"abstract":"Teat number (TNUM) is an important reproductive trait of sows, which affects the weaning survival rate of piglets. In this study, 1166 Dutch Large White pigs with TNUM phenotype were used as the research object. These pigs were genotyped by 50K SNP chip and the chip data were further imputed to the resequencing level. The estimated heritabilities of left teat number (LTN), right teat number (RTN) and total teat number (TTN) were 0.21, 0.19 and 0.3, respectively. Based on chip data, significant SNPs for RTN on SSC2, SSC5, SSC9 and SSC13 were identified using genome-wide association analysis (GWAS). Significant SNPs for TTN were identified on SSC2, SSC5 and SSC7. Based on imputed data, the GWAS identified a significant SNP (rs329158522) for LTN on SSC17, two significant SNPs (rs342855242 and rs80813115) for RTN on SSC2 and SSC9, and two significant SNPs (rs327003548 and rs326943811) for TTN on SSC5 and SSC6. Among them, four novel QTL were discovered. The Bayesian fine-mapping method was used to fine map the QTL identified in the GWAS of the imputed data, and the confidence intervals of QTL affecting LTN (SSC17: 45.22–46.20 Mb), RTN (SSC9: 122.18–122.80 Mb) and TTN (SSC5: 14.01–15.91 Mb, SSC6: 120.06–121.25 Mb) were detected. A total of 52 candidate genes were obtained. Furthermore, we identified five candidate genes, WNT10B, AQP5, FMNL3, NUAK1 and CKAP4, for the first time, which involved in breast development and other related functions by gene annotation. Overall, this study provides new molecular markers for the breeding of teat number in pigs.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13397","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139401441","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

Evaluating three strategies of genome-wide association analysis for integrating data from multiple populations 评估整合多人群数据的三种全基因组关联分析策略。

IF 2.4 3区生物学

Animal genetics Pub Date : 2024-01-07 DOI: 10.1111/age.13394

Zhanming Zhong, Guangzhen Li, Zhiting Xu, Haonan Zeng, Jinyan Teng, Xueyan Feng, Shuqi Diao, Yahui Gao, Jiaqi Li, Zhe Zhang

{"title":"Evaluating three strategies of genome-wide association analysis for integrating data from multiple populations","authors":"Zhanming Zhong, Guangzhen Li, Zhiting Xu, Haonan Zeng, Jinyan Teng, Xueyan Feng, Shuqi Diao, Yahui Gao, Jiaqi Li, Zhe Zhang","doi":"10.1111/age.13394","DOIUrl":"10.1111/age.13394","url":null,"abstract":"In livestock, genome-wide association studies (GWAS) are usually conducted in a single population (single-GWAS) with limited sample size and detection power. To enhance the detection power of GWAS, meta-analysis of GWAS (meta-GWAS) and mega-analysis of GWAS (mega-GWAS) have been proposed to integrate data from multiple populations at the level of summary statistics or individual data, respectively. However, there is a lack of comparison for these different strategies, which makes it difficult to guide the best practice of GWAS integrating data from multiple study populations. To maximize the comparison of different association analysis strategies across multiple populations, we conducted single-GWAS, meta-GWAS, and mega-GWAS for the backfat thickness of 100 kg (BFT_100) and days to 100 kg (DAYS_100) within each of the three commercial pig breeds (Duroc, Yorkshire, and Landrace). Based on controlling the genome inflation factor to one, we calculated corrected p-values (pC). In Yorkshire, with the largest sample size, mega-GWAS, meta-GWAS and single-GWAS detected 149, 38 and 20 significant SNPs (pC < 1E-5) associated with BFT_100, as well as 26, four, and one QTL, respectively. Among them, pC of SNPs from mega-GWAS was the lowest, followed by meta-GWAS and single-GWAS. The correlation of pC among the three GWAS strategies ranged from 0.60 to 0.75 and the correlation of SNP effect values between meta-GWAS and mega-GWAS was 0.74, all showing good agreement. Collectively, even though there are differences in the integration of individual data or summary statistics, integrating data from multiple populations is an effective means of genetic argument for complex traits, especially mega-GWAS versus single-GWAS.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-01-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139377129","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

Integrated analysis of differently expressed microRNAs and mRNAs at different postnatal stages reveals intramuscular fat deposition regulation in goats (Capra hircus) 对山羊（Capra hircus）出生后不同阶段不同表达的微RNA和mRNA进行综合分析，揭示了山羊肌肉内脂肪沉积的调控机制。

IF 2.4 3区生物学

Animal genetics Pub Date : 2024-01-04 DOI: 10.1111/age.13384

Wenyang Zhang, Yu Liao, Peng Shao, Yuling Yang, Lian Huang, Zhanyu Du, Changhui Zhang, Yong Wang, Yaqiu Lin, Jiangjiang Zhu

{"title":"Integrated analysis of differently expressed microRNAs and mRNAs at different postnatal stages reveals intramuscular fat deposition regulation in goats (Capra hircus)","authors":"Wenyang Zhang, Yu Liao, Peng Shao, Yuling Yang, Lian Huang, Zhanyu Du, Changhui Zhang, Yong Wang, Yaqiu Lin, Jiangjiang Zhu","doi":"10.1111/age.13384","DOIUrl":"10.1111/age.13384","url":null,"abstract":"Intramuscular fat refers to the adipose tissue distributed in the muscle. It is an important indicator that affects the quality of goat meat, and can directly affect the tenderness and flavor of goat meat. Our previous study revealed the mRNA that may be crucial for intramuscular fat deposition during goat growth; however, how the microRNAs (miRNAs) are involved in the process is largely unclear. In the present study, a total of 401 known miRNAs and 120 goat novel miRNAs, including 110 differentially expressed (DE) miRNAs, were identified among longissimus dorsi from three growth stages (2, 9, and 24 months) by miRNA sequencing. Combining analysis of the DE mRNAs and DE miRNAs was then performed by miRDB and miRwalk, and miR-145-5p and FOXO1, miR-487b-3p, and PPARG coactivator 1 α (PPARGC1A), miR-345-3p, and solute carrier family 2 member 4 (SLC2A4), etc. were shown to closely associate with lipid metabolism, which was then validated by a correlation analysis. The final DE mRNAs were significantly enriched in fatty acid transmembrane transport, fatty acid homeostasis, apelin signaling pathway, glucagon signaling pathway, insulin signaling pathway, and AMPK signaling pathway by gene ontology and Kyoto Encyclopedia of Genes and Genomes analysis. Besides, miR-145-5p showed a certain effect on goat intramuscular fat metabolism by acting on the possible target gene Forkhead Box O1 (FOXO1). These data provide some theoretical support for improving the quality of goat meat.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-01-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139085570","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

Genome-wide association studies for the number of piglets born alive and dead in Dongliao black pigs 东辽黑猪出生仔猪成活和死亡数量的全基因组关联研究。

IF 2.4 3区生物学

Animal genetics Pub Date : 2023-12-26 DOI: 10.1111/age.13385

Hao Sun, Yu Cheng, Yu He, Chao Cheng, Hongxia Zhao, Sumei Yang, Meng Wei, Jingxiu Yang, Shuang Liang, Chunyan Bai, Boxing Sun

引用次数: 0

Single and longitudinal genome-wide association studies for dairy traits available in goats with three recorded lactations 对有三次泌乳记录的山羊进行乳制品性状的单基因组和纵向全基因组关联研究。

IF 2.4 3区生物学

Animal genetics Pub Date : 2023-12-22 DOI: 10.1111/age.13391

Maria Gracia Luigi-Sierra, Amparo Martínez, Martina Macri, Juan Vicente Delgado, Anna Castelló, Javier Fernández Alvarez, Xavier Such, Jordi Jordana, Marcel Amills

{"title":"Single and longitudinal genome-wide association studies for dairy traits available in goats with three recorded lactations","authors":"Maria Gracia Luigi-Sierra, Amparo Martínez, Martina Macri, Juan Vicente Delgado, Anna Castelló, Javier Fernández Alvarez, Xavier Such, Jordi Jordana, Marcel Amills","doi":"10.1111/age.13391","DOIUrl":"10.1111/age.13391","url":null,"abstract":"Milk yield and composition phenotypes are systematically recorded across several lactations in goats, but the majority of genome-wide association studies (GWAS) performed so far have rather ignored the longitudinal nature of such data. Here, we have used two different GWAS approaches to analyse data from three lactations recorded in Murciano-Granadina goats. In Analysis 1, independent GWAS have been carried out for each trait and lactation, while a single longitudinal GWAS, jointly considering all data, has been performed in Analysis 2. In both analyses, genome-wide significant QTL for lactose percentage on chromosome 2 (129.77–131.01 Mb) and for milk protein percentage on the chromosome 6 (74.8–94.6 Mb) casein gene cluster region were detected. In Analysis 1, several QTL were not replicated in all three lactations, possibly due to the existence of lactation-specific genetic determinants. In Analysis 2, we identified several genome-wide significant QTL related to milk yield and protein content that were not uncovered in Analysis 1. The increased number of QTL identified in Analysis 2 suggests that the longitudinal GWAS is particularly well suited for the genetic analysis of dairy traits. Moreover, our data confirm that variability within or close to the casein complex is the main genetic determinant of milk protein percentage in Murciano-Granadina goats.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2023-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13391","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138827775","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

Review: Wildlife forensic genetics—Biological evidence, DNA markers, analytical approaches, and challenges 回顾：野生动物法医遗传学--生物证据、DNA 标记、分析方法和挑战。

IF 2.4 3区生物学

Animal genetics Pub Date : 2023-12-20 DOI: 10.1111/age.13390

Sree Kanthaswamy

{"title":"Review: Wildlife forensic genetics—Biological evidence, DNA markers, analytical approaches, and challenges","authors":"Sree Kanthaswamy","doi":"10.1111/age.13390","DOIUrl":"10.1111/age.13390","url":null,"abstract":"Wildlife-related crimes are the second most prevalent lawbreaking offense globally. This illicit trade encompasses hunting, breeding and trafficking. Besides diminishing many species and their habitats and ecosystems, hindering the economic development of local communities that depend on them, undermining the rule of law and financing terrorism, various cross-species transmissions (zoonoses) of pathogens, including COVID-19, can be attributed to wildlife crimes. Wildlife forensics applies interdisciplinary scientific analyses to support law enforcement in investigating wildlife crimes. Its main objectives are to identify the taxonomic species in question, determine if a crime has been committed, link a suspect to the crime and support the conviction and prosecution of the perpetrator. This article reviews wildlife crime and its implications, wildlife forensic science investigation, common forms of wildlife biological evidence, including DNA, wildlife DNA techniques and challenges in wildlife forensic genetics. The article also reviews the contributions of genetic markers such as short tandem repeat (STR) and mitochondrial DNA (mtDNA) markers, which provide the probative genetic data representing the bulk of DNA evidence for solving wildlife crime. This review provides an overview of wildlife DNA databases, which are critical for searching and matching forensic DNA profiles and sequences and establishing how frequent forensic DNA profiles and sequences are in a particular population or geographic region. As such, this review will contain an in-depth analysis of the current status of wildlife forensic genetics, and it will be of general interest to wildlife and conservation biologists, law enforcement officers, and academics interested in combating crimes against wildlife using animal forensic DNA methods.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2023-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13390","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138827774","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

Insights into the influence of diet and genetics on feed efficiency and meat production in sheep 洞察日粮和遗传对绵羊饲料效率和产肉量的影响。

IF 2.4 3区生物学

Animal genetics Pub Date : 2023-12-19 DOI: 10.1111/age.13383

Steffimol Rose Chacko Kaitholil, Mark H. Mooney, Aurélie Aubry, Faisal Rezwan, Masoud Shirali

{"title":"Insights into the influence of diet and genetics on feed efficiency and meat production in sheep","authors":"Steffimol Rose Chacko Kaitholil, Mark H. Mooney, Aurélie Aubry, Faisal Rezwan, Masoud Shirali","doi":"10.1111/age.13383","DOIUrl":"10.1111/age.13383","url":null,"abstract":"Feed costs and carcass yields affect the profitability and sustainability of sheep production. Therefore, it is crucial to select animals with a higher feed efficiency and high-quality meat production. This study focuses on the impact of dietary and genetic factors on production traits such as feed efficiency, carcass quality, and meat quality. Diets promote optimal sheep growth and development and provide sufficient protein can lead to higher-quality meat. However, establishing an optimized production system requires careful consideration and balance of dietary parameters. This includes ensuring adequate protein intake and feeding diets with higher intestinal absorption rates to enhance nutrient absorption in the gut. The study identifies specific genes, such as Callipyge, Calpastatin, and Myostatin, and the presence of causal mutations in these genes, as factors influencing animal growth rates, feed efficiency, and meat fatty acid profiles. Additionally, variants of other reported genes, including PIGY, UCP1, MEF2B, TNNC2, FABP4, SCD, FASN, ADCY8, ME1, CA1, GLIS1, IL1RAPL1, SOX5, SOX6, and IGF1, show potential as markers for sheep selection. A meta-analysis of reported heritability estimates reveals that residual feed intake (0.27 ± 0.07), hot carcass weight (0.26 ± 0.05), dressing percentage (0.23 ± 0.05), and intramuscular fat content (0.45 ± 0.04) are moderately to highly heritable traits. This suggests that these traits are less influenced by environmental factors and could be improved through genetic selection. Additionally, positive genetic correlations exist between body weight and hot carcass weight (0.91 ± 0.06), dressing percentage (0.35 ± 0.15), and shear force (0.27 ± 0.24), indicating that selecting for higher body weight could lead to favorable changes in carcass quality, and meat quality.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2023-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/age.13383","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138795215","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

A network-based approach to understanding gene–biological processes affecting economically important traits of Nelore cattle 用基于网络的方法了解影响奈洛牛重要经济性状的基因生物过程。

IF 2.4 3区生物学

Animal genetics Pub Date : 2023-12-19 DOI: 10.1111/age.13389

Mariely Simone Lopes Corrêa, Evandro Neves Silva, Thaís Cristina Ferreira dos Santos, Larissa Fernanda Simielli Fonseca, Ana Fabrícia Braga Magalhães, Lucas Lima Verardo, Lucia Galvão de Albuquerque, Danielly Beraldo dos Santos Silva

{"title":"A network-based approach to understanding gene–biological processes affecting economically important traits of Nelore cattle","authors":"Mariely Simone Lopes Corrêa, Evandro Neves Silva, Thaís Cristina Ferreira dos Santos, Larissa Fernanda Simielli Fonseca, Ana Fabrícia Braga Magalhães, Lucas Lima Verardo, Lucia Galvão de Albuquerque, Danielly Beraldo dos Santos Silva","doi":"10.1111/age.13389","DOIUrl":"10.1111/age.13389","url":null,"abstract":"This study aimed to build gene–biological process networks with differentially expressed genes associated with economically important traits of Nelore cattle from 17 previous studies. The genes were clustered into three groups by evaluated traits: group 1, production traits; group 2, carcass traits; and group 3, meat quality traits. For each group, a gene–biological process network analysis was performed with the differentially expressed genes in common. For production traits, 37 genes were found in common, of which 13 genes were enriched for six Gene Ontology (GO) terms; these terms were not functionally grouped. However, the enriched GO terms were related to homeostasis, the development of muscles and the immune system. For carcass traits, four genes were found in common. Thus, it was not possible to functionally group these genes into a network. For meat quality traits, the analysis revealed 222 genes in common. CSRP3 was the only gene differentially expressed in all three groups. Non-redundant biological terms for clusters of genes were functionally grouped networks, reflecting the cross-talk between all biological processes and genes involved. Many biological processes and pathways related to muscles, the immune system and lipid metabolism were enriched, such as striated muscle cell development and triglyceride metabolic processes. This study provides insights into the genetic mechanisms of production, carcass and meat quality traits of Nelore cattle. This information is fundamental for a better understanding of the complex traits and could help in planning strategies for the production and selection systems of Nelore cattle.","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2023-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138795157","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