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Heterozygous deletion of the NSDHL gene in an Appenzeller Mountain Dog with verrucous epidermal keratinocytic nevi Anim. Genet. (IF 2.4) Pub Date : 2024-04-25 Sarah Kiener, Brett Wildermuth, Nadine M. Meertens, Vidhya Jagannathan, Tosso Leeb
BACKGROUND Dermal mosaicism can result in skin disorders with specific distribution patterns of the lesions. The most common example is X-chromosomal functional mosaicism, in which the distribution pattern results from random X-chromosome inactivation (Lyonization) (Vreeburg & van Steensel, 2012). Three different skin patterns have been described, namely Blaschko lines, the checkerboard pattern and
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A PAX3 insertion in the Celestial breed and certain feline breeding lines with dominant blue eyes Anim. Genet. (IF 2.4) Pub Date : 2024-04-22 Marie Abitbol, Alice Couronné, Caroline Dufaure de Citres, Vincent Gache
During the last 60 years many inherited traits in domestic outbred cats were selected and retained giving birth to new breeds characterised by singular coat or morphological phenotypes. Among them, minimal white spotting associated with blue eyes was selected by feline breeders to create the Altai, Topaz, and Celestial breeds. Various established breeds also introduced this trait in their lineages
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A panel of tetranucleotide STR markers as an alternative approach to forensic DNA identification of wolf and dog Anim. Genet. (IF 2.4) Pub Date : 2024-04-22 Aliaksandra E. Hrebianchuk, Nastassia S. Parfionava, Tatsiana V. Zabauskaya, Iosif S. Tsybovsky
Commercial panels of microsatellite (STR) loci are focused on the use of DNA of the domestic dog (Canis lupus familiaris) and are often inapplicable for genotyping the DNA of the gray wolf (Canis lupus lupus). We propose a CPlex test system, including one hexa‐ and 12 tetranucleotide autosomal STR loci, as well as two sex loci, that is equally efficient in DNA identification of biological samples of
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Multiplex fluorescent amplification‐refractory mutation system PCR method for the detection of 10 genetic defects in Holstein cattle and its comparison with the KASP genotyping assay Anim. Genet. (IF 2.4) Pub Date : 2024-04-16 Md. Yousuf Ali Khan, Dongmei Dai, Xin Su, Jia Tian, Jiamin Zhou, Liqin Ma, Yachun Wang, Wan Wen, Yi Zhang
The common deleterious genetic defects in Holstein cattle include haplotypes 1–6 (HH1–HH6), haplotypes for cholesterol deficiency (HCD), bovine leukocyte adhesion deficiency (BLAD), complex vertebral malformation (CVM) and brachyspina syndrome (BS). Recessive inheritance patterns of these genetic defects permit the carriers to function normally, but homozygous recessive genotypes cause embryo loss
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Genome‐wide association study identified five quantitative trait loci and two candidate genes for digestive traits in Suhuai pigs Anim. Genet. (IF 2.4) Pub Date : 2024-04-15 Kaijun Li, Liming Hou, Taoran Du, Guang Pu, Chenxi Liu, Gensheng Liu, Juan Zhou, Ruihua Huang, Qingbo Zhao, Pinghua Li
This work aimed to identify markers and candidate genes underlying porcine digestive traits. In total, 331 pigs were genotyped by 80 K Chip data or 50 K Chip data. For apparent neutral detergent fiber digestibility, a total of 19 and 21 candidate single nucleotide polymorphisms (SNP) were respectively identified using a genome‐wide efficient mixed‐model association algorithm and linkage‐disequilibrium
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Genome‐wide association study identifies a novel candidate gene for egg production traits in chickens Anim. Genet. (IF 2.4) Pub Date : 2024-04-12 Huimin Kang, Yuedan Lu, Weitu Zhang, Guohong Hua, Jiankang Gan, Xuqing Deng, Zhengfen Zhang, Hua Li
Qingyuan partridge chicken is a renowned indigenous yellow broiler breed in China. Egg production traits are important economic traits for chickens. With the decreasing cost of whole genome resequencing, identifying candidate genes with more precision has become possible. In order to identify molecular markers and candidate genes associated with egg production traits, we conducted genome‐wide association
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The landscape of allelic expression and DNA methylation at the bovine SGCE/PEG10 locus Anim. Genet. (IF 2.4) Pub Date : 2024-04-10 Yinjiao Zhang, Cui Zhang, Weina Chen, Haonan Huo, Shujing Li, Wenli Yu, Lanjie Jin, Kun Wang, Shijie Li
Genomic imprinting is an epigenetic regulation in mammals in which a small subset of genes is monoallelically expressed dependent on their parental origin. A large imprinted domain, SGCE/PEG10 locus, is located on human chromosome 7q21s and mouse proximal chromosome 6. However, genomic imprinting of bovine SGCE/PEG10 cluster has not been systematically studied. In this study, we investigated allele
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Identification of candidate genes associated with milk production and mastitis based on transcriptome‐wide association study Anim. Genet. (IF 2.4) Pub Date : 2024-04-10 Sevda Hosseinzadeh, Seyed Abbas Rafat, Arash Javanmard, Lingzhao Fang
Genetic research for the assessment of mastitis and milk production traits simultaneously has a long history. The main issue that arises in this context is the known existence of a positive correlation between the risk of mastitis and lactation performance due to selection. The transcriptome‐wide association study (TWAS) approach endeavors to combine the expression quantitative trait loci and genome‐wide
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A novel QTL region for pH and meat color in Duroc pigs Anim. Genet. (IF 2.4) Pub Date : 2024-04-08 Eduard Molinero, Ramona N. Pena, Joan Estany, Roger Ros‐Freixedes
One of the most important processes that occur during the transformation of muscle to meat is the pH decline as a consequence of the post‐mortem metabolism of muscle tissue. Abnormal pH declines lead to pork defects such as pale, soft, and exudative meat. There is genetic variance for ultimate pH and the role of some genes on this phenotype is well established. After conducting a genome‐wide association
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Study on the origin of the Baise horse based on whole‐genome resequencing Anim. Genet. (IF 2.4) Pub Date : 2024-04-08 Xiaoran Lin, Mo Feng, Ying Li, Yu Liu, Min Wang, Yuanyuan Li, Tao Yang, Chunjiang Zhao
The Baise horse, an indigenous horse breed mainly distributed in the Baise region of Guangxi province in southwest China, has a long history as draft animal. However, there is a lack of research regarding the origin and ancestral composition of the Baise horse. In this study, whole‐genome resequencing data from 236 horses of seven Chinese indigenous horse breeds, five foreign horse breeds, and four
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Whole‐genome resequencing uncovers diversity and selective sweep in Kazakh cattle Anim. Genet. (IF 2.4) Pub Date : 2024-04-02 Lei Xu, Yunyun Zhang, Yang Guo, Qiuming Chen, Menghua Zhang, Hong Chen, Juan Geng, Xixia Huang
The Kazakh cattle in the Xinjiang Uygur Autonomous Region of China are highly adaptable and have multiple uses, including milk and meat production, and use as draft animals. They are an excellent original breed that could be enhanced by breeding and hybrid improvement. However, the genomic diversity and signature of selection underlying the germplasm characteristics require further elucidation. Herein
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Heterozygous ASPRV1 frameshift variant in a Pembroke Welsh Corgi with ichthyosis Anim. Genet. (IF 2.4) Pub Date : 2024-03-29 Sarah Kiener, Susanne Åhman, Robert Cikota, Vidhya Jagannathan, Sohvi Blatter, Iva Cvitas, Sara Soto, Tosso Leeb
BACKGROUND Ichthyoses comprise a large, heterogeneous group of inherited cornification disorders. They are characterized by generalized scaly and hyperkeratotic skin (Oji et al., 2010). In humans, over 69 genes have been associated with different forms of ichthyosis, grouped into non-syndromic ichthyoses with the phenotypic expression of the disorder only seen in the skin, and syndromic ichthyoses
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Population structure and genomic diversity of the Einsiedler horse Anim. Genet. (IF 2.4) Pub Date : 2024-03-23 Annik Gmel, Anne Ricard, Vinzenz Gerber, Markus Neuditschko
The breeding history of the Einsiedler horse is closely connected with the Benedictine cloister Einsiedeln. In the mid‐nineteenth century, it was decided to use European Warmblood stallions for cross‐breeding and to abandon the selection of stallions. Since that time, it has only been possible to trace back the origin of Einsiedler horses using maternal ancestry information. Here, we collected high‐density
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Domenico Bernoco: In Memorium Anim. Genet. (IF 2.4) Pub Date : 2024-03-21 Doug Antczak, Harris Lewin, Marietta Bernoco, Ernest Bailey
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Identification of polymorphic markers for germplasm conservation of three precious Chinese palace goldfish using whole‐genome sequencing Anim. Genet. (IF 2.4) Pub Date : 2024-03-19 Yuwei Huang, Aiying Cao, Beiyuan Zhang, Sen Li, Chuan He, Jian Gao, Xiaojuan Cao
China was the first country in the world to breed goldfish and has generated many unique goldfish varieties, including the most aristocratic Chinese palace goldfish. Due to the lack of scientific research on Chinese palace goldfish, their selection and breeding are mainly carried out through traditional hybridization, leading to serious inbreeding and the degradation of germplasm resources. To this
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Unraveling genomic diversity and positive selection signatures of Qaidam cattle through whole‐genome re‐sequencing Anim. Genet. (IF 2.4) Pub Date : 2024-03-14 Xudong Wei, Shuang Li, Huixuan Yan, Shengmei Chen, Ruizhe Li, Weizhong Zhang, Shengyu Chao, Weixing Guo, Wenhao Li, Zulfiqar Ahmed, Chuzhao Lei, Zhijie Ma
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,
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Genomic characterization of dryland adaptation in endangered Anxi cattle in China Anim. Genet. (IF 2.4) Pub Date : 2024-03-04 Yang Lyu, Tingting Yao, Zhefu Chen, Ruiyao Huangfu, Haijian Cheng, Weidong Ma, Xingshan Qi, Fuqiang Li, Ningbo Chen, Chuzhao Lei
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
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A de novo mutation in CACNA1A is associated with autosomal dominant bovine familial convulsions and ataxia in Angus cattle Anim. Genet. (IF 2.4) Pub Date : 2024-03-01 Rachel R. Reith, Jonathan E. Beever, Joe C. Paschal, Jason Banta, Brian F. Porter, David J. Steffen, Thomas B. Hairgrove, Jessica L. Petersen
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
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The role of genetic variability of the host on the resistance to Neospora caninum infection in cattle Anim. Genet. (IF 2.4) Pub Date : 2024-02-29 Anabella Dinon, Franco Fiorani, Lucía María Campero, Dadín Prando Moore, Pablo Marcelo Corva
Neospora caninum 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 N. caninum
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Evaluation of the effectiveness of single nucleotide polymorphisms compared to microsatellite markers for parentage verification in Moroccan horses Anim. Genet. (IF 2.4) Pub Date : 2024-02-22 O. Aminou, B. Badaoui, M. Machmoum, M. Piro
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
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Phenotypic correlations of carpal gland diverticular number with production traits and its genome‐wide association analysis in multiple pig populations Anim. Genet. (IF 2.4) Pub Date : 2024-02-21 Dengshuai Cui, Longyun Li, Naibiao Yu, Sanya Xiong, Shijun Xiao, Hao Zheng, Zhiyong Huang, Yuanmei Guo, Lusheng Huang
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 (CGDNL) and right (CGDNR) legs, and their carcass and meat quality traits
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LncRNAENSGALG00000021686 regulates fat metabolism in chicken hepatocytes via miR‐146b/AGPAT2 pathway Anim. Genet. (IF 2.4) Pub Date : 2024-02-19 Wenhao Xing, Shijie Li
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 LncRNA ENSGALG00000021686 (lncRNA 21 686) has been described as a regulator of lipid metabolism, the present study aimed to clarify the role of lncRNA 21 686 in chicken hepatocytes’ lipid metabolism. Thirty‐two chickens were divided into four
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Comparison of two methods of sperm- and testis-mediated gene transfer in production of transgenic animals: A systematic review Anim. Genet. (IF 2.4) Pub Date : 2024-02-15 Zeinab Dehghan, Gholamhossein Darya, Shayesteh Mehdinejadiani, Amin Derakhshanfar
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
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Towards identification of new genetic determinants for post-weaning diarrhea in piglets Anim. Genet. (IF 2.4) Pub Date : 2024-02-11 Emil Ibragimov, Esben Østergaard Eriksen, Jens Peter Nielsen, Claus B. Jørgensen, Merete Fredholm, Peter Karlskov-Mortensen
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
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Naturally occurring genetic diseases caused by de novo variants in domestic animals Anim. Genet. (IF 2.4) Pub Date : 2024-02-07 Luísa Azevedo, Andreia P. Amaro, João Niza-Ribeiro, Mónica Lopes-Marques
With the advent of next-generation sequencing, an increasing number of cases of de novo 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
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Analysis of genetic variants in protein-coding genes of Aoluguya reindeer based on the whole-genome data Anim. Genet. (IF 2.4) Pub Date : 2024-02-06 Wenfeng Yi, Mingyue Hu, Lulu Shi, Ting Li, Hao Sun, Lihong Qin, Shouqing Yan
CONFLICT OF INTEREST STATEMENT The authors declare no conflict of interest.
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H3K27ac modification and transcription characteristics of adipose and muscle tissues in Chuxiang Black pig Anim. Genet. (IF 2.4) Pub Date : 2024-01-31 Renzhuo Kuang, Zhixiang Xu, Honghong Zhou, Zhao Zhang, Hao Peng, Daoyuan Wang, Xuewen Xu, Shuhong Zhao, Yunxia Zhao, Mengjin Zhu
The establishment of high-quality pork breeds for improving meat quality in the pig industry is needed. The Chuxiang Black (CX) pig is a new breed developed from Chinese local pigs and Western lean pigs that has a high proportion of lean meat and excellent meat quality. However, the characteristics of cis-regulatory elements in CX pigs are still unknown. In this study, cis-regulatory elements of muscle
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Smartphone-based digital phenotyping for genome-wide association study of intramuscular fat traits in longissimus dorsi muscle of pigs Anim. Genet. (IF 2.4) Pub Date : 2024-01-30 Yang Shen, Yuxi Chen, Shufeng Zhang, Ze Wu, Xiaoyu Lu, Weizhen Liu, Bang Liu, Xiang Zhou
Intramuscular fat (IMF) content and distribution significantly contribute to the eating quality of pork. However, the current methods used for measuring these traits are complex, time-consuming and costly. To simplify the measurement process, this study developed a smartphone application (App) called Pork IMF. This App serves as a rapid and portable phenotyping tool for acquiring pork images and extracting
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Canine coat color E locus updates: Identification of a new MC1R variant causing ‘sable’ coat color in English Cocker Spaniels and a proposed update to the E locus dominance hierarchy Anim. Genet. (IF 2.4) Pub Date : 2024-01-29 Leena Honkanen, Robert Loechel, Stephen Davison, Jonas Donner, Heidi Anderson
The coat color phenotype ‘sable’ occurs in the English Cocker Spaniel dog breed. It closely resembles other canine color patterns known as domino/grizzle/pied (eA allele) and grizzle/domino (eG allele) determined by variants in the melanocortin 1 receptor gene (MC1R; ‘extension’ or E locus), a key multi-allele regulator of coat color. We examined genetic variation in MC1R, and found one new non-synonymous
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Whole genome resequencing reveals candidate genes for postaxial polydactyly in Large White pigs Anim. Genet. (IF 2.4) Pub Date : 2024-01-29 Yongle Hao, Yunlei Song, Fei Chen, Jianhong Tang
Polydactyly is a genetic abnormality that affects both pig welfare and industry profits. Despite efforts to explore the genetic basis of pig polydactyly, progress remains limited. In this study, we analyzed a group of Large White pigs with postaxial polydactyly, including 29 cases and 79 controls from 24 families. High-depth sequencing was performed on 20 pigs, while low-depth sequencing was improved
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Identification of genomic regions associated with resistance to gastrointestinal parasites in an indigenous sheep by single- and multiple-locus methods Anim. Genet. (IF 2.4) Pub Date : 2024-01-10 S. A. Rafat, M. Barbato, R. Hajializadeh Valilou, G. H. Moghaddam, A. Nematollahi, K. Periasamy, R. Pichler, P. Ajmone Marsan
We investigated the association between 157 SNPs located in 75 candidate genes involved in the immune system and proxy traits for resistance to gastrointestinal nematodes in sheep. A total of 211 lambs from eight flocks were sampled. Nematode eggs per gram were counted and classified as: (i) Strongyles, (ii) Nematodirus spp., (iii) Trichuris spp. and (iv) Marshallagia marshalli. Single- and multiple-locus
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Differential expression of ASIP transcripts reveals genetic mechanism underpinning black-tail independence from body plumage in yellow-bodied chickens Anim. Genet. (IF 2.4) Pub Date : 2024-01-09 Xiaotong Zheng, Jianfei Chen, Ruixue Nie, Huanhuan Miao, Ziwei Chen, Jiaheng He, Yinku Xie, Hao Zhang
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
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Genome-wide association analysis revealed new QTL and candidate genes affecting the teat number in Dutch Large White pigs Anim. Genet. (IF 2.4) Pub Date : 2024-01-08 Michao Deng, Zijian Qiu, Chenxi Liu, Lijing Zhong, Xinfeng Fan, Yuquan Han, Ran Wang, Pinghua Li, Ruihua Huang, Qingbo Zhao
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
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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 Anim. Genet. (IF 2.4) Pub Date : 2024-01-08 Giuseppina Schiavo, Francesca Bertolini, Samuele Bovo, Giuliano Galimberti, María Muñoz, Riccardo Bozzi, Marjeta Čandek-Potokar, Cristina Óvilo, Luca Fontanesi
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
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Evaluating three strategies of genome-wide association analysis for integrating data from multiple populations Anim. Genet. (IF 2.4) Pub Date : 2024-01-07 Zhanming Zhong, Guangzhen Li, Zhiting Xu, Haonan Zeng, Jinyan Teng, Xueyan Feng, Shuqi Diao, Yahui Gao, Jiaqi Li, Zhe Zhang
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
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Integrated analysis of differently expressed microRNAs and mRNAs at different postnatal stages reveals intramuscular fat deposition regulation in goats (Capra hircus) Anim. Genet. (IF 2.4) Pub Date : 2024-01-04 Wenyang Zhang, Yu Liao, Peng Shao, Yuling Yang, Lian Huang, Zhanyu Du, Changhui Zhang, Yong Wang, Yaqiu Lin, Jiangjiang Zhu
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
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Genome-wide association studies for the number of piglets born alive and dead in Dongliao black pigs Anim. Genet. (IF 2.4) Pub Date : 2023-12-26 Hao Sun, Yu Cheng, Yu He, Chao Cheng, Hongxia Zhao, Sumei Yang, Meng Wei, Jingxiu Yang, Shuang Liang, Chunyan Bai, Boxing Sun
Litter size (total number born) trait has a great impact on the economic success of pork production. The total number born consists of the number of piglets born alive and dead. To clarify the genetic background of litter size, genome-wide association studies were undertaken in the present study. Samples of DNA were collected and genotyped using the Porcine 50K BeadChip from 723 Dongliao Black sows
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Single and longitudinal genome-wide association studies for dairy traits available in goats with three recorded lactations Anim. Genet. (IF 2.4) Pub Date : 2023-12-22 Maria Gracia Luigi-Sierra, Amparo Martínez, Martina Macri, Juan Vicente Delgado, Anna Castelló, Javier Fernández Alvarez, Xavier Such, Jordi Jordana, Marcel Amills
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
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Review: Wildlife forensic genetics—Biological evidence, DNA markers, analytical approaches, and challenges Anim. Genet. (IF 2.4) Pub Date : 2023-12-20 Sree Kanthaswamy
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
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A network-based approach to understanding gene–biological processes affecting economically important traits of Nelore cattle Anim. Genet. (IF 2.4) Pub Date : 2023-12-19 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
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
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Insights into the influence of diet and genetics on feed efficiency and meat production in sheep Anim. Genet. (IF 2.4) Pub Date : 2023-12-19 Steffimol Rose Chacko Kaitholil, Mark H. Mooney, Aurélie Aubry, Faisal Rezwan, Masoud Shirali
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
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Genome-wide association studies for loin muscle area, loin muscle depth and backfat thickness in DLY pigs Anim. Genet. (IF 2.4) Pub Date : 2023-12-15 Xiang Zhao, Yibin Qiu, Fanming Meng, Zhanwei Zhuang, Donglin Ruan, Jie Wu, Fucai Ma, Enqin Zheng, Gengyuan Cai, Jie Yang, Ming Yang, Zhenfang Wu
This study aimed at identifying genes associated with loin muscle area (LMA), loin muscle depth (LMD) and backfat thickness (BFT). We performed single-trait and multi-trait genome-wide association studies (GWASs) after genotyping 685 Duroc × (Landrace × Yorkshire) (DLY) pigs using the Geneseek Porcine 50K SNP chip. In the single-trait GWASs, we identified two, eight and two significant SNPs associated
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Whole-genome resequencing reveals candidate genes associated with milk production trait in Guanzhong dairy goats Anim. Genet. (IF 2.4) Pub Date : 2023-12-13 Jie Ni, Ming Xian, Yijie Ren, Lina Yang, Yu Li, Songmao Guo, Benkang Ran, Jianhong Hu
Milk production is one of the most important economic utility of goats. Guanzhong dairy goat is a local dairy goat in Shaanxi Province of China and has high milk yield and quality. However, there are relatively few studies on molecular markers of milk production traits in Guanzhong dairy goats. In this study, we sequenced the whole genomes of 20 Guanzhong dairy goats, 10 of which had high milk yield
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Npc1 gene mutation abnormally activates the classical Wnt signalling pathway in mouse kidneys and promotes renal fibrosis Anim. Genet. (IF 2.4) Pub Date : 2023-12-12 Lihong Guan, Zisen Jia, Keli Xu, Minlin Yang, Xiaoying Li, Liang Qiao, Yanli Liu, Juntang Lin
Niemann–Pick disease type C1 (NPC1) is a lysosomal lipid storage disease caused by NPC1 gene mutation. Our previous study found that, compared with wild-type (Npc1+/+) mice, the renal volume and weight of Npc1 gene mutant (Npc1−/−) mice were significantly reduced. We speculate that Npc1 gene mutations may affect the basic structure of the kidneys of Npc1−/− mice, and thus affect their function. Therefore
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Integrated analysis of whole genome and transcriptome sequencing uncovers genetic differences between Zi goose and Xianghai flying goose Anim. Genet. (IF 2.4) Pub Date : 2023-12-12 Hongyu Ni, Yonghong Zhang, Yuwei Yang, Yijing Yin, Jing Ren, Qingxing Xiao, Puze Zhao, Xiaoqing Hong, Ziyi Zhang, Benhai Cui, Hao Sun, Xueqi Sun, Yumei Li
Zi goose is a famous indigenous breed originating from northeast China with high annual egg production. Xianghai flying goose is a composite breed and is bred by crosses of the wild swan goose and the Zi goose. Our previous study revealed significant differences in muscle fiber characteristics between the two populations. Here, we aimed to reveal the underlying genetic basis of the above phenotype
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Genome-wide association study of growth traits and validation of key mutations (MSTN c.C861T) associated with the muscle mass of meat pigeons Anim. Genet. (IF 2.4) Pub Date : 2023-12-08 Haobin Hou, Xiaoliang Wang, Xin Li, Xia Cai, Yingying Tu, Changsuo Yang, Junfeng Yao
Selective breeding of meat pigeons is primarily based on growth traits, especially muscle mass (MM). Identification of functional genes and molecular markers of growth and slaughter traits through a genome-wide association study (GWAS) will help to elucidate the underlying molecular mechanisms and provide a theoretical basis for the selective breeding of meat pigeons. The phenotypic data of body weight
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Genetic basis of ear length in sheep breeds sampled across the region from the Middle East to the Alps Anim. Genet. (IF 2.4) Pub Date : 2023-12-08 Jürgen Klawatsch, Dimitris Papachristou, Panagiota Koutsouli, Maulik Upadhyay, Doris Seichter, Ingolf Russ, Boro Mioč, Mojca Simčič, Iosif Bizelis, Ivica Medugorac
Ear length in sheep (Ovis aries) shows a wide range of natural variation, from the absence of an outer ear structure (anotia), to small outer ears (microtia), to regular ear length. Up until now, the underlying genetics of this phenotype has been studied in four sheep breeds from China, Jordan and Italy. These studies revealed a broad range of genes significantly associated with ear length, potentially
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Genetic diversity patterns in farmed rainbow trout (Oncorhynchus mykiss) populations using genome-wide SNP and haplotype data Anim. Genet. (IF 2.4) Pub Date : 2023-11-23 Alessio Longo, Khrystyna Kurta, Tytti Vanhala, Henrik Jeuthe, Dirk-Jan de Koning, Christos Palaiokostas
Rainbow trout is one of the most popular aquaculture species worldwide, with a long history of domestication. However, limited information exists about the genetic diversity of farmed rainbow trout populations globally, with most available reports relying on low-throughput genotyping technologies. Notably, no information exists about the genetic diversity status of farmed rainbow trout in Sweden. Double-digest
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Genome-wide analyses based on a novel donkey 40K liquid chip reveal the gene responsible for coat color diversity in Chinese Dezhou donkey Anim. Genet. (IF 2.4) Pub Date : 2023-11-23 Shuqin Liu, Jiangtian Su, Qiwen Yang, Minhao Sun, Zhaofei Wang, Jie Yu, Halima Jafari, Chuzhao Lei, Yujiang Sun, Ruihua Dang
Dezhou donkey is one of the representative local breeds in China, which is mainly divided into two strains: Sanfen and Wutou. There are obvious differences in coat color between the two strains. The former shows light points around the eyes, around the muzzle and under the belly, while the latter is completely solid black. In this study, genome-wide association analysis was performed for the differences
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Relevance of pharmacogenetics and pharmacogenomics in veterinary clinical practice: A review Anim. Genet. (IF 2.4) Pub Date : 2023-11-22 Ayushi Vaidhya, Kanika Ghildiyal, Divya Rajawat, Sonali Sonejita Nayak, Subhashree Parida, Manjit Panigrahi
The recent advances in high-throughput next-generation sequencing technologies have heralded the arrival of the Big Data era. As a result, the use of pharmacogenetics in drug discovery and individualized drug therapy has transformed the field of precision medicine. This paradigm shift in drug development programs has effectively reshaped the old drug development practices, which were primarily concerned
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Identification of genomic regions associated with differences in fleece type in Huacaya and Suri alpacas (Vicugna pacos) Anim. Genet. (IF 2.4) Pub Date : 2023-11-20 K. Tan, O. O. Adeniyi, A. Letko, G. RuddGarces, E. Manz, H. Wagner, P. Zanolari, C. Drögemüller, G. Lühken
The difference in fleece type is the distinguishing trait between the two types of alpacas (Vicugna pacos), Huacaya and Suri. The Suri fleece type has been found to be inherited dominantly over the Huacaya type, resulting in offspring with the Suri phenotype. The aim of our study was to map genomic regions associated with the two different fleece types. In this study, 91 alpacas (54 Huacayas and 37
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Effect of selection genotype on immune response to Brucella abortus RB51 in Holstein cattle Anim. Genet. (IF 2.4) Pub Date : 2023-11-09 Kaitlyn M. Sarlo Davila, Paola Boggiatto, Steven Olsen, John D. Lippolis, Brian A. Crooker, Ellie J. Putz
Genetic selection for milk production traits in US Holsteins has affected numerous genes associated with reproduction and immunity. This study compares the transcriptomic response of peripheral blood mononuclear cells to an in vitro Brucella abortus strain RB51 (RB51) bacterial challenge between contemporary Holsteins and Holsteins that have not been selected for milk production traits since the mid-1960s
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No trade-off between growth and OsHV-1 tolerance in Pacific oysters (Crassostrea gigas) farmed on the West Coast, USA Anim. Genet. (IF 2.4) Pub Date : 2023-11-03 Konstantin Divilov, Blaine Schoolfield, Noah Merz, Chris Langdon
An important pathogen of concern for Pacific oyster growers in the USA is ostreid herpesvirus 1 (OsHV-1). Currently, oyster stocks exist that are tolerant to OsHV-1; however, it is uncertain if a trade-off exists between their tolerance to OsHV-1 and their growth in different environments. To investigate any potential trade-offs, Pacific oyster families with varying levels of OsHV-1 tolerance were
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MFSD2A frameshift variant in Kerry Hill sheep with microcephaly Anim. Genet. (IF 2.4) Pub Date : 2023-11-03 Gabriela Rudd Garces, Anna Letko, Irene M. Häfliger, Jana Müller, Christiane Herden, Anne Nesseler, Henrik Wagner, Martin J. Schmidt, Cord Drögemüller, Gesine Lühken
Microcephaly is a rare neurodevelopmental disorder characterized by reduced skull circumference and brain volume that occurs sporadically in farm animals. We investigated an early-onset neurodegenerative disorder observed in seven lambs of purebred Kerry Hill sheep. Clinical signs included inability to stand or severe ataxia, convulsions, and early death. Diagnostic imaging and brain necropsy confirmed
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RNA sequencing analysis reveals that missense mutation in SOX10 is associated with iris color phenotype in quail Anim. Genet. (IF 2.4) Pub Date : 2023-10-31 Shiwei Ren, Xiaohui Zhang, Youzhi Pang, Yanxia Qi, Linke Huo, Fanghu Wu, Yuanyuan Shang, Jinquan Xi
To investigate the molecular mechanisms underlying the differences in iris color in quail, the transcriptome of iris tissue from black quail and Korean quail at day 10 of hatching was RNA sequenced in this study. The differentially expressed genes (DEGs) were screened, functionally annotated and enriched after the quality control and mapping of the raw data. RT-qPCR validation was performed using EIF2S3
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Functional SNPs in SYISL promoter significantly affect muscle fiber density and muscle traits in pigs Anim. Genet. (IF 2.4) Pub Date : 2023-10-25 Wei Lv, Yaxin Peng, Jingjing Hu, Mingfei Zhu, Yangcang Mao, Litong Wang, Guoshui Wang, Zaiyan Xu, Wangjun Wu, Bo Zuo
Our previous studies showed that SYISL is a negative regulator of muscle growth and regeneration in mice, pigs and humans. SYISL knockout resulted in an increase in the density of muscle fibers and muscle growth. However, it is unclear whether there are natural mutations in pig SYNPO2 intron sense-overlapping lncRNA (pSYISL) that affect the expression of pSYISL and muscle growth traits. In this study
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Rapid genotyping of bovine MC1R gene c.296T>C and c.310delG haplotypes using high-resolution melting analysis Anim. Genet. (IF 2.4) Pub Date : 2023-10-24 Rui Hong, Yi Yan, Changhong Zhu, Fuyuan Zuo, Gong-Wei Zhang
CONFLICT OF INTEREST STATEMENT The authors declare no conflict of interest.
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The 4 bp deletion mutation in HOXD1 gene determines the polycerate trait in Chinese Sishui fur sheep Anim. Genet. (IF 2.4) Pub Date : 2023-10-17 Cheng Zhang, Huan Zhang, Tenggang Di, Guan Wang, Fengyi Gao, Zhiqiang Li, Ming Li, Guangli Yang
CONFLICT OF INTEREST STATEMENT The authors declare that they have no competing interests.
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Identification of potential biomarkers associated with meat tenderness in Hanwoo (Korean cattle): An expression quantitative trait loci analysis Anim. Genet. (IF 2.4) Pub Date : 2023-10-12 Yoonji Chung, Sun Sik Jang, Dong Hun Kang, Yeong Kuk Kim, Hyun Joo Kim, Ki Yong Chung, Inchul Choi, Seung Hwan Lee
Meat tenderness is considered the most important trait contributing to beef quality, level of consumer satisfaction, willingness to pay premium prices and industry profit. Genomic selection method would be helpful for genetic improvement of traits with low heritability and that are difficult to measure. The identification of core genes can aid genomic selection for complex traits with low heritability