Animal breeding | Scientific Reports (2025)

Table of Contents
Featured Genome-wide discovery of selection signatures in four Anatolian sheep breeds revealed by ddRADseq Characterization of bovine vaginal microbiota using 16S rRNA sequencing: associations with host fertility, longevity, health, and production Genetics and ontogeny are key factors influencing thermal resilience in a culturally and economically important bivalve Herbal extract dietary supplementation effect on growth performance and meat quality in broiler raised under two stocking densities Genetic characterization of Tibetan pigs adapted to high altitude under natural selection based on a large whole-genome dataset Biochemical indicators, cell apoptosis, and metabolomic analyses of the low-temperature stress response and cold tolerance mechanisms in Litopenaeus vannamei Investigating the genetic determination of duration-of-fertility trait in breeding hens Single-cell RNA-seq reveals the effects of the FecB mutation on the transcriptome profile in ovine cumulus cells Weighted single-step genome-wide association study for direct and maternal genetic effects associated with birth and weaning weights in sheep Unveiling genetic signatures associated with resilience to neonatal diarrhea in lambs through two GWAS approaches SNPs in microRNA seed region and impact of miR-375 in concurrent regulation of multiple lipid accumulation-related genes Impact of the leptin receptor gene on pig performance and quality traits Increased susceptibility to Mycobacterium avium complex infection in miniature Schnauzer dogs caused by a codon deletion in CARD9 Genetic architecture of white striping in turkeys (Meleagris gallopavo) Population structure and identification of genomic regions associated with productive traits in five Italian beef cattle breeds Relationship between feed efficiency and gut microbiota in laying chickens under contrasting feeding conditions Population-wide modelling reveals prospects of marker-assisted selection for parasitic mite resistance in honey bees Comparative metabolomics reveals serum metabolites changes in goats during different developmental stages Genetic structure and origin of emu populations in Japanese farms inferred from large-scale SNP genotyping based on double-digest RAD-seq Whole genome discovery of regulatory genes responsible for the response of chicken to heat stress Benchmarking machine learning and parametric methods for genomic prediction of feed efficiency-related traits in Nellore cattle Genome wide association study in Swedish Labrador retrievers identifies genetic loci associated with hip dysplasia and body weight Disease resistance and infectivity of virus susceptible and resistant common carp strains NDUFS7 variant in dogs with Leigh syndrome and its functional validation in a Drosophila melanogaster model Effect of dietary tall oil fatty acids and hydrolysed yeast in SNP2-positive and SNP2-negative piglets challenged with F4 enterotoxigenic Escherichia coli A reduced SNP panel optimised for non-invasive genetic assessment of a genetically impoverished conservation icon, the European bison Detection of DNA methylation signatures through the lens of genomic imprinting Strong selection signatures for Aleutian disease tolerance acting on novel candidate genes linked to immune and cellular responses in American mink (Neogale vison) An RNA-Seq analysis of coronavirus in the skin of the Pangolin Characterization of heterozygosity-rich regions in Italian and worldwide goat breeds Genome-wide association studies for economically important traits in mink using copy number variation TWAS revealed significant causal loci for milk production and its composition in Murrah buffaloes Identification of genetic variants and individual genes associated with postpartum hypocalcemia in Holstein cows Association analysis of production traits of Japanese quail (Coturnix japonica) using restriction-site associated DNA sequencing New insights into the genetic predisposition of brucellosis and its effect onthe gut and vaginal microbiota in goats Naturally occurring canine laminopathy leading to a dilated and fibrosing cardiomyopathy in the Nova Scotia Duck Tolling Retriever Domestication and breeding objective did not shape the interpretation of physical and social cues in goats (Capra hircus) Integrated transcriptomic and proteomic analyses reveal the mechanism of easy acceptance of artificial pelleted diets during food habit domestication in Largemouth bass (Micropterus salmoides) Genome-wide identification of candidate copy number polymorphism genes associated with complex traits of Tibetan-sheep Multi-breed host rumen epithelium transcriptome and microbiome associations and their relationship with beef cattle feed efficiency Prediction of some milk production traits using udder and teat measurements with a spotlight on their genetic background in Friesian cows The complete mitochondrial genome of Wellcomia compar (Spirurina: Oxyuridae) and its genome characterization and phylogenetic analysis Integrated analysis of inflammatory mRNAs, miRNAs, and lncRNAs elucidates the molecular interactome behind bovine mastitis Distortion of Mendelian segregation across the Angus cattle genome uncovering regions affecting reproduction Artificial intelligence algorithm comparison and ranking for weight prediction in sheep Detecting SNP markers discriminating horse breeds by deep learning Identification of candidate lethal haplotypes and genomic association with post-natal mortality and reproductive traits in Nellore cattle A newly identified small tRNA fragment reveals the regulation of different wool types and oxidative stress in lambs New genomic insights into the conformation of Lipizzan horses Comparative genomic analysis uncovers candidate genes related with milk production and adaptive traits in goat breeds

Featured

  • Article
    | Open Access

    Genome-wide discovery of selection signatures in four Anatolian sheep breeds revealed by ddRADseq

    • Bahar Argun Karsli
    • , Eymen Demir
    • &Sarp Kaya

  • Article
    | Open Access

    Characterization of bovine vaginal microbiota using 16S rRNA sequencing: associations with host fertility, longevity, health, and production

    • L. Brulin
    • , S. Ducrocq
    • &J. Estellé

  • Article
    | Open Access

    Genetics and ontogeny are key factors influencing thermal resilience in a culturally and economically important bivalve

    • Natalí J. Delorme
    • , Nick King
    • &Norman L. C. Ragg

  • Article
    | Open Access

    Herbal extract dietary supplementation effect on growth performance and meat quality in broiler raised under two stocking densities

    • Mohammad D. Obeidat
    • , Muhy Eddin M. Alkhateeb
    • &Ibrahim A. Al Sukhni

  • Article
    | Open Access

    Genetic characterization of Tibetan pigs adapted to high altitude under natural selection based on a large whole-genome dataset

    • Lingyun Zhang
    • , Yanbin Zhu
    • &Shengguo Zhao

  • Article
    | Open Access

    Biochemical indicators, cell apoptosis, and metabolomic analyses of the low-temperature stress response and cold tolerance mechanisms in Litopenaeus vannamei

    • Weilin Zhu
    • , Qiangyong Li
    • &Yongzhen Zhao

  • Article
    | Open Access

    Investigating the genetic determination of duration-of-fertility trait in breeding hens

    • Wei Luo
    • , Xishi Huang
    • &Lantao Gu

  • Article
    | Open Access

    Single-cell RNA-seq reveals the effects of the FecB mutation on the transcriptome profile in ovine cumulus cells

    • Xiaofei Guo
    • , Yi Fang
    • &Rongzhen Zhong

  • Article
    | Open Access

    Weighted single-step genome-wide association study for direct and maternal genetic effects associated with birth and weaning weights in sheep

    • Hava Khazaei-Koohpar
    • , Mohsen Gholizadeh
    • &Seyed Mehdi Esmaeili-Fard

  • Article
    | Open Access

    Unveiling genetic signatures associated with resilience to neonatal diarrhea in lambs through two GWAS approaches

    • Yalçın Yaman
    • , Yiğit Emir Kişi
    • &Veysel BAY

  • Article
    | Open Access

    SNPs in microRNA seed region and impact of miR-375 in concurrent regulation of multiple lipid accumulation-related genes

    • Jiyeon Lee
    • , Inpyo Hong
    • &Yoonseok Lee

  • Article
    | Open Access

    Impact of the leptin receptor gene on pig performance and quality traits

    • Rafael Suárez-Mesa
    • , Roger Ros-Freixedes
    • &Joan Estany

  • Article
    | Open Access

    Genetic architecture of white striping in turkeys (Meleagris gallopavo)

    • Ryley J. Vanderhout
    • , Emhimad A. Abdalla
    • &Christine F. Baes

  • Article
    | Open Access

    Population structure and identification of genomic regions associated with productive traits in five Italian beef cattle breeds

    • Daniele Colombi
    • , Giacomo Rovelli
    • &Emiliano Lasagna

  • Article
    | Open Access

    Relationship between feed efficiency and gut microbiota in laying chickens under contrasting feeding conditions

    • Maria Bernard
    • , Alexandre Lecoeur
    • &Tatiana Zerjal

  • Article
    | Open Access

    Population-wide modelling reveals prospects of marker-assisted selection for parasitic mite resistance in honey bees

    • Regis Lefebre
    • , Bart J. G. Broeckx
    • &Dirk C. de Graaf

  • Article
    | Open Access

    Comparative metabolomics reveals serum metabolites changes in goats during different developmental stages

    • Qing Li
    • , Tianle Chao
    • &Jianmin Wang

  • Article
    | Open Access

    Genetic structure and origin of emu populations in Japanese farms inferred from large-scale SNP genotyping based on double-digest RAD-seq

    • Yuichi Koshiishi
    • &Kenta Wada

  • Article
    | Open Access

    Whole genome discovery of regulatory genes responsible for the response of chicken to heat stress

    • Sevda Hosseinzadeh
    • &Karim Hasanpur

  • Article
    | Open Access

    Benchmarking machine learning and parametric methods for genomic prediction of feed efficiency-related traits in Nellore cattle

    • Lucio F. M. Mota
    • , Leonardo M. Arikawa
    • &Lucia G. Albuquerque

  • Article
    | Open Access

    Genome wide association study in Swedish Labrador retrievers identifies genetic loci associated with hip dysplasia and body weight

    • Ida Nordang Kieler
    • , Sofia Malm Persson
    • &Maja Louise Arendt

  • Article
    | Open Access

    Disease resistance and infectivity of virus susceptible and resistant common carp strains

    • Batya Dorfman
    • , Evgeniya Marcos-Hadad
    • &Lior David

  • Article
    | Open Access

    NDUFS7 variant in dogs with Leigh syndrome and its functional validation in a Drosophila melanogaster model

    • Matthias Christen
    • , Anne Gregor
    • &Tosso Leeb

  • Article
    | Open Access

    See Also
    Animal breeding - Latest research and news

    Effect of dietary tall oil fatty acids and hydrolysed yeast in SNP2-positive and SNP2-negative piglets challenged with F4 enterotoxigenic Escherichia coli

    • Anouschka Middelkoop
    • , Hannele Kettunen
    • &Francesc Molist

  • Article
    | Open Access

    A reduced SNP panel optimised for non-invasive genetic assessment of a genetically impoverished conservation icon, the European bison

    • Gerrit Wehrenberg
    • , Małgorzata Tokarska
    • &Carsten Nowak

  • Article
    | Open Access

    Detection of DNA methylation signatures through the lens of genomic imprinting

    • Jean-Noël Hubert
    • , Nathalie Iannuccelli
    • &Julie Demars

  • Article
    | Open Access

    Strong selection signatures for Aleutian disease tolerance acting on novel candidate genes linked to immune and cellular responses in American mink (Neogale vison)

    • Seyed Milad Vahedi
    • , Siavash Salek Ardestani
    • &K. Fraser Clark

  • Article
    | Open Access

    An RNA-Seq analysis of coronavirus in the skin of the Pangolin

    • Siwei Deng
    • , Xuechen Tian
    • &Siew Woh Choo

  • Article
    | Open Access

    Characterization of heterozygosity-rich regions in Italian and worldwide goat breeds

    • Giorgio Chessari
    • , Andrea Criscione
    • &Salvatore Mastrangelo

  • Article
    | Open Access

    Genome-wide association studies for economically important traits in mink using copy number variation

    • Pourya Davoudi
    • , Duy Ngoc Do
    • &Younes Miar

  • Article
    | Open Access

    TWAS revealed significant causal loci for milk production and its composition in Murrah buffaloes

    • Supriya Chhotaray
    • , Vikas Vohra
    • &Gopal Gowane

  • Article
    | Open Access

    Identification of genetic variants and individual genes associated with postpartum hypocalcemia in Holstein cows

    • Larissa C. Novo
    • , Michael B. Poindexter
    • &Francisco Peñagaricano

  • Article
    | Open Access

    Association analysis of production traits of Japanese quail (Coturnix japonica) using restriction-site associated DNA sequencing

    • Mohammad Ibrahim Haqani
    • , Michiharu Nakano
    • &Masaoki Tsudzuki

  • Article
    | Open Access

    New insights into the genetic predisposition of brucellosis and its effect onthe gut and vaginal microbiota in goats

    • Ahmed M. Sallam
    • , Ibrahim Abou-souliman
    • &Alaa Emara Rabee

  • Article
    | Open Access

    Naturally occurring canine laminopathy leading to a dilated and fibrosing cardiomyopathy in the Nova Scotia Duck Tolling Retriever

    • Danika L. Bannasch
    • , Danielle T. Oertle
    • &Nikhil Joshi

  • Article
    | Open Access

    Domestication and breeding objective did not shape the interpretation of physical and social cues in goats (Capra hircus)

    • Christian Nawroth
    • , Katrina Wiesmann
    • &Jan Langbein

  • Article
    | Open Access

    Integrated transcriptomic and proteomic analyses reveal the mechanism of easy acceptance of artificial pelleted diets during food habit domestication in Largemouth bass (Micropterus salmoides)

    • Jinxing Du
    • , Jiaqi Shao
    • &Yingkun Cen

  • Article
    | Open Access

    Genome-wide identification of candidate copy number polymorphism genes associated with complex traits of Tibetan-sheep

    • Dehong Tian
    • , De Sun
    • &Kai Zhao

  • Article
    | Open Access

    Multi-breed host rumen epithelium transcriptome and microbiome associations and their relationship with beef cattle feed efficiency

    • P. A. S. Fonseca
    • , S. Lam
    • &A. Cánovas

  • Article
    | Open Access

    Prediction of some milk production traits using udder and teat measurements with a spotlight on their genetic background in Friesian cows

    • Ahmed. A. Saleh
    • , Ahmed A. Easa
    • &Amr M. A. Rashad

  • Article
    | Open Access

    The complete mitochondrial genome of Wellcomia compar (Spirurina: Oxyuridae) and its genome characterization and phylogenetic analysis

    • Chunmao Huo
    • , Fengyun Bao
    • &Shibin Zhang

  • Article
    | Open Access

    Integrated analysis of inflammatory mRNAs, miRNAs, and lncRNAs elucidates the molecular interactome behind bovine mastitis

    • Aliakbar Hasankhani
    • , Maryam Bakherad
    • &Mohammad Moradi Shahrbabak

  • Article
    | Open Access

    Distortion of Mendelian segregation across the Angus cattle genome uncovering regions affecting reproduction

    • S. Id-Lahoucine
    • , J. Casellas
    • &A. Cánovas

  • Article
    | Open Access

    Artificial intelligence algorithm comparison and ranking for weight prediction in sheep

    • Ambreen Hamadani
    • &Nazir Ahmad Ganai

  • Article
    | Open Access

    Detecting SNP markers discriminating horse breeds by deep learning

    • Siavash Manzoori
    • , Amir Hossein Khaltabadi Farahani
    • &Mehdi Kazemi-Bonchenari

  • Article
    | Open Access

    Identification of candidate lethal haplotypes and genomic association with post-natal mortality and reproductive traits in Nellore cattle

    • Patrícia Iana Schmidt
    • , Lucio Flavio Macedo Mota
    • &Lucia Galvão de Albuquerque

  • Article
    | Open Access

    A newly identified small tRNA fragment reveals the regulation of different wool types and oxidative stress in lambs

    • Jiankui Wang
    • , Guoying Hua
    • &Xuemei Deng

  • Article
    | Open Access

    New genomic insights into the conformation of Lipizzan horses

    • A. I. Gmel
    • , G. Brem
    • &M. Neuditschko

  • Article
    | Open Access

    Comparative genomic analysis uncovers candidate genes related with milk production and adaptive traits in goat breeds

    • Zeinab Amiri Ghanatsaman
    • , Ahmad Ayatolahi Mehrgardi
    • &Ali Esmailizadeh
Animal breeding | Scientific Reports (2025)
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