The Farm Animal Genotype-Tissue Expression (FarmGTEx) Project

TY - JOUR

T1 - The Farm Animal Genotype-Tissue Expression (FarmGTEx) Project

AU - Fang, Lingzhao

AU - Teng, Jinyan

AU - Lin, Qing

AU - Bai, Zhonghao

AU - Liu, Shuli

AU - Guan, Dailu

AU - Li, Bingjie

AU - Gao, Yahui

AU - Hou, Yali

AU - Gong, Mian

AU - Pan, Zhangyuan

AU - Yu, Ying

AU - Clark, Emily L

AU - Smith, Jacqueline

AU - Rawlik, Konrad

AU - Xiang, Ruidong

AU - Chamberlain, Amanda J

AU - Goddard, Michael E

AU - Littlejohn, Mathew

AU - Larson, Greger

AU - MacHugh, David E

AU - O'Grady, John F

AU - Sørensen, Peter

AU - Sahana, Goutam

AU - Lund, Mogens Sandø

AU - Jiang, Zhihua

AU - Pan, Xiangchun

AU - Gong, Wentao

AU - Zhang, Haihan

AU - He, Xi

AU - Zhang, Yuebo

AU - Gao, Ning

AU - He, Jun

AU - Wang, Xiao

AU - Hao, Dan

AU - Liu, Lei

AU - Ma, Li

AU - Zhao, Xin

AU - Luo, Yonglun

AU - Lin, Lin

AU - Madsen, Ole

AU - Li, Jing

AU - Zhou, Rong

AU - Zhang, Yi

AU - Wang, Yu

AU - Zhang, Qin

AU - Zhang, Hao

AU - Yang, Jian

AU - Liu, Xinfeng

AU - Zhang, Zhe

AU - FarmGTEx Consortium

N1 - © 2025. Springer Nature America, Inc.

PY - 2025/4

Y1 - 2025/4

N2 - Genetic mutation and drift, coupled with natural and human-mediated selection and migration, have produced a wide variety of genotypes and phenotypes in farmed animals. We here introduce the Farm Animal Genotype-Tissue Expression (FarmGTEx) Project, which aims to elucidate the genetic determinants of gene expression across 16 terrestrial and aquatic domestic species under diverse biological and environmental contexts. For each species, we aim to collect multiomics data, particularly genomics and transcriptomics, from 50 tissues of 1,000 healthy adults and 200 additional animals representing a specific context. This Perspective provides an overview of the priorities of FarmGTEx and advocates for coordinated strategies of data analysis and resource-sharing initiatives. FarmGTEx aims to serve as a platform for investigating context-specific regulatory effects, which will deepen our understanding of molecular mechanisms underlying complex phenotypes. The knowledge and insights provided by FarmGTEx will contribute to improving sustainable agriculture-based food systems, comparative biology and eventual human biomedicine.

AB - Genetic mutation and drift, coupled with natural and human-mediated selection and migration, have produced a wide variety of genotypes and phenotypes in farmed animals. We here introduce the Farm Animal Genotype-Tissue Expression (FarmGTEx) Project, which aims to elucidate the genetic determinants of gene expression across 16 terrestrial and aquatic domestic species under diverse biological and environmental contexts. For each species, we aim to collect multiomics data, particularly genomics and transcriptomics, from 50 tissues of 1,000 healthy adults and 200 additional animals representing a specific context. This Perspective provides an overview of the priorities of FarmGTEx and advocates for coordinated strategies of data analysis and resource-sharing initiatives. FarmGTEx aims to serve as a platform for investigating context-specific regulatory effects, which will deepen our understanding of molecular mechanisms underlying complex phenotypes. The knowledge and insights provided by FarmGTEx will contribute to improving sustainable agriculture-based food systems, comparative biology and eventual human biomedicine.

UR - http://www.scopus.com/inward/record.url?scp=105000826160&partnerID=8YFLogxK

U2 - 10.1038/s41588-025-02121-5

DO - 10.1038/s41588-025-02121-5

M3 - Journal article

C2 - 40097783

SN - 1061-4036

VL - 57

SP - 786

EP - 796

JO - Nature Genetics

JF - Nature Genetics

IS - 4

M1 - 604

ER -