PMID- 38286347 OWN - NLM STAT- MEDLINE DCOM- 20240322 LR - 20240322 IS - 1089-8646 (Electronic) IS - 0888-7543 (Linking) VI - 116 IP - 2 DP - 2024 Mar TI - Stress adaptation in Tibetan cashmere goats is governed by inherent metabolic differences and manifested through variable cashmere phenotypes. PG - 110801 LID - S0888-7543(24)00022-3 [pii] LID - 10.1016/j.ygeno.2024.110801 [doi] AB - Tibetan cashmere goats are not only served as a valuable model for studying adaptation to hypoxia and high-altitude conditions but also playing a pivotal role in bolstering local economies through the provision of premium quality cashmere yarn. In this study, we performed an integration and network analysis of metabolomic, transcriptomic and proteomic to elucidate the role of differentially expressed genes, important metabolites, and relevant cellular and metabolic pathways between the fine (average 12.04 +/- 0.03 mum of mean fiber diameter) and coarse cashmere (average 14.88 +/- 0.05 mum of mean fber diameter) producing by Tibetan cashmere goats. We identified a distinction of 56 and 71 differential metabolites (DMs) between the F and C cashmere groups under positive and negative ion modes, respectively. The KEGG pathway enrichment analysis of these DMs highlighted numerous pathways predominantly involved in amino acid and protein metabolism, as indicated by the finding that the most impactful pathway was the mammalian target of rapamycin (mTOR) signalling pathway. In the F group, we identified a distinctive metabolic profile where amino acid metabolites including serine, histidine, asparagine, glutamic acid, arginine, valine, aspartic acid, tyrosine, and methionine were upregulated, while lysine, isoleucine, glutamine, tryptophan, and threonine were downregulated. The regulatory network and gene co-expression network revealed crucial genes, metabolites, and metabolic pathways. The integrative omics analysis revealed a high enrichment of several pathways, notably encompassing protein digestion and absorption, sphingolipid signalling, and the synaptic vesicle cycle. Within the sphere of our integrative analysis, DNMT3B was identified as a paramount gene, intricately associated with significant proteins such as HMCN1, CPB2, GNG12, and LRP1. Our present study delineated the molecular underpinnings governing the variations in cashmere characteristics by conducting comprehensive analyses across metabolomic, transcriptomic, and proteomic dimensions. This research provided newly insights into the mechanisms regulating cashmere traits and facilitated the advancement of selective breeding programs aimed at cultivating high-quality superfine Tibetan cashmere goats. CI - Copyright (c) 2024 The Authors. Published by Elsevier Inc. All rights reserved. FAU - Zhao, Bingru AU - Zhao B AD - Jiangsu Livestock Embryo Engineering Laboratory, College of Animal Science and Technology, Nanjing Agricultural University, Nanjing, Jiangsu 210095, China; Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China. FAU - Suo, Langda AU - Suo L AD - Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Tibet 850009, China. FAU - Wu, Yujiang AU - Wu Y AD - Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Tibet 850009, China. FAU - Chen, Tong AU - Chen T AD - Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China. FAU - Tulafu, Hanikezi AU - Tulafu H AD - Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China. FAU - Lu, Qingwei AU - Lu Q AD - Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China; College of Animal Science, Xinjiang Agricultural University, Urumqi Xinjiang 830052, China. FAU - Liu, Wenna AU - Liu W AD - Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China; College of Animal Science, Xinjiang Agricultural University, Urumqi Xinjiang 830052, China. FAU - Sammad, Abdul AU - Sammad A AD - College of Animal Sciences and Technology, China Agricultural University, Beijing 100193, China. FAU - Wu, Cuiling AU - Wu C AD - Key Laboratory of Special Environment Biodiversity Application and Regulation in Xinjiang/ International Center for the Collaborative Management of Cross-border Pest in Central Asia College of Life Sciences, School of Life Sciences, Xinjiang Normal University, Urumqi Xinjiang 830017, China. Electronic address: cuiling_wu@163.com. FAU - Fu, Xuefeng AU - Fu X AD - Key Laboratory of Genetics Breeding and Reproduction of Xinjiang Wool-sheep & Cashmere-goat (XJYS1105), Institute of Animal Science, Xinjiang Academy of Animal Sciences, Urumqi Xinjiang 830011, China. Electronic address: fuxuefengfeng@126.com. LA - eng PT - Journal Article DEP - 20240128 PL - United States TA - Genomics JT - Genomics JID - 8800135 RN - 0 (Amino Acids) SB - IM MH - Animals MH - *Goats/genetics MH - *Proteomics MH - Tibet MH - Phenotype MH - Amino Acids OTO - NOTNLM OT - KEGG pathways OT - Metabolite OT - Multi-omics analysis OT - Stress adaptation OT - Tibetan cashmere goat COIS- Declaration of competing interest The authors declare that there is no conflict of interest. EDAT- 2024/01/30 00:42 MHDA- 2024/03/22 06:44 CRDT- 2024/01/29 19:16 PHST- 2023/09/18 00:00 [received] PHST- 2023/12/17 00:00 [revised] PHST- 2024/01/25 00:00 [accepted] PHST- 2024/03/22 06:44 [medline] PHST- 2024/01/30 00:42 [pubmed] PHST- 2024/01/29 19:16 [entrez] AID - S0888-7543(24)00022-3 [pii] AID - 10.1016/j.ygeno.2024.110801 [doi] PST - ppublish SO - Genomics. 2024 Mar;116(2):110801. doi: 10.1016/j.ygeno.2024.110801. Epub 2024 Jan 28.