Modes of genetic adaptations underlying functional innovations in the rumen

doi:10.1007/s11427-020-1828-8

	Modes of genetic adaptations underlying functional innovations in the rumen
	Pan, Xiangyu 2; Cai, Yudong 2; Li, Zongjun 2; Chen, Xianqing 3; Heller, Rasmus 4; Wang, Nini 2; Wang, Yu 2; Zhao, Chen 2; Wang, Yong 5,6,7; Xu, Han 2
刊名	SCIENCE CHINA-LIFE SCIENCES
	2020-11-05
页码	21
关键词	rumen innovations comparative transcriptomics comparative genomics evo-devo evolution of organs
ISSN号	1674-7305
DOI	10.1007/s11427-020-1828-8
英文摘要	The rumen is the hallmark organ of ruminants and hosts a diverse ecosystem of microorganisms that facilitates efficient digestion of plant fibers. We analyzed 897 transcriptomes from three Cetartiodactyla lineages: ruminants, camels and cetaceans, as well as data from ruminant comparative genomics and functional assays to explore the genetic basis of rumen functional innovations. We identified genes with relatively high expression in the rumen, of which many appeared to be recruited from other tissues. These genes show functional enrichment in ketone body metabolism, regulation of microbial community, and epithelium absorption, which are the most prominent biological processes involved in rumen innovations. Several modes of genetic change underlying rumen functional innovations were uncovered, including coding mutations, genes newly evolved, and changes of regulatory elements. We validated that the key ketogenesis rate-limiting gene (HMGCS2) with five ruminant-specific mutations was under positive selection and exhibits higher synthesis activity than those of other mammals. Two newly evolved genes (LYZ1 and DEFB1) are resistant to Gram-positive bacteria and thereby may regulate microbial community equilibrium. Furthermore, we confirmed that the changes of regulatory elements accounted for the majority of rumen gene recruitment. These results greatly improve our understanding of rumen evolution and organ evo-devo in general.
资助项目	National Natural Science Foundation of China[31822052] ; National Natural Science Foundation of China[31572381] ; National Natural Science Foundation of China[31660644] ; National Natural Science Foundation of China[41422604] ; National Thousand Youth Talents Plan ; Villum Foundation[VKR 023447] ; Independent Research Fund Denmark[8049-00098B]
WOS研究方向	Life Sciences & Biomedicine - Other Topics
语种	英语
出版者	SCIENCE PRESS
WOS记录号	WOS:000587977700002
内容类型	期刊论文
源URL	[http://ir.amss.ac.cn/handle/2S8OKBNM/52421]
专题	中国科学院数学与系统科学研究院
通讯作者	Wang, Wen; Jiang, Yu
作者单位	1.Chinese Acad Sci, Inst Deep Sea Sci & Engn, Marine Mammal & Marine Bioacoust Lab, Sanya 572000, Peoples R China 2.Northwest A&F Univ, Coll Anim Sci & Technol, Key Lab Anim Genet Breeding & Reprod Shaanxi Prov, Yangling 712100, Shaanxi, Peoples R China 3.Northwestern Polytech Univ, Sch Ecol & Environm, Xian 710072, Peoples R China 4.Univ Copenhagen, Dept Biol, Sect Computat & RNA Biol, DK-2100 Copenhagen, Denmark 5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 6.Chinese Acad Sci, Ctr Excellence Anim Evolut & Genet, Kunming 650223, Yunnan, Peoples R China 7.Chinese Acad Sci, Acad Math & Syst Sci, CEMS, NCMIS,MDIS, Beijing 100080, Peoples R China 8.Shihezi Univ, Coll Life Sci, Shihezi 832003, Peoples R China 9.Guangxi Univ, Coll Anim Sci & Technol, State Key Lab Conservat & Utilizat Subtrop Agrobi, Nanning 530005, Peoples R China 10.Yangzhou Univ, Coll Anim Sci & Technol, Yangzhou 225009, Jiangsu, Peoples R China
推荐引用方式 GB/T 7714	Pan, Xiangyu,Cai, Yudong,Li, Zongjun,et al. Modes of genetic adaptations underlying functional innovations in the rumen[J]. SCIENCE CHINA-LIFE SCIENCES,2020:21.
APA	Pan, Xiangyu.,Cai, Yudong.,Li, Zongjun.,Chen, Xianqing.,Heller, Rasmus.,...&Jiang, Yu.(2020).Modes of genetic adaptations underlying functional innovations in the rumen.SCIENCE CHINA-LIFE SCIENCES,21.
MLA	Pan, Xiangyu,et al."Modes of genetic adaptations underlying functional innovations in the rumen".SCIENCE CHINA-LIFE SCIENCES (2020):21.