Pseudo-chromosome–length genome assembly for a deep-sea eel Ilyophis brunneus sheds light on the deep-sea adaptation

作     者：Jie Chen Honghui Zeng Wenqi Lv Ning Sun Cheng Wang Wenjie Xu Mingliang Hu Xiaoni Gan Lisheng He Shunping He Chengchi Fang 

作者机构：Institute of Deep-Sea Science and EngineeringChinese Academy of SciencesSanya572000China State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesWuhan430072China University of Chinese Academy of SciencesBeijing100049China School for Ecological and Environmental SciencesNorthwestern Polytechnical UniversityXi’an710072China 

出 版 物：《Science China(Life Sciences)》 (中国科学（生命科学英文版）)

年 卷 期：2023年第66卷第6期

页      面：1379-1391页

核心收录：

学科分类：0710[理学-生物学] 07[理学] 0905[农学-畜牧学] 09[农学] 071007[理学-遗传学] 090501[农学-动物遗传育种与繁殖] 

基　　金：supported by the Strategic Priority Research Program of Chinese Academy of Sciences (XDB42000000,XDB06010105) the National Key Research and Development Program of China (2018YFC0309800) the National Natural Science Foundation of China (41876179) the Major scientific and technological projects of Hainan Province (2019PT03)to S.P.H 

主　　题：Ilyophis brunneus genome evolution deep sea adaption high hydrostatic pressure 

摘      要：High hydrostatic pressure,low temperature,and scarce food supply are the major factors that limit the survival of vertebrates in extreme deep-sea ***,we constructed a high-quality genome of the deep-sea Muddy arrowtooth eel(MAE,Ilyophis brunneus,captured below a depth of 3,500 m)by using Illumina,Pac Bio,and Hi-C *** compare it against those of shallow-water eel and other outgroups to explore the genetic basis that underlies the adaptive evolution to deep-sea *** MAE genome was estimated to be 1.47 Gb and assembled into 14 *** analyses indicated that MAE diverged from its closely related shallow-sea species,European eel,~111.9 Mya and experienced a rapid *** genome evolutionary analyses primarily revealed the following:(i)under high hydrostatic pressure,the positively selected gene TUBGCP3 and the expanded family MLC1 may improve the cytoskeleton stability;ACOX1 may enhance the fluidity of cell membrane and maintain transport activity;the expansion of ABCC12 gene family may enhance the integrity of DNA;(ii)positively selected HARS likely maintain the transcription ability at low temperatures;and(iii)energy metabolism under a food-limited environment may be increased by expanded and positively selected genes in AMPK and m TOR signaling pathways.