Large-scale sequencing of flatfish genomes provides insights into the polyphyletic origin of their specialized body plan

被引:0
作者
Zhenming Lü
Li Gong
Yandong Ren
Yongjiu Chen
Zhongkai Wang
Liqin Liu
Haorong Li
Xianqing Chen
Zhenzhu Li
Hairong Luo
Hui Jiang
Yan Zeng
Yifan Wang
Kun Wang
Chen Zhang
Haifeng Jiang
Wenting Wan
Yanli Qin
Jianshe Zhang
Liang Zhu
Wei Shi
Shunping He
Bingyu Mao
Wen Wang
Xiaoyu Kong
Yongxin Li
机构
[1] Zhejiang Ocean University,National Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization
[2] Northwestern Polytechnical University,School of Ecology and Environment
[3] Chinese Academy of Sciences,CAS Key Laboratory of Tropical Marine Bio
[4] Chinese Academy of Sciences,resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology
[5] Chinese Academy of Sciences,State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology
[6] Chinese Academy of Sciences,Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology
来源
Nature Genetics | 2021年 / 53卷
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摘要
The evolutionary and genetic origins of the specialized body plan of flatfish are largely unclear. We analyzed the genomes of 11 flatfish species representing 9 of the 14 Pleuronectiforme families and conclude that Pleuronectoidei and Psettodoidei do not form a monophyletic group, suggesting independent origins from different percoid ancestors. Genomic and transcriptomic data indicate that genes related to WNT and retinoic acid pathways, hampered musculature and reduced lipids might have functioned in the evolution of the specialized body plan of Pleuronectoidei. Evolution of Psettodoidei involved similar but not identical genes. Our work provides valuable resources and insights for understanding the genetic origins of the unusual body plan of flatfishes.
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页码:742 / 751
页数:9
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[1]   Large-scale sequencing of flatfish genomes provides insights into the polyphyletic origin of their specialized body plan [J].
Lu, Zhenming ;
Gong, Li ;
Ren, Yandong ;
Chen, Yongjiu ;
Wang, Zhongkai ;
Liu, Liqin ;
Li, Haorong ;
Chen, Xianqing ;
Li, Zhenzhu ;
Luo, Hairong ;
Jiang, Hui ;
Zeng, Yan ;
Wang, Yifan ;
Wang, Kun ;
Zhang, Chen ;
Jiang, Haifeng ;
Wan, Wenting ;
Qin, Yanli ;
Zhang, Jianshe ;
Zhu, Liang ;
Shi, Wei ;
He, Shunping ;
Mao, Bingyu ;
Wang, Wen ;
Kong, Xiaoyu ;
Li, Yongxin .
NATURE GENETICS, 2021, 53 (05) :742-+
[2]   Large-scale sequencing of plant genomes [J].
Rounsley, S ;
Lin, XY ;
Ketchum, KA .
CURRENT OPINION IN PLANT BIOLOGY, 1998, 1 (02) :136-141
[3]   Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits [J].
Chen, Lei ;
Qin, Qiang ;
Jiang, Yu ;
Wang, Kun ;
Lin, Zeshan ;
Li, Zhipeng ;
Bibi, Faysal ;
Yang, Yongzhi ;
Wang, Jinhuan ;
Nie, Wenhui ;
Su, Weiting ;
Liu, Guichun ;
Li, Qiye ;
Fu, Weiwei ;
Pan, Xiangyu ;
Liu, Chang ;
Yang, Jie ;
Zhang, Chenzhou ;
Yin, Yuan ;
Wang, Yu ;
Zhao, Yue ;
Zhang, Chen ;
Wang, Zhongkai ;
Qin, Yanli ;
Liu, Wei ;
Wang, Bao ;
Ren, Yandong ;
Zhang, Ru ;
Zeng, Yan ;
da Fonseca, Rute R. ;
Wei, Bin ;
Li, Ran ;
Wan, Wenting ;
Zhao, Ruoping ;
Zhu, Wenbo ;
Wang, Yutao ;
Duan, Shengchang ;
Gao, Yun ;
Zhang, Yong E. ;
Chen, Chunyan ;
Hvilsom, Christina ;
Epps, Clinton W. ;
Chemnick, Leona G. ;
Doug, Yang ;
Mirarab, Siavash ;
Siegismund, Hans Redlef ;
Ryder, Oliver A. ;
Gilbert, M. Thomas P. ;
Lewin, Harris A. ;
Zhang, Guojie .
SCIENCE, 2019, 364 (6446) :1152-+
[4]   Deciphering genomes through automated large-scale sequencing [J].
Rowen, L ;
Lasky, S ;
Hood, L .
METHODS IN MICROBIOLOGY, VOL 28: AUTOMATION: GENOMIC AND FUNCTIONAL ANALYSES, 1999, 28 :155-191
[5]   Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits [J].
Miyauchi, Shingo ;
Kiss, Eniko ;
Kuo, Alan ;
Drula, Elodie ;
Kohler, Annegret ;
Sanchez-Garcia, Marisol ;
Morin, Emmanuelle ;
Andreopoulos, Bill ;
Barry, Kerrie W. ;
Bonito, Gregory ;
Buee, Marc ;
Carver, Akiko ;
Chen, Cindy ;
Cichocki, Nicolas ;
Clum, Alicia ;
Culley, David ;
Crous, Pedro W. ;
Fauchery, Laure ;
Girlanda, Mariangela ;
Hayes, Richard D. ;
Keri, Zsofia ;
LaButti, Kurt ;
Lipzen, Anna ;
Lombard, Vincent ;
Magnuson, Jon ;
Maillard, Francois ;
Murat, Claude ;
Nolan, Matt ;
Ohm, Robin A. ;
Pangilinan, Jasmyn ;
Pereira, Maira de Freitas ;
Perotto, Silvia ;
Peter, Martina ;
Pfister, Stephanie ;
Riley, Robert ;
Sitrit, Yaron ;
Stielow, J. Benjamin ;
Szollosi, Gergely ;
Zifcakova, Lucia ;
Stursova, Martina ;
Spatafora, Joseph W. ;
Tedersoo, Leho ;
Vaario, Lu-Min ;
Yamada, Akiyoshi ;
Yan, Mi ;
Wang, Pengfei ;
Xu, Jianping ;
Bruns, Tom ;
Baldrian, Petr ;
Vilgalys, Rytas .
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Shingo Miyauchi ;
Enikő Kiss ;
Alan Kuo ;
Elodie Drula ;
Annegret Kohler ;
Marisol Sánchez-García ;
Emmanuelle Morin ;
Bill Andreopoulos ;
Kerrie W. Barry ;
Gregory Bonito ;
Marc Buée ;
Akiko Carver ;
Cindy Chen ;
Nicolas Cichocki ;
Alicia Clum ;
David Culley ;
Pedro W. Crous ;
Laure Fauchery ;
Mariangela Girlanda ;
Richard D. Hayes ;
Zsófia Kéri ;
Kurt LaButti ;
Anna Lipzen ;
Vincent Lombard ;
Jon Magnuson ;
François Maillard ;
Claude Murat ;
Matt Nolan ;
Robin A. Ohm ;
Jasmyn Pangilinan ;
Maíra de Freitas Pereira ;
Silvia Perotto ;
Martina Peter ;
Stephanie Pfister ;
Robert Riley ;
Yaron Sitrit ;
J. Benjamin Stielow ;
Gergely Szöllősi ;
Lucia Žifčáková ;
Martina Štursová ;
Joseph W. Spatafora ;
Leho Tedersoo ;
Lu-Min Vaario ;
Akiyoshi Yamada ;
Mi Yan ;
Pengfei Wang ;
Jianping Xu ;
Tom Bruns ;
Petr Baldrian ;
Rytas Vilgalys .
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[7]   Insights from Large-Scale Cancer Genome Sequencing [J].
Mardis, Elaine R. .
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[8]   An accessible, efficient and global approach for the large-scale sequencing of bacterial genomes [J].
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Darren Heavens ;
Caisey V. Pulford ;
Alexander V. Predeus ;
Ross Low ;
Hermione Webster ;
Gregory F. Dykes ;
Christian Schudoma ;
Will Rowe ;
James Lipscombe ;
Chris Watkins ;
Benjamin Kumwenda ;
Neil Shearer ;
Karl Costigan ;
Kate S. Baker ;
Nicholas A. Feasey ;
Jay C. D. Hinton ;
Neil Hall .
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[9]   An accessible, efficient and global approach for the large-scale sequencing of bacterial genomes [J].
Perez-Sepulveda, Blanca M. ;
Heavens, Darren ;
Pulford, Caisey, V ;
Predeus, Alexander, V ;
Low, Ross ;
Webster, Hermione ;
Dykes, Gregory F. ;
Schudoma, Christian ;
Rowe, Will ;
Lipscombe, James ;
Watkins, Chris ;
Kumwenda, Benjamin ;
Shearer, Neil ;
Costigan, Karl ;
Baker, Kate S. ;
Feasey, Nicholas A. ;
Hinton, Jay C. D. ;
Hall, Neil .
GENOME BIOLOGY, 2021, 22 (01)
[10]   Large-scale whole genome sequencing of M-tuberculosis provides insights into transmission in a high prevalence area [J].
Guerra-Assuncao, J. A. ;
Crampin, A. C. ;
Houben, R. M. G. J. ;
Mzembe, T. ;
Mallard, K. ;
Coll, F. ;
Khan, P. ;
Banda, L. ;
Chiwaya, A. ;
Pereira, R. P. A. ;
McNerney, R. ;
Fine, P. E. M. ;
Parkhill, J. ;
Clark, T. G. ;
Glynn, J. R. .
ELIFE, 2015, 4