Scallop genome provides insights into evolution of bilaterian karyotype and development

Shi Wang; Jinbo Zhang; Wenqian Jiao; Ji Li; Xiaogang Xun; Yan Sun; Ximing Guo; Pin Huan; Bo Dong; Lingling Zhang; Xiaoli Hu; Xiaoqing Sun; Jing Wang; Chengtian Zhao; Yangfan Wang; Dawei Wang; Xiaoting Huang; Ruijia Wang; Jia Lv; Yuli Li; Zhifeng Zhang; Baozhong Liu; Wei Lu; Yuanyuan Hui; Jun Liang; Zunchun Zhou; Rui Hou; Xue Li; Yunchao Liu; Hengde Li; Xianhui Ning; Yu Lin; Liang Zhao; Qiang Xing; Jinzhuang Dou; Yangping Li; Junxia Mao; Haobing Guo; Huaiqian Dou; Tianqi Li; Chuang Mu; Wenkai Jiang; Qiang Fu; Xiaoteng Fu; Yan Miao; Jian Liu; Qian Yu; Ruojiao Li; Huan Liao; Xuan Li; Yifan Kong; Zhi Jiang; Daniel Chourrout; Ruiqiang Li; Zhenmin Bao

doi:10.1038/s41559-017-0120

Scallop genome provides insights into evolution of bilaterian karyotype and development

Shi Wang, Jinbo Zhang, Wenqian Jiao, Ji Li, Xiaogang Xun, Yan Sun, Ximing Guo, Pin Huan, Bo Dong, Lingling Zhang, Xiaoli Hu, Xiaoqing Sun, Jing Wang, Chengtian Zhao, Yangfan Wang, Dawei Wang, Xiaoting Huang, Ruijia Wang, Jia Lv, Yuli LiZhifeng Zhang, Baozhong Liu, Wei Lu, Yuanyuan Hui, Jun Liang, Zunchun Zhou, Rui Hou, Xue Li, Yunchao Liu, Hengde Li, Xianhui Ning, Yu Lin, Liang Zhao, Qiang Xing, Jinzhuang Dou, Yangping Li, Junxia Mao, Haobing Guo, Huaiqian Dou, Tianqi Li, Chuang Mu, Wenkai Jiang, Qiang Fu, Xiaoteng Fu, Yan Miao, Jian Liu, Qian Yu, Ruojiao Li, Huan Liao, Xuan Li, Yifan Kong, Zhi Jiang, Daniel Chourrout, Ruiqiang Li, Zhenmin Bao

School of Environmental and Biological Sciences, Marine & Coastal Sciences

Research output: Contribution to journal › Article › peer-review

242 Scopus citations

Abstract

Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology.

Original language	English (US)
Article number	0120
Journal	Nature Ecology and Evolution
Volume	1
Issue number	5
DOIs	https://doi.org/10.1038/s41559-017-0120
State	Published - Apr 3 2017

All Science Journal Classification (ASJC) codes

Ecology, Evolution, Behavior and Systematics
Ecology

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10.1038/s41559-017-0120

Cite this

Wang, S., Zhang, J., Jiao, W., Li, J., Xun, X., Sun, Y., Guo, X., Huan, P., Dong, B., Zhang, L., Hu, X., Sun, X., Wang, J., Zhao, C., Wang, Y., Wang, D., Huang, X., Wang, R., Lv, J., ... Bao, Z. (2017). Scallop genome provides insights into evolution of bilaterian karyotype and development. Nature Ecology and Evolution, 1(5), [0120]. https://doi.org/10.1038/s41559-017-0120

@article{484cd440ac824790bcd7753f089d603a,

title = "Scallop genome provides insights into evolution of bilaterian karyotype and development",

abstract = "Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology.",

author = "Shi Wang and Jinbo Zhang and Wenqian Jiao and Ji Li and Xiaogang Xun and Yan Sun and Ximing Guo and Pin Huan and Bo Dong and Lingling Zhang and Xiaoli Hu and Xiaoqing Sun and Jing Wang and Chengtian Zhao and Yangfan Wang and Dawei Wang and Xiaoting Huang and Ruijia Wang and Jia Lv and Yuli Li and Zhifeng Zhang and Baozhong Liu and Wei Lu and Yuanyuan Hui and Jun Liang and Zunchun Zhou and Rui Hou and Xue Li and Yunchao Liu and Hengde Li and Xianhui Ning and Yu Lin and Liang Zhao and Qiang Xing and Jinzhuang Dou and Yangping Li and Junxia Mao and Haobing Guo and Huaiqian Dou and Tianqi Li and Chuang Mu and Wenkai Jiang and Qiang Fu and Xiaoteng Fu and Yan Miao and Jian Liu and Qian Yu and Ruojiao Li and Huan Liao and Xuan Li and Yifan Kong and Zhi Jiang and Daniel Chourrout and Ruiqiang Li and Zhenmin Bao",

note = "Funding Information: 0120 10.1038/s41559-017-0120 EN Shi Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Jinbo Zhang Novogene Bioinformatics Institute, Beijing 100083, China Wenqian Jiao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ji Li Novogene Bioinformatics Institute, Beijing 100083, China Xiaogang Xun Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yan Sun Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ximing Guo Haskin Shellfish Research Laboratory, Department of Marine and Coastal Sciences, Rutgers University, Port Norris, New Jersey 08349, USA Pin Huan Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China Bo Dong Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Lingling Zhang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xiaoli Hu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Xiaoqing Sun Novogene Bioinformatics Institute, Beijing 100083, China Jing Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Chengtian Zhao Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao 266003, China Yangfan Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Dawei Wang Novogene Bioinformatics Institute, Beijing 100083, China Xiaoting Huang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ruijia Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jia Lv Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yuli Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Zhifeng Zhang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Baozhong Liu Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China Wei Lu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yuanyuan Hui Novogene Bioinformatics Institute, Beijing 100083, China Jun Liang Dalian Zhangzidao Group Co. Ltd, Dalian 116001, China Zunchun Zhou Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian 116023, China Rui Hou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xue Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yunchao Liu Novogene Bioinformatics Institute, Beijing 100083, China Hengde Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Key Laboratory of Aquatic Genomics, Ministry of Agriculture, Chinese Academy of Fishery Sciences, Beijing 100141, China Xianhui Ning Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yu Lin Novogene Bioinformatics Institute, Beijing 100083, China Liang Zhao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Qiang Xing Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jinzhuang Dou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yangping Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Junxia Mao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Haobing Guo Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Huaiqian Dou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Tianqi Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Chuang Mu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Wenkai Jiang Novogene Bioinformatics Institute, Beijing 100083, China Qiang Fu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xiaoteng Fu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yan Miao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jian Liu Novogene Bioinformatics Institute, Beijing 100083, China Qian Yu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ruojiao Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Huan Liao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xuan Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yifan Kong Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Zhi Jiang Novogene Bioinformatics Institute, Beijing 100083, China Daniel Chourrout Sars International Centre for Marine Molecular Biology, University of Bergen, Bergen N-5008, Norway Ruiqiang Li Novogene Bioinformatics Institute, Beijing 100083, China Zhenmin Bao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China s41559-017-0120 10.1038/s41559-017-0120 2016 08 03 2017 02 16 Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology. Publisher Copyright: {\textcopyright} 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.",

year = "2017",

month = apr,

day = "3",

doi = "10.1038/s41559-017-0120",

language = "English (US)",

volume = "1",

journal = "Nature Ecology and Evolution",

issn = "2397-334X",

publisher = "Nature Publishing Group",

number = "5",

}

Wang, S, Zhang, J, Jiao, W, Li, J, Xun, X, Sun, Y, Guo, X, Huan, P, Dong, B, Zhang, L, Hu, X, Sun, X, Wang, J, Zhao, C, Wang, Y, Wang, D, Huang, X, Wang, R, Lv, J, Li, Y, Zhang, Z, Liu, B, Lu, W, Hui, Y, Liang, J, Zhou, Z, Hou, R, Li, X, Liu, Y, Li, H, Ning, X, Lin, Y, Zhao, L, Xing, Q, Dou, J, Li, Y, Mao, J, Guo, H, Dou, H, Li, T, Mu, C, Jiang, W, Fu, Q, Fu, X, Miao, Y, Liu, J, Yu, Q, Li, R, Liao, H, Li, X, Kong, Y, Jiang, Z, Chourrout, D, Li, R & Bao, Z 2017, 'Scallop genome provides insights into evolution of bilaterian karyotype and development', Nature Ecology and Evolution, vol. 1, no. 5, 0120. https://doi.org/10.1038/s41559-017-0120

TY - JOUR

T1 - Scallop genome provides insights into evolution of bilaterian karyotype and development

AU - Wang, Shi

AU - Zhang, Jinbo

AU - Jiao, Wenqian

AU - Li, Ji

AU - Xun, Xiaogang

AU - Sun, Yan

AU - Guo, Ximing

AU - Huan, Pin

AU - Dong, Bo

AU - Zhang, Lingling

AU - Hu, Xiaoli

AU - Sun, Xiaoqing

AU - Wang, Jing

AU - Zhao, Chengtian

AU - Wang, Yangfan

AU - Wang, Dawei

AU - Huang, Xiaoting

AU - Wang, Ruijia

AU - Lv, Jia

AU - Li, Yuli

AU - Zhang, Zhifeng

AU - Liu, Baozhong

AU - Lu, Wei

AU - Hui, Yuanyuan

AU - Liang, Jun

AU - Zhou, Zunchun

AU - Hou, Rui

AU - Li, Xue

AU - Liu, Yunchao

AU - Li, Hengde

AU - Ning, Xianhui

AU - Lin, Yu

AU - Zhao, Liang

AU - Xing, Qiang

AU - Dou, Jinzhuang

AU - Li, Yangping

AU - Mao, Junxia

AU - Guo, Haobing

AU - Dou, Huaiqian

AU - Li, Tianqi

AU - Mu, Chuang

AU - Jiang, Wenkai

AU - Fu, Qiang

AU - Fu, Xiaoteng

AU - Miao, Yan

AU - Liu, Jian

AU - Yu, Qian

AU - Li, Ruojiao

AU - Liao, Huan

AU - Li, Xuan

AU - Kong, Yifan

AU - Jiang, Zhi

AU - Chourrout, Daniel

AU - Li, Ruiqiang

AU - Bao, Zhenmin

N1 - Funding Information: 0120 10.1038/s41559-017-0120 EN Shi Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Jinbo Zhang Novogene Bioinformatics Institute, Beijing 100083, China Wenqian Jiao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ji Li Novogene Bioinformatics Institute, Beijing 100083, China Xiaogang Xun Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yan Sun Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ximing Guo Haskin Shellfish Research Laboratory, Department of Marine and Coastal Sciences, Rutgers University, Port Norris, New Jersey 08349, USA Pin Huan Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China Bo Dong Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Lingling Zhang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xiaoli Hu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China Xiaoqing Sun Novogene Bioinformatics Institute, Beijing 100083, China Jing Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Chengtian Zhao Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao 266003, China Yangfan Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Dawei Wang Novogene Bioinformatics Institute, Beijing 100083, China Xiaoting Huang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ruijia Wang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jia Lv Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yuli Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Zhifeng Zhang Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Baozhong Liu Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China Wei Lu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yuanyuan Hui Novogene Bioinformatics Institute, Beijing 100083, China Jun Liang Dalian Zhangzidao Group Co. Ltd, Dalian 116001, China Zunchun Zhou Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian 116023, China Rui Hou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xue Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yunchao Liu Novogene Bioinformatics Institute, Beijing 100083, China Hengde Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Key Laboratory of Aquatic Genomics, Ministry of Agriculture, Chinese Academy of Fishery Sciences, Beijing 100141, China Xianhui Ning Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yu Lin Novogene Bioinformatics Institute, Beijing 100083, China Liang Zhao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Qiang Xing Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jinzhuang Dou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yangping Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Junxia Mao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Haobing Guo Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Huaiqian Dou Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Tianqi Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Chuang Mu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Wenkai Jiang Novogene Bioinformatics Institute, Beijing 100083, China Qiang Fu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xiaoteng Fu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yan Miao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Jian Liu Novogene Bioinformatics Institute, Beijing 100083, China Qian Yu Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Ruojiao Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Huan Liao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Xuan Li Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Yifan Kong Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Zhi Jiang Novogene Bioinformatics Institute, Beijing 100083, China Daniel Chourrout Sars International Centre for Marine Molecular Biology, University of Bergen, Bergen N-5008, Norway Ruiqiang Li Novogene Bioinformatics Institute, Beijing 100083, China Zhenmin Bao Key Laboratory of Marine Genetics and Breeding (Ocean University of China), Ministry of Education, Qingdao 266003, China Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China s41559-017-0120 10.1038/s41559-017-0120 2016 08 03 2017 02 16 Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology. Publisher Copyright: © 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.

PY - 2017/4/3

Y1 - 2017/4/3

N2 - Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology.

AB - Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical. Here we report a high-quality, chromosome-anchored reference genome for the scallop Patinopecten yessoensis, a bivalve mollusc that has a slow-evolving genome with many ancestral features. Chromosome-based macrosynteny analysis reveals a striking correspondence between the 19 scallop chromosomes and the 17 presumed ancestral bilaterian linkage groups at a level of conservation previously unseen, suggesting that the scallop may have a karyotype close to that of the bilaterian ancestor. Scallop Hox gene expression follows a new mode of subcluster temporal co-linearity that is possibly ancestral and may provide great potential in supporting diverse bilaterian body plans. Transcriptome analysis of scallop mantle eyes finds unexpected diversity in phototransduction cascades and a potentially ancient Pax2/5/8-dependent pathway for noncephalic eyes. The outstanding preservation of ancestral karyotype and developmental control makes the scallop genome a valuable resource for understanding early bilaterian evolution and biology.

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U2 - 10.1038/s41559-017-0120

DO - 10.1038/s41559-017-0120

M3 - Article

C2 - 28812685

AN - SCOPUS:85025139650

SN - 2397-334X

VL - 1

JO - Nature Ecology and Evolution

JF - Nature Ecology and Evolution

IS - 5

M1 - 0120

ER -

Scallop genome provides insights into evolution of bilaterian karyotype and development

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