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The oyster genome reveals stress adaptation and complexity of shell formation

Author

Listed:
  • Guofan Zhang

    (Institute of Oceanology)

  • Xiaodong Fang

    (BGI-Shenzhen)

  • Ximing Guo

    (Haskin Shellfish Research Laboratory, Institute of Marine and Coastal Sciences, Rutgers University)

  • Li Li

    (Institute of Oceanology)

  • Ruibang Luo

    (BGI-Shenzhen
    HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory)

  • Fei Xu

    (Institute of Oceanology)

  • Pengcheng Yang

    (BGI-Shenzhen)

  • Linlin Zhang

    (Institute of Oceanology)

  • Xiaotong Wang

    (Institute of Oceanology)

  • Haigang Qi

    (Institute of Oceanology)

  • Zhiqiang Xiong

    (BGI-Shenzhen)

  • Huayong Que

    (Institute of Oceanology)

  • Yinlong Xie

    (BGI-Shenzhen
    HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory)

  • Peter W. H. Holland

    (University of Oxford, Oxford OX1 3PS, UK)

  • Jordi Paps

    (University of Oxford, Oxford OX1 3PS, UK)

  • Yabing Zhu

    (BGI-Shenzhen)

  • Fucun Wu

    (Institute of Oceanology)

  • Yuanxin Chen

    (BGI-Shenzhen)

  • Jiafeng Wang

    (Institute of Oceanology)

  • Chunfang Peng

    (BGI-Shenzhen)

  • Jie Meng

    (Institute of Oceanology)

  • Lan Yang

    (BGI-Shenzhen)

  • Jun Liu

    (Institute of Oceanology)

  • Bo Wen

    (BGI-Shenzhen)

  • Na Zhang

    (Institute of Oceanology)

  • Zhiyong Huang

    (BGI-Shenzhen)

  • Qihui Zhu

    (Institute of Oceanology)

  • Yue Feng

    (BGI-Shenzhen)

  • Andrew Mount

    (Clemson University)

  • Dennis Hedgecock

    (University of Southern California)

  • Zhe Xu

    (Atlantic Cape Community College)

  • Yunjie Liu

    (BGI-Shenzhen)

  • Tomislav Domazet-Lošo

    (Laboratory of Evolutionary Genetics, Ruđer Bošković Institute, Bijenička cesta 54, P.P. 180, HR-10002, Zagreb, Croatia)

  • Yishuai Du

    (Institute of Oceanology)

  • Xiaoqing Sun

    (BGI-Shenzhen)

  • Shoudu Zhang

    (Institute of Oceanology)

  • Binghang Liu

    (BGI-Shenzhen
    HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory)

  • Peizhou Cheng

    (Institute of Oceanology)

  • Xuanting Jiang

    (BGI-Shenzhen)

  • Juan Li

    (Institute of Oceanology)

  • Dingding Fan

    (BGI-Shenzhen)

  • Wei Wang

    (Institute of Oceanology)

  • Wenjing Fu

    (BGI-Shenzhen)

  • Tong Wang

    (Institute of Oceanology)

  • Bo Wang

    (BGI-Shenzhen)

  • Jibiao Zhang

    (Institute of Oceanology)

  • Zhiyu Peng

    (BGI-Shenzhen)

  • Yingxiang Li

    (Institute of Oceanology)

  • Na Li

    (BGI-Shenzhen)

  • Jinpeng Wang

    (Institute of Oceanology)

  • Maoshan Chen

    (BGI-Shenzhen)

  • Yan He

    (Haskin Shellfish Research Laboratory, Institute of Marine and Coastal Sciences, Rutgers University)

  • Fengji Tan

    (BGI-Shenzhen)

  • Xiaorui Song

    (Institute of Oceanology)

  • Qiumei Zheng

    (BGI-Shenzhen)

  • Ronglian Huang

    (Institute of Oceanology)

  • Hailong Yang

    (BGI-Shenzhen)

  • Xuedi Du

    (Institute of Oceanology)

  • Li Chen

    (BGI-Shenzhen)

  • Mei Yang

    (Institute of Oceanology)

  • Patrick M. Gaffney

    (School of Marine Science and Policy, University of Delaware)

  • Shan Wang

    (Haskin Shellfish Research Laboratory, Institute of Marine and Coastal Sciences, Rutgers University)

  • Longhai Luo

    (BGI-Shenzhen)

  • Zhicai She

    (Institute of Oceanology)

  • Yao Ming

    (BGI-Shenzhen)

  • Wen Huang

    (Institute of Oceanology)

  • Shu Zhang

    (BGI-Shenzhen)

  • Baoyu Huang

    (Institute of Oceanology)

  • Yong Zhang

    (BGI-Shenzhen)

  • Tao Qu

    (Institute of Oceanology)

  • Peixiang Ni

    (BGI-Shenzhen)

  • Guoying Miao

    (Institute of Oceanology)

  • Junyi Wang

    (BGI-Shenzhen)

  • Qiang Wang

    (Institute of Oceanology)

  • Christian E. W. Steinberg

    (Institute of Biology, Humboldt Universität zu Berlin Arboretum, Späthstraße 80/81, 12437 Berlin, Germany)

  • Haiyan Wang

    (Institute of Oceanology)

  • Ning Li

    (BGI-Shenzhen)

  • Lumin Qian

    (Haskin Shellfish Research Laboratory, Institute of Marine and Coastal Sciences, Rutgers University)

  • Guojie Zhang

    (BGI-Shenzhen)

  • Yingrui Li

    (BGI-Shenzhen)

  • Huanming Yang

    (BGI-Shenzhen)

  • Xiao Liu

    (Institute of Oceanology)

  • Jian Wang

    (BGI-Shenzhen)

  • Ye Yin

    (BGI-Shenzhen)

  • Jun Wang

    (BGI-Shenzhen
    University of Copenhagen, DK-2200 Copenhagen, Denmark
    The Novo Nordisk Foundation Center for Basic Metabolic Research, University of Copenhagen, DK-2200 Copenhagen, Denmark)

Abstract

The Pacific oyster Crassostrea gigas belongs to one of the most species-rich but genomically poorly explored phyla, the Mollusca. Here we report the sequencing and assembly of the oyster genome using short reads and a fosmid-pooling strategy, along with transcriptomes of development and stress response and the proteome of the shell. The oyster genome is highly polymorphic and rich in repetitive sequences, with some transposable elements still actively shaping variation. Transcriptome studies reveal an extensive set of genes responding to environmental stress. The expansion of genes coding for heat shock protein 70 and inhibitors of apoptosis is probably central to the oyster’s adaptation to sessile life in the highly stressful intertidal zone. Our analyses also show that shell formation in molluscs is more complex than currently understood and involves extensive participation of cells and their exosomes. The oyster genome sequence fills a void in our understanding of the Lophotrochozoa.

Suggested Citation

  • Guofan Zhang & Xiaodong Fang & Ximing Guo & Li Li & Ruibang Luo & Fei Xu & Pengcheng Yang & Linlin Zhang & Xiaotong Wang & Haigang Qi & Zhiqiang Xiong & Huayong Que & Yinlong Xie & Peter W. H. Holland, 2012. "The oyster genome reveals stress adaptation and complexity of shell formation," Nature, Nature, vol. 490(7418), pages 49-54, October.
    • Handle: RePEc:nat:nature:v:490:y:2012:i:7418:d:10.1038_nature11413
    DOI: 10.1038/nature11413
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