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    Ecological functions of uncultured microorganisms in the cobalt-rich ferromanganese crust of a seamount in the central Pacific are elucidated by fosmid sequencing

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    Date
    2014-07
    Author
    Huo, Yingyi  Concept link
    Cheng, Hong  Concept link
    Post, Anton F.  Concept link
    Wang, Chunsheng  Concept link
    Jiang, Xiawei  Concept link
    Pan, Jie  Concept link
    Wu, Min  Concept link
    Xu, Xuewei  Concept link
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    Citable URI
    https://hdl.handle.net/1912/7304
    As published
    https://doi.org/10.1007/s13131-015-0650-7
    Keyword
     Seamount; Cobalt-rich ferromanganese crust; Metagenome; Horizontal gene transfer 
    Abstract
    Cobalt-rich ferromanganese is an important seafloor mineral and is abundantly present in the seamount crusts. Such crusts form potential hotspots for biogeochemical activity and microbial diversity, yet our understanding of their microbial communities is lacking. In this study, we used a cultivation-independent approach to recover genomic information and derive ecological functions of the microbes in a sediment sample collected from the cobalt-rich ferromanganese crust of a seamount region in the central Pacific. A total of 78 distinct clones were obtained by fosmid library screening with a 16S rRNA based PCR method. Proteobacteria and MGI Thaumarchaeota dominated the bacterial and archaeal 16S rRNA gene sequence results in the microbial community. Nine fosmid clones were sequenced and annotated. Numerous genes encoding proteins involved in metabolic functions and heavy metal resistance were identified, suggesting alternative metabolic pathways and stress responses that are essential for microbial survival in the cobalt-rich ferromanganese crust. In addition, genes that participate in the synthesis of organic acids and exoploymers were discovered. Reconstruction of the metabolic pathways revealed that the nitrogen cycle is an important biogeochemical process in the cobalt-rich ferromanganese crust. In addition, horizontal gene transfer (HGT) events have been observed, and most of them came from bacteria, with some occurring in archaea and plants. Clone W4-93a, belonging to MGI Thaumarchaeota, contained a region of gene synteny. Comparative analyses suggested that a high frequency of HGT events as well as genomic divergence play important roles in the microbial adaption to the deep-sea environment.
    Description
    Author Posting. © The Author(s), 2014. This is the author's version of the work. It is posted here by permission of Springer for personal use, not for redistribution. The definitive version was published in Acta Oceanologica Sinica 34 (2015):92-113, doi:10.1007/s13131-015-0650-7.
    Collections
    • Josephine Bay Paul Center in Comparative Molecular Biology and Evolution
    Suggested Citation
    Preprint: Huo, Yingyi, Cheng, Hong, Post, Anton F., Wang, Chunsheng, Jiang, Xiawei, Pan, Jie, Wu, Min, Xu, Xuewei, "Ecological functions of uncultured microorganisms in the cobalt-rich ferromanganese crust of a seamount in the central Pacific are elucidated by fosmid sequencing", 2014-07, https://doi.org/10.1007/s13131-015-0650-7, https://hdl.handle.net/1912/7304
     

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