Global marine microbial diversity and its potential in bioprospecting

Jianwei Chen, Yangyang Jia, Ying Sun (), Kun Liu, Changhao Zhou, Chuan Liu, Denghui Li, Guilin Liu, Chengsong Zhang, Tao Yang, Lei Huang, Yunyun Zhuang, Dazhi Wang, Dayou Xu, Qiaoling Zhong, Yang Guo, Anduo Li, Inge Seim, Ling Jiang, Lushan Wang, Simon Ming Yuen Lee, Yujing Liu, Dantong Wang, Guoqiang Zhang, Shanshan Liu, Xiaofeng Wei, Zhen Yue, Shanmin Zheng, Xuechun Shen, Sen Wang, Chen Qi, Jing Chen, Chen Ye, Fang Zhao, Jun Wang, Jie Fan, Baitao Li, Jiahui Sun, Xiaodong Jia, Zhangyong Xia, He Zhang, Junnian Liu, Yue Zheng, Xin Liu, Jian Wang, Huanming Yang, Karsten Kristiansen, Xun Xu, Thomas Mock (), Shengying Li (), Wenwei Zhang () and Guangyi Fan ()
Additional contact information
Jianwei Chen: BGI Research
Yangyang Jia: BGI Research
Ying Sun: BGI Research
Kun Liu: Shandong University
Changhao Zhou: BGI Research
Chuan Liu: BGI Research
Denghui Li: BGI Research
Guilin Liu: BGI Research
Chengsong Zhang: Shandong University
Tao Yang: BGI Research
Lei Huang: BGI Research
Yunyun Zhuang: Ocean University of China
Dazhi Wang: Xiamen University
Dayou Xu: BGI Research
Qiaoling Zhong: BGI Research
Yang Guo: BGI Research
Anduo Li: BGI Research
Inge Seim: Chinese Academy of Sciences
Ling Jiang: Nanjing Tech University
Lushan Wang: Shandong University
Simon Ming Yuen Lee: The Hong Kong Polytechnic University
Yujing Liu: BGI Research
Dantong Wang: BGI Research
Guoqiang Zhang: Shandong University
Shanshan Liu: BGI Research
Xiaofeng Wei: BGI Research
Zhen Yue: BGI Research
Shanmin Zheng: Shandong University
Xuechun Shen: BGI Research
Sen Wang: Shandong University
Chen Qi: BGI Research
Jing Chen: BGI Research
Chen Ye: BGI Research
Fang Zhao: BGI Research
Jun Wang: BGI Research
Jie Fan: BGI Research
Baitao Li: BGI Research
Jiahui Sun: BGI Research
Xiaodong Jia: Liaocheng People’s Hospital
Zhangyong Xia: The Second People’s Hospital of Liaocheng
He Zhang: BGI Research
Junnian Liu: BGI Research
Yue Zheng: BGI Research
Xin Liu: BGI Research
Jian Wang: BGI Research
Huanming Yang: BGI Research
Karsten Kristiansen: BGI Research
Xun Xu: BGI Research
Thomas Mock: Norwich Research Park
Shengying Li: Shandong University
Wenwei Zhang: BGI Research
Guangyi Fan: BGI Research

Nature, 2024, vol. 633, issue 8029, 371-379

Abstract: Abstract The past two decades has witnessed a remarkable increase in the number of microbial genomes retrieved from marine systems1,2. However, it has remained challenging to translate this marine genomic diversity into biotechnological and biomedical applications3,4. Here we recovered 43,191 bacterial and archaeal genomes from publicly available marine metagenomes, encompassing a wide range of diversity with 138 distinct phyla, redefining the upper limit of marine bacterial genome size and revealing complex trade-offs between the occurrence of CRISPR–Cas systems and antibiotic resistance genes. In silico bioprospecting of these marine genomes led to the discovery of a novel CRISPR–Cas9 system, ten antimicrobial peptides, and three enzymes that degrade polyethylene terephthalate. In vitro experiments confirmed their effectiveness and efficacy. This work provides evidence that global-scale sequencing initiatives advance our understanding of how microbial diversity has evolved in the oceans and is maintained, and demonstrates how such initiatives can be sustainably exploited to advance biotechnology and biomedicine.

Date: 2024
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DOI: 10.1038/s41586-024-07891-2

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