Decoupling of strain- and intrastrain-level interactions of microbiomes in a sponge holobiont

Wang, Wenxiu1; Song, Weizhi2,3; Majzoub, Marwan E.2,3; Feng, Xiaoyuan4; Xu, Bu1; Tao, Jianchang1; Zhu, Yuanqing1; Li, Zhiyong5; Qian, Pei-Yuan6,7; Webster, Nicole S.8,9,10; Thomas, Torsten2,3; Fan, Lu1

2024-09-18

10.1038/s41467-024-52464-6

NATURE COMMUNICATIONS   影响因子和分区

2041-1723

["Holobionts are highly organized assemblages of eukaryotic hosts, cellular microbial symbionts, and viruses, whose interactions and evolution involve complex biological processes. It is largely unknown which specific determinants drive similarity or individuality in genetic diversity between holobionts. Here, we combine short- and long-read sequencing and DNA-proximity-linkage technologies to investigate intraspecific diversity of the microbiomes, including host-resolved viruses, in individuals of a model marine sponge. We find strong impacts of the sponge host and the cellular hosts of viruses on strain-level organization of the holobiont, whereas substantial overlap in nucleotide diversity between holobionts suggests frequent exchanges of microbial cells and viruses at intrastrain level in the local sponge population. Immune-evasive arms races likely restricted virus-host co-evolution at the intrastrain level, generated holobiont-specific genome variations, and linked virus-host genetics through recombination. Our work shows that a decoupling of strain- and intrastrain-level interactions is a key factor in the genetic diversification of holobionts.","Marine host-associated microbiomes retain a tremendous pool of genetic diversity, which is key to the health of marine ecosystems. This study on reef sponges shows that genomic diversification of individual microbiomes follows different rules at strain- and intrastrain-levels."]

SCI

英语

第一 ; 通讯

National Natural Science Foundation of China (National Science Foundation of China)["42406103","31861143020","91951120"] ; Betty and Gordon Moore Foundation[KF2021006] ; Open Project of Key Laboratory of Environmental Biotechnology, CAS[2021B1515120080]

Science & Technology - Other Topics

Multidisciplinary Sciences

WOS:001315990000011

NATURE PORTFOLIO

Web of Science

1.Southern Univ Sci & Technol, Dept Ocean Sci & Engn, Shenzhen, Guangdong, Peoples R China
2.Univ New South Wales, Ctr Marine Sci & Innovat, Sydney, NSW, Australia
3.Univ New South Wales, Sch Biol Earth & Environm Sci, Sydney, NSW, Australia
4.Chinese Univ Hong Kong, Shenzhen Res Inst, Shenzhen, Guangdong, Peoples R China
5.Shanghai Jiao Tong Univ, Sch Life Sci & Biotechnol, State Key Lab Microbial Metab, Joint Int Res Lab Metab & Dev Sci, Shanghai, Peoples R China
6.Hong Kong Univ Sci & Technol, Dept Ocean Sci, Kowloon, Hong Kong, Peoples R China
7.Southern Marine Sci & Engn Guangdong Lab Guangzhou, Guangzhou, Guangdong, Peoples R China
8.Australian Antarctic Div, Kingston, Tas, Australia
9.Univ Queensland, Australian Ctr Ecogen, Brisbane, Qld, Australia
10.Australian Inst Marine Sci, Townsville, Qld, Australia

Wang, Wenxiu,Song, Weizhi,Majzoub, Marwan E.,et al. Decoupling of strain- and intrastrain-level interactions of microbiomes in a sponge holobiont[J]. NATURE COMMUNICATIONS,2024,15(1).

Wang, Wenxiu.,Song, Weizhi.,Majzoub, Marwan E..,Feng, Xiaoyuan.,Xu, Bu.,...&Fan, Lu.(2024).Decoupling of strain- and intrastrain-level interactions of microbiomes in a sponge holobiont.NATURE COMMUNICATIONS,15(1).

Wang, Wenxiu,et al."Decoupling of strain- and intrastrain-level interactions of microbiomes in a sponge holobiont".NATURE COMMUNICATIONS 15.1(2024).