Characterization of the First Cultured Representative of "Candidatus Thermofonsia" Clade 2 within Chloroflexi Reveals Its Phototrophic Lifestyle

doi:10.1128/mbio.00287-22

IOCAS-IR > 实验海洋生物学重点实验室

	Characterization of the First Cultured Representative of "Candidatus Thermofonsia" Clade 2 within Chloroflexi Reveals Its Phototrophic Lifestyle
	Zheng, Rikuan1,2,3,4,5 ; Cai, Ruining 1,2,3,4,5,6; Wang, Chong 1,2,3,4,5; Liu, Rui 1,2,3,4,5; Sun, Chaomin 1,2,3,4,5,6
	2022-04-26
发表期刊	MBIO
ISSN	2150-7511
卷号	13 期号:2 页码:17
通讯作者	Sun, Chaomin(sunchaomin@qdio.ac.cn)
摘要	"Candidatus Thermofonsia" represents a novel class within the phylum Chloroflexi. Metagenomic analysis reveals "Ca. Thermofonsia" harbors phototrophs outside the classically phototrophic Chloroflexia class. Unfortunately, the paucity of pure cultures limits further insights into their potential phototrophy. Here, we report the successful isolation of a "Ca. Thermofonsia" representative (Phototrophicus methaneseepsis ZRK33) from a deep-sea cold seep. Using combined physiological, genomic, and transcriptomic methods, we further show the long-wavelength light (e.g., red and infrared light) could promote the growth of strain ZRK33 and upregulate the expression of genes associated with phototrophy. In particular, strain ZRK33 has a typical phototrophic lifestyle under both laboratory and deep-sea conditions. Strain ZRK33 also possesses the ability to fix inorganic carbon through the 3-hydroxypropionate bicycle in both laboratory and deep-sea in situ environments, and the combined autotrophic, phototrophic, and heterotrophic capabilities endow strain ZRK33 with a photomixotrophic lifestyle. Notably, the predicted genes associated with phototrophy broadly exist in the metagenomes of 27 deep-sea Chloroflexi members, strongly suggesting diverse phototrophic Chloroflexi members are distributed in various unexplored deep biospheres. IMPORTANCE The deep ocean microbiota represents the unexplored majority of global ocean waters. The phylum Chloroflexi is abundant and broadly distributed in various deep-sea ecosystems. It was reported that some members of "Candidatus Thermofonsia" clade 2 might possess phototrophs; however, the absence of cultured representatives is a significant bottleneck toward understanding their phototrophic characteristics. In the present study, we successfully isolated a representative of the novel class "Ca. Thermofonsia" from a deep-sea cold seep by using an enrichment medium constantly supplemented with rifampicin, allowing researchers to isolate more Chloroflexi members in the future. Importantly, outside the classically phototrophic Chloroflexia class, we discover a novel phototrophic clade within the phylum Chloroflexi and demonstrate the existence of phototrophic lifestyles in the deep sea. Thus, this study expands the range of phototrophic Chloroflexi and provides a good model to study the mechanism of phototrophy performed in the deep biosphere. The deep ocean microbiota represents the unexplored majority of global ocean waters. The phylum Chloroflexi is abundant and broadly distributed in various deep-sea ecosystems.
关键词	Chloroflexi "Candidatus Thermofonsia" deep sea phototrophic lifestyle photosynthetic reaction center
DOI	10.1128/mbio.00287-22
收录类别	SCI
语种	英语
资助项目	Strategic Priority Research Program of the Chinese Academy of Sciences[XDA22050301] ; China Ocean Mineral Resources R&D Association Grant[DY135-B2-14] ; Key Deployment Projects of Center of Ocean Mega-Science of the Chinese Academy of Sciences[COMS2020Q04] ; Major Research Plan of the National Natural Science Foundation[92051107] ; National Key R and D Program of China[2018YFC0310800] ; Taishan Young Scholar Program of Shandong Province[tsqn20161051]
WOS研究方向	Microbiology
WOS类目	Microbiology
WOS记录号	WOS:000788061200068
出版者	AMER SOC MICROBIOLOGY
引用统计	被引频次：10[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/178946
专题	实验海洋生物学重点实验室
通讯作者	Sun, Chaomin
作者单位	1.Chinese Acad Sci, CAS, Inst Oceanol, Qingdao, Peoples R China 2.Chinese Acad Sci, Shandong Prov Key Lab Expt Marine Biol, Inst Oceanol, Qingdao, Peoples R China 3.Chinese Acad Sci, Ctr Deep Sea Res, Inst Oceanol, Qingdao, Peoples R China 4.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao, Peoples R China 5.Chinese Acad Sci, Ctr Ocean Megasci, Qingdao, Peoples R China 6.Univ Chinese Acad Sci, Coll Earth Sci, Beijing, Peoples R China
第一作者单位	中国科学院海洋研究所; 中国科学院海洋大科学研究中心
通讯作者单位	中国科学院海洋研究所; 中国科学院海洋大科学研究中心
推荐引用方式 GB/T 7714	Zheng, Rikuan,Cai, Ruining,Wang, Chong,et al. Characterization of the First Cultured Representative of "Candidatus Thermofonsia" Clade 2 within Chloroflexi Reveals Its Phototrophic Lifestyle[J]. MBIO,2022,13(2):17.
APA	Zheng, Rikuan,Cai, Ruining,Wang, Chong,Liu, Rui,&Sun, Chaomin.(2022).Characterization of the First Cultured Representative of "Candidatus Thermofonsia" Clade 2 within Chloroflexi Reveals Its Phototrophic Lifestyle.MBIO,13(2),17.
MLA	Zheng, Rikuan,et al."Characterization of the First Cultured Representative of "Candidatus Thermofonsia" Clade 2 within Chloroflexi Reveals Its Phototrophic Lifestyle".MBIO 13.2(2022):17.

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