Culture-Independent Single-Cell PacBio Sequencing Reveals Epibiotic Variovorax and Nucleus Associated Mycoplasma in the Microbiome of the Marine Benthic Protist Geleia sp. YT (Ciliophora, Karyorelictea)

doi:10.3390/microorganisms11061500

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	Culture-Independent Single-Cell PacBio Sequencing Reveals Epibiotic Variovorax and Nucleus Associated Mycoplasma in the Microbiome of the Marine Benthic Protist Geleia sp. YT (Ciliophora, Karyorelictea)
	Zhang, Xiaoxin 1,5; Bi, Luping 1,2; Gentekaki, Eleni 3,4; Zhao, Jianmin 1,2; Shen, Pingping 5; Zhang, Qianqian 1,2
刊名	MICROORGANISMS
	2023-06-01
卷号	11 期号:6 页码:19
关键词	single cell microbiomics symbiosis Mycoplasma Variovorax marine benthic ciliate FISH
DOI	10.3390/microorganisms11061500
通讯作者	Zhang, Qianqian(qzhang@yic.ac.cn)
英文摘要	Microbes in marine sediments constitute up to five-sixths of the planet's total biomass, but their diversity is little explored, especially for those forming associations with unicellular protists. Heterotrophic ciliates are among the most dominant and diversified marine benthic protists and comprise hotspot niches of bacterial colonization. To date, studies using culture-independent single-cell approaches to explore microbiomes of marine benthic ciliates in nature are almost absent, even for the most ubiquitous species. Here, we characterize the major bacterial groups associated with a representative marine benthic ciliate, Geleia sp. YT, collected directly from the coastal zone of Yantai, China. PacBio sequencing of the nearly full-length 16Sr RNA genes was performed on single cells of Geleia. Fluorescence in situ hybridization (FISH) analysis with genus-specific probes was further applied to locate the dominant bacterial groups. We identified a Variovorax-like bacterium as the major epibiotic symbiont residing in the kineties of the ciliate host. We provide evidence of a nucleus-associated bacterium related to the human pathogen Mycoplasma, which appeared prevalently in the local populations of Geleia sp. YT for 4 months. The most abundant bacterial taxa associated with Geleia sp. YT likely represent its core microbiome, hinting at the important roles of the ciliate-bacteria consortium in the marine benthos. Overall, this work has contributed to the knowledge of the diversity of life in the enigmatic marine benthic ciliate and its symbioses.
WOS关键词	PHYLOGENETIC ANALYSIS ; AFIPIA-FELIS ; BACTERIA ; IDENTIFICATION ; DIVERSITY ; ALIGNMENT ; HOST ; ADAPTATIONS ; YANTAIENSIS ; GENOMICS
WOS研究方向	Microbiology
语种	英语
WOS记录号	WOS:001015010600001
内容类型	期刊论文
源URL	[http://ir.yic.ac.cn/handle/133337/33318]
专题	中国科学院牟平海岸带环境综合试验站
通讯作者	Zhang, Qianqian
作者单位	1.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Key Lab Coastal Environm Proc & Ecol Remediat, Yantai 264003, Peoples R China 2.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Muping Coastal Environm Res Stn, Yantai 264003, Peoples R China 3.Mae Fah Luang Univ, Sch Sci, Chiang Rai 57100, Thailand 4.Mae Fah Luang Univ, Gut Microbiome Res Grp, Chiang Rai 57100, Thailand 5.Yantai Univ, Sch Ocean, Yantai 264003, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Xiaoxin,Bi, Luping,Gentekaki, Eleni,et al. Culture-Independent Single-Cell PacBio Sequencing Reveals Epibiotic Variovorax and Nucleus Associated Mycoplasma in the Microbiome of the Marine Benthic Protist Geleia sp. YT (Ciliophora, Karyorelictea)[J]. MICROORGANISMS,2023,11(6):19.
APA	Zhang, Xiaoxin,Bi, Luping,Gentekaki, Eleni,Zhao, Jianmin,Shen, Pingping,&Zhang, Qianqian.(2023).Culture-Independent Single-Cell PacBio Sequencing Reveals Epibiotic Variovorax and Nucleus Associated Mycoplasma in the Microbiome of the Marine Benthic Protist Geleia sp. YT (Ciliophora, Karyorelictea).MICROORGANISMS,11(6),19.
MLA	Zhang, Xiaoxin,et al."Culture-Independent Single-Cell PacBio Sequencing Reveals Epibiotic Variovorax and Nucleus Associated Mycoplasma in the Microbiome of the Marine Benthic Protist Geleia sp. YT (Ciliophora, Karyorelictea)".MICROORGANISMS 11.6(2023):19.