PXD023380-2

PXD023380 is an original dataset announced via ProteomeXchange.

Title	Cultivation and characterization of a novel clade of deep-sea Chloroflexi: providing a glimpse of Chloroflexi involved in sulfur cycling
Description	The deep marine subsurface is one of the largest unexplored biospheres on Earth, where members of the phylum Chloroflexi are abundant and globally distributed. However, the deep-sea Chloroflexi have remained elusive to cultivation, hampering a more thorough understanding of their metabolisms. In this work, we have successfully isolated a representative of the phylum Chloroflexi, designated strain ZRK33, from deep-sea cold seep sediments. Phylogenetic analyses based on 16S rRNA genes, genomes, RpoB and EF-tu proteins indicated that strain ZRK33 represents a novel class within the phylum Chloroflexi, designated Sulfochloroflexia. We present a detailed description of the phenotypic traits, complete genome sequence and central metabolisms of the novel strain ZRK33. Notably, sulfate and thiosulfate could significantly promote the growth of the new isolate, possibly through accelerating the hydrolysis and uptake of saccharides. Thus, this result reveals that strain ZRK33 may play a crucial part in sulfur cycling in the deep-sea environments. Moreover, the putative genes associated with assimilatory and dissimilatory sulfate reduction are broadly distributed in the genomes of 27 metagenome-assembled genomes (MAGs) from deep-sea cold seep and hydrothermal vents sediments. Together, we propose that the deep marine subsurface Chloroflexi play key roles in sulfur cycling for the first time. This may concomitantly suggest an unsuspected availability of sulfur-containing compounds to allow for the high abundance of Chloroflexi in the deep sea.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:40:48.240.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	sun lab sun lab
SpeciesList	scientific name: Chloroflexi; NCBI TaxID: 200795;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-04 03:10:46	ID requested
1	2024-05-22 01:08:01	announced
⏵ 2	2024-10-22 06:40:49	announced	2024-10-22: Updated project metadata.

Zheng R, Wang C, Sun C, bacterium. mBio, 15(4):e0000424(2024) [pubmed]

10.1128/mbio.00004-24;

submitter keyword: Chloroflexi

deep sea

marine subsurface

sulfur cycle

multiple omics

Chaomin Sun
contact affiliation	Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
contact email	sunchaomin@qdio.ac.cn
lab head
sun lab sun lab
contact affiliation	institute of oceanology
contact email	1365105894@qq.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD023380
     1. Label: PRIDE project
     2. Name: Cultivation and characterization of a novel clade of deep-sea Chloroflexi: providing a glimpse of Chloroflexi involved in sulfur cycling