PXD029383

PXD029383 is an original dataset announced via ProteomeXchange.

Title	In situ proteomic data of E. flavus 21-3 and corresponding mutants
Description	Zero-valent sulfur (ZVS) distributes widely in the deep-sea cold seep, which is important immediate in the active sulfur cycle of cold seep. In our preview work, a novel ZVS formation pathway discovered in the deep-sea cold weep bacterium Erythrobacter flavus 21-3 was described. However, whether this pathway worked and what function roles it played in the cold seep were unknown. In this study, E. flavus 21-3 was verified to produce zero-valent sulfur in the cold seep using genes soxB and tsdA as our preview report described. Based on proteomic data, stoichiometric methods and microscopic observation, this ZVS formation pathway benefited E. flavus 21-3 in the deep-sea cold seep. Notably, 30% metagenomes contained these two genes in the shallow sediments, which present the most abundant sulfur genes and active sulfur cycle in the cold seep sediments. It suggested that this sulfur formation pathway exist across many bacteria in the cold seep. This strongly indicates that this novel pathway might be frequently used by microbes and plays an important role in the biogeochemical sulfur cycle in cold seep.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:53:42.161.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ruining Cai
SpeciesList	scientific name: Erythrobacter sp. RAS19; NCBI TaxID: 692925;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2021-10-27 08:14:27	ID requested
1	2022-07-09 06:10:33	announced
⏵ 2	2023-11-14 08:53:42	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Zero-valent sulfur;thiosulfate oxidation;cold seep

Ruining Cai
contact affiliation	Institute of Oceanology Chinese Academy of Sciences
contact email	RuiningCAI@163.com
lab head
Ruining Cai
contact affiliation	Institute of Oceanology Chinese Academy of Sciences
contact email	1651309629@qq.com
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/07/PXD029383

PRIDE project URI

• PRIDE
  1. PXD029383
     1. Label: PRIDE project
     2. Name: In situ proteomic data of E. flavus 21-3 and corresponding mutants