PXD011992

PXD011992 is an original dataset announced via ProteomeXchange.

Title	Proteomics and transcriptomics analyses of Methylophaga thiooxydans reveal adaptations for growth on dimethylsulfide in a marine model organism
Description	Dimethylsulfide is a volatile organic sulfur compound that provides the largest input of biogenic sulfur from the oceans to the atmosphere, and thence back to land, constituting an important link in the global sulfur cycle. Microorganisms degrading DMS affect fluxes of DMS in the environment, but the underlying metabolic pathways are still poorly understood. Methylophaga thiooxydans is a marine methylotrophic bacterium capable of growth on DMS as sole source of carbon and energy. Using proteomics and transcriptomics we identified genes expressed during growth on dimethylsulfide and methanol to refine our knowledge of the metabolic pathways that are involved in DMS and methanol degradation in this strain. Amongst the most highly expressed genes on DMS were the two methanethiol oxidases driving the oxidation of this reactive and toxic intermediate of DMS metabolism. Growth on DMS also increased expression of the enzymes of the tetrahydrofolate linked pathway of formaldehyde oxidation, in addition to the tetrahydromethanopterin linked pathway. Key enzymes of the inorganic sulfur oxidation pathway included flavocytochrome c sulfide dehydrogenase, sulfide quinone oxidoreductase, and persulfide dioxygenases. A sulP permease was also expressed during growth on DMS. Other enzymes of organic and inorganic sulfur metabolism previously detected in cell extracts of Methylophaga have not been characterised at the genetic level yet; their expression level and regulation could not be analysed. A pan-genome analysis of six available Methylophaga genomes suggests that only two of the six investigated bacteria have the metabolic potential to utilize methanethiol, the degradation product of DMS. These results mirror phenotypic analyses and demonstrate that DMS-utilization and subsequent C1 and sulfur oxidation are not conserved across the entire genus.
HostingRepository	PRIDE
AnnounceDate	2019-11-13
AnnouncementXML	Submission_2019-11-12_16:03:51.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD011992
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Andrew Bottrill
SpeciesList	scientific name: Methylophaga thiooxydans DMS010; NCBI TaxID: 637616;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2018-12-10 03:11:29	ID requested
⏵ 1	2019-11-12 16:03:52	announced

Kr, ö, ber E, Sch, ä, fer H, During Growth on Dimethylsulfide and Their Presence in Other Members of the Genus. Front Microbiol, 10():1132(2019) [pubmed]

curator keyword: Biological

submitter keyword: Methylophaga thiooxydans, dimethylsulfide,

Hendrik Schaefer
contact affiliation	School of Life Sciences, Univeristy of Warwick, Coventry, CV4 7AL, United Kingdom
contact email	h.schaefer@warwick.ac.uk
lab head
Andrew Bottrill
contact affiliation	University of Warwick
contact email	a.r.bottrill@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD011992
     1. Label: PRIDE project
     2. Name: Proteomics and transcriptomics analyses of Methylophaga thiooxydans reveal adaptations for growth on dimethylsulfide in a marine model organism