PXD008280

PXD008280 is an original dataset announced via ProteomeXchange.

Title	Succession of proteomic, transcriptomic and exometabolomic signatures in Alteromonas macleodii degrading a mix of macroalgal polysaccharides
Description	Polysaccharides from macroalgae are important bacterial nutrient source and central biogeochemical component in the oceans. To illuminate the cellular mechanisms of polysaccharide degradation by marine bacteria, growth of Alteromonas macleodii 83-1 on a mix of laminarin, alginate and pectin was characterized using transcriptomics, proteomics and exometabolomics. A. macleodii 83-1 showed two distinct growth stages, with exponential growth during laminarin utilization followed by maintenance during simultaneous alginate/pectin utilization. The biphasic growth coincided with major temporal shifts in gene expression and metabolite secretion, enabling to define major/accessory polysaccharide utilization loci, reconstruct the complete degradation pathways for each polysaccharide, as well as identify temporal phenotypes in other relevant traits. FT-ICR-MS revealed a distinct suite of secreted metabolites for each growth phase, with pyrroloquinoline quinone exclusively produced with alginate/pectin. The finding of substrate-unique phenotypes indicates an exquisite adaptation to polysaccharide utilization with probable relevance for the degradation of macroalgal biomass, which comprises a complex mix of polysaccharides. Moreover, substrate-unique exometabolomes possibly influence metabolic interactions with other community members. Overall, the presence of fine-tuned genetic machineries for polysaccharide degradation and the widespread detection of related CAZymes in global locations indicate an ecological relevance of A. macleodii in marine polysaccharide cycling and bacteria-algae interactions.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:42:02.726.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD008280
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alexandra Dürwald
SpeciesList	scientific name: Alteromonas macleodii; NCBI TaxID: 28108;
ModificationList	Oxidation
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-23 07:04:01	ID requested
1	2018-08-22 04:12:31	announced
⏵ 2	2024-10-22 04:42:03	announced	2024-10-22: Updated project metadata.

10.1038/s41396-018-0252-4;

Koch H, D, ü, rwald A, Schweder T, Noriega-Ortega B, Vidal-Melgosa S, Hehemann JH, Dittmar T, Freese HM, Becher D, Simon M, Wietz M, Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J, 13(1):92-103(2019) [pubmed]

10.6019/PXD008280;

curator keyword: Biological

submitter keyword: catabolite repression, polysaccharide degradation,Alteromonas

Thomas Schweder
contact affiliation	Pharmaceutical Biotechnology, Institute of Pharmacy, University of Greifswald, Germany
contact email	schweder@uni-greifswald.de
lab head
Alexandra Dürwald
contact affiliation	Uni-Greifswald
contact email	duerwalda@uni-greifswald.de
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/2018/08/PXD008280

PRIDE project URI

• PRIDE
  1. PXD008280
     1. Label: PRIDE project
     2. Name: Succession of proteomic, transcriptomic and exometabolomic signatures in Alteromonas macleodii degrading a mix of macroalgal polysaccharides