PXD045824

PXD045824 is an original dataset announced via ProteomeXchange.

Title	Dynamic metabolic efficiency of substrate utilization by copiotrophic marine bacteria
Description	Under well-defined laboratory conditions, we grew R. pomeroyi DSS-3 and A. macleodii MIT1002 in batch cultures on a monosaccharide (glucose) and organic acid (acetate), provided either individually or in combination, and all at the same carbon equivalent. This batch culturing approach mimicked bacterial DOC assimilation in short-lived substrate ‘hot spots’, such as those formed by high phytoplankton extracellular release at peak photon availability. Measurements were made of bacterial metabolite uptake, respiration, and biomass accumulation through a growth cycle. Insights into bacterial core metabolism came from gene and protein expression measured at intervals during growth. Curated genome-scale models (flux balance analysis; FBA) were used to explore the metabolic foundation of CO2 production for insights into determinants of BGE and bCUE.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:13:26.873.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD045824
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Matthew McIlvin
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Alteromonas macleodii; NCBI TaxID: 28108; scientific name: Ruegeria pomeroyi DSS-3; NCBI TaxID: 246200;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-29 11:15:25	ID requested
1	2023-10-27 11:20:42	announced
⏵ 2	2024-10-22 06:13:27	announced	2024-10-22: Updated project metadata.

10.6019/PXD045824;

submitter keyword: Alteromonas macleodii MIT1002, LCMS,Ruegeria pomeroyi DSS-3

Mak Saito
contact affiliation	Woods Hole Oceanographic Institution USA
contact email	msaito@whoi.edu
lab head
Matthew McIlvin
contact affiliation	Woods Hole Oceanographic Inst.
contact email	mmcilvin@whoi.edu
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/2023/10/PXD045824

PRIDE project URI

• PRIDE
  1. PXD045824
     1. Label: PRIDE project
     2. Name: Dynamic metabolic efficiency of substrate utilization by copiotrophic marine bacteria