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DataSet Summary

  • HostingRepository: PRIDE
  • AnnounceDate: 2019-07-25
  • AnnouncementXML: Submission_2019-07-25_09:03:33.xml
  • DigitalObjectIdentifier:
  • ReviewLevel: Peer-reviewed dataset
  • DatasetOrigin: Original data
  • RepositorySupport: Unsupported dataset by repository
  • PrimarySubmitter: Thomas Sura
  • Title: Proteomic insights into ulvan degradation by the marine Flavobacterium Formosa agariphila
  • Description: The marine Flavobacterium Formosa agariphila KMM 3901T is able to use a broad range of different carbohydrates as growth substrates. This is reflected in the strain’s repertoire of 13 polysaccharide utilization loci (PUL) in total. One PUL – termed as PUL H – is responsible for ulvan degradation, which is a widely distributed, algal-derived polysaccharide. The PUL comprises almost 40 genes, coding for transporters, lyases, glycoside hydrolases or sulfatases, among others. These proteins catalyse the breakdown of ulvan or the uptake of degradation products. A combined application of isotope labeling, subcellular protein fractionation and quantitative proteomics revealed that corresponding PUL encoded proteins were substrate specific up-regulated in ulvan-cultivated cells. The sulphated polysaccharide ulvan also induced the specific expression of proteins necessary for subsequent monosaccharide degradation. Compared to a control (fructose-cultivated cells), expression of PUL H additionally responded to rhamnose, a basic component of ulvan, indicating that this monosaccharide might signal ulvan availability in the environment. Our proteome analyses proofed a substrate specific expression of proteins involved in ulvan utilization and allowed us to deduce a comprehensive degradation pathway for this complex marine polysaccharide.
  • SpeciesList: scientific name: Formosa agariphila KMM 3901; NCBI TaxID: 1347342;
  • ModificationList: monohydroxylated residue
  • Instrument: LTQ Orbitrap

Dataset History

VersionDatetimeStatusChangeLog Entry
02018-03-22 09:12:51ID requested
12019-07-25 09:03:35announced

Publication List

  1. Reisky L, Préchoux A, Zühlke MK, Bäumgen M, Robb CS, Gerlach N, Roret T, Stanetty C, Larocque R, Michel G, Song T, Markert S, Unfried F, Mihovilovic MD, Trautwein-Schult A, Becher D, Schweder T, Bornscheuer UT, Hehemann JH, A marine bacterial enzymatic cascade degrades the algal polysaccharide ulvan. Nat Chem Biol, 15(8):803-812(2019) [pubmed]

Keyword List

  1. curator keyword: Biological
  2. submitter keyword: Flavobacterium, Formosa agariphila, Proteome

Contact List

    Dörte Becher
    • contact affiliation: Ernst-Moritz-Arndt-University Greifswald Center for Functional Genomics of Microbes Institute for Microbiology Department of Microbial Proteomics Felix-Hausdorff-Str.8 17489 Greifswald
    • contact email: dbecher@uni-greifswald.de
    • lab head:
    Thomas Sura
    • contact affiliation: Ernst-Moritz-Arndt-University Greifswald Institute for Microbiology Department of Microbial Proteomics
    • contact email: thomas.sura@uni-greifswald.de
    • dataset submitter:

Full Dataset Link List

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