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PXD009299 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteomic insights into ulvan degradation by the marine Flavobacterium Formosa agariphila
DescriptionThe 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.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterThomas Sura
SpeciesList scientific name: Formosa agariphila KMM 3901; NCBI TaxID: 1347342;
ModificationListmonohydroxylated residue
InstrumentLTQ Orbitrap
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-03-22 09:12:51ID requested
12019-07-25 09:03:35announced
Publication List
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
curator keyword: Biological
submitter keyword: Flavobacterium, Formosa agariphila, Proteome
Contact List
Dörte Becher
contact affiliationErnst-Moritz-Arndt-University Greifswald Center for Functional Genomics of Microbes Institute for Microbiology Department of Microbial Proteomics Felix-Hausdorff-Str.8 17489 Greifswald
contact emaildbecher@uni-greifswald.de
lab head
Thomas Sura
contact affiliationErnst-Moritz-Arndt-University Greifswald Institute for Microbiology Department of Microbial Proteomics
contact emailthomas.sura@uni-greifswald.de
dataset submitter
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