PXD008238

PXD008238 is an original dataset announced via ProteomeXchange.

Title	Analysis of Polysaccharide Utilization Loci from 53 sequenced North Sea Flavobacteriia suggests that major algal glycans exhibit limited structural diversity
Description	Marine algae convert a substantial fraction of the carbon dioxide they fix into various polysaccharides. Bacteria specialized on the remineralization of these polysaccharides often feature genomic clusters, termed polysaccharide utilization loci (PULs). Such PULs are often prevalent in, but not limited to, marine Flavobacteriia. Since knowledge on extant PUL diversity is sparse, we sequenced the genomes of 53 North Sea Flavobacteriia. We obtained 400 PULs, suggesting usage of a large array of polysaccharides, including laminarin, α- and β-mannans, fucose-, xylose-, galactose-, rhamnose- and arabinose-containing substrates, pectins, and chitins. Many of the PULs were novel, some indicating substrates that have rarely been described in marine environments. PUL repertoires of isolates often differed significantly within genera, corroborating ecological niche-associated glycan partitioning. Polysaccharide uptake in Flavobacteriia is mediated by SusCD. Respective protein trees revealed clustering according to polysaccharide specificities. Analysis of SusCD expression in multiyear phytoplankton bloom-associated metaproteomes indicated changes in microbial utilization of glucan, ß-mannan and sulfated xylan, suggesting that distinct substrates are temporarily abundant.
HostingRepository	PRIDE
AnnounceDate	2018-08-16
AnnouncementXML	Submission_2019-07-23_06:29:23.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD008238
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Frank Unfried
SpeciesList	scientific name: algae metagenome; NCBI TaxID: 1300146;
ModificationList	Oxidation
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-19 23:57:09	ID requested
1	2018-08-16 12:17:52	announced
⏵ 2	2019-07-23 06:29:25	announced	Updated publication reference for PubMed record(s): 31316134.

Kr, ü, ger K, Chafee M, Ben Francis T, Glavina Del Rio T, Becher D, Schweder T, Amann RI, Teeling H, In marine Bacteroidetes the bulk of glycan degradation during algae blooms is mediated by few clades using a restricted set of genes. ISME J, 13(11):2800-2816(2019) [pubmed]

curator keyword: Biological

submitter keyword: polysaccharide, PUL

Rudolf Amann
contact affiliation	MPI for Marine Microbiology Celsiusstr. 1 D-28359 Bremen Germany
contact email	ramann@mpi-bremen.de
lab head
Frank Unfried
contact affiliation	University of Greifswald
contact email	fu072203@uni-greifswald.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008238
     1. Label: PRIDE project
     2. Name: Analysis of Polysaccharide Utilization Loci from 53 sequenced North Sea Flavobacteriia suggests that major algal glycans exhibit limited structural diversity