dbCAN-PUL
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PlantCAZyme
Cite: NAR/gkaa742 2020

Because CGCFinder predicted no CGC for this PUL, the gene cluster depicted below contains dbCAN2 and CGC signature predictions for all genes in the PUL, instead of a predicted CGC.


PUL General Information

Literature Information

PUL ID

PUL0771

PubMed

39738071, Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w.

Characterization method

RNA-seq,differential gene expression,HPAEC-PAD,SDS-PAGE,para-hydroxybenzoic acid (PAHBAH) assay,reducing-sugar assay,Carbohydrate Polyacrylamide Gel Electrophoresis (C-PAGE),enzyme activity assay

Genomic accession number

CAWLDL010000001.1

Nucelotide position range

6731951-6765929

Substrate

fucoidan

Loci

None

Species

Rhodopirellula sp. SWK7/595460

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

Cluster number

0

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1404 (+) CAZyme: GH29 No
- 1635 - 2195 (-) CDS No
- 2331 - 3212 (-) CAZyme: GH29 No
- 3365 - 4897 (-) CAZyme: GH141 No
- 5658 - 6773 (-) CDS No
- 6925 - 7110 (+) CDS No
- 7406 - 7642 (+) CDS No
- 7599 - 7754 (-) CDS No
- 7940 - 8743 (-) STP: STP|SBP_bac_10 No
- 9228 - 9497 (-) CDS No
- 9476 - 9706 (-) CDS No
- 9888 - 11675 (-) CDS No
- 11811 - 13445 (-) CDS No
- 13489 - 15186 (-) CAZyme: GH29 No
- 15348 - 16718 (-) CDS No
- 16862 - 17881 (-) CDS No
- 18318 - 19805 (-) CDS No
- 19802 - 21442 (-) CDS No
- 21486 - 21803 (-) CDS No
- 21849 - 23615 (-) CDS No
- 23860 - 25044 (-) CAZyme: GH168 No
- 25041 - 26495 (-) CAZyme: GH29 No
- 26650 - 28428 (-) CAZyme: GH29 No
- 28997 - 29260 (+) CDS No
- 29372 - 29644 (-) CDS No
- 31257 - 33299 (+) CDS No
- 33281 - 33979 (+) TF: DBD-Pfam|GerE,DBD-SUPERFAMILY|0041905 No

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PUL ID

PUL0771

PubMed

39738071, Nat Commun. 2024 Dec 30;15(1):10906. doi: 10.1038/s41467-024-55268-w.

Title

Mechanisms of recalcitrant fucoidan breakdown in marine Planctomycetota.

Author

Perez-Cruz C, Moraleda-Montoya A, Liebana R, Terrones O, Arrizabalaga U, Garcia-Alija M, Lorizate M, Martinez Gascuena A, Garcia-Alvarez I, Nieto-Garai JA, Olazar-Intxausti J, Rodriguez-Colinas B, Mann E, Chiara JL, Contreras FX, Guerin ME, Trastoy B, Alonso-Saez L

Abstract

Marine brown algae produce the highly recalcitrant polysaccharide fucoidan, contributing to long-term oceanic carbon storage and climate regulation. Fucoidan is degraded by specialized heterotrophic bacteria, which promote ecosystem function and global carbon turnover using largely uncharacterized mechanisms. Here, we isolate and study two Planctomycetota strains from the microbiome associated with the alga Fucus spiralis, which grow efficiently on chemically diverse fucoidans. One of the strains appears to internalize the polymer, while the other strain degrades it extracellularly. Multi-omic approaches show that fucoidan breakdown is mediated by the expression of divergent polysaccharide utilization loci, and endo-fucanases of family GH168 are strongly upregulated during fucoidan digestion. Enzymatic assays and structural biology studies reveal how GH168 endo-fucanases degrade various fucoidan cores from brown algae, assisted by auxiliary hydrolytic enzymes. Overall, our results provide insights into fucoidan processing mechanisms in macroalgal-associated bacteria.