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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0785

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

NZ_CAWLDM010000001.1

Nucelotide position range

7257044-7296969

Substrate

fucoidan

Loci

None

Species

Neorhodopirellula lusitana/445327

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- ACI5KW_RS26510 WP_404310524.1 0 - 1815 (-) NZ_CAWLDM010000001.1:7257044-7258859 -
- ACI5KW_RS26515 WP_404310525.1 1991 - 3788 (-) NZ_CAWLDM010000001.1:7259035-7260832 3.1.6.-
- ACI5KW_RS26520 WP_404310526.1 4222 - 5773 (-) NZ_CAWLDM010000001.1:7261266-7262817 3.1.6.-
- ACI5KW_RS26525 WP_404310527.1 6670 - 7639 (+) NZ_CAWLDM010000001.1:7263714-7264683 -
- ACI5KW_RS26530 WP_404310528.1 7935 - 11763 (-) NZ_CAWLDM010000001.1:7264979-7268807 -
- ACI5KW_RS26535 WP_404310529.1 12048 - 13536 (-) NZ_CAWLDM010000001.1:7269092-7270580 3.1.6.-
tnpC ACI5KW_RS26540 WP_404305570.1 13585 - 14980 (-) NZ_CAWLDM010000001.1:7270629-7272024 -
- ACI5KW_RS26545 WP_404310530.1 15235 - 16462 (-) NZ_CAWLDM010000001.1:7272279-7273506 3.-.-.-
- ACI5KW_RS26550 WP_404310531.1 16843 - 18370 (-) NZ_CAWLDM010000001.1:7273887-7275414 -
- ACI5KW_RS26555 WP_404310532.1 18652 - 20494 (-) NZ_CAWLDM010000001.1:7275696-7277538 3.1.6.-
- ACI5KW_RS26560 WP_283432134.1 20688 - 21333 (-) NZ_CAWLDM010000001.1:7277732-7278377 3.1.-.-
- ACI5KW_RS26565 WP_404310533.1 21700 - 23086 (-) NZ_CAWLDM010000001.1:7278744-7280130 -
- ACI5KW_RS26570 WP_404310534.1 23070 - 24255 (-) NZ_CAWLDM010000001.1:7280114-7281299 -
- ACI5KW_RS26575 WP_404310535.1 24325 - 26569 (-) NZ_CAWLDM010000001.1:7281369-7283613 -
- ACI5KW_RS26580 WP_404310536.1 26637 - 26859 (-) NZ_CAWLDM010000001.1:7283681-7283903 -
- ACI5KW_RS26585 WP_404310537.1 26917 - 28000 (+) NZ_CAWLDM010000001.1:7283961-7285044 -
- ACI5KW_RS26590 WP_404310538.1 27986 - 29336 (+) NZ_CAWLDM010000001.1:7285030-7286380 2.3.-.-
- ACI5KW_RS26595 WP_404310539.1 29574 - 32664 (+) NZ_CAWLDM010000001.1:7286618-7289708 3.-.-.-
- ACI5KW_RS26600 WP_404310540.1 32660 - 35495 (+) NZ_CAWLDM010000001.1:7289704-7292539 3.1.11.5, 3.6.4.-
- ACI5KW_RS26605 WP_283432143.1 35655 - 36279 (+) NZ_CAWLDM010000001.1:7292699-7293323 1.15.1.1
- ACI5KW_RS26610 WP_404310541.1 36732 - 37980 (+) NZ_CAWLDM010000001.1:7293776-7295024 -
- ACI5KW_RS26615 WP_404310542.1 38054 - 39926 (-) NZ_CAWLDM010000001.1:7295098-7296970 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1815 (-) CDS No
- 1992 - 3788 (-) CDS No
- 4223 - 5773 (-) CDS No
- 6671 - 7639 (+) CAZyme: GH117 Yes
- 7936 - 11763 (-) CAZyme: CE20|GH95 Yes
- 12049 - 13536 (-) other Yes
- 13586 - 14980 (-) other Yes
- 15236 - 16462 (-) CAZyme: CE7 Yes
- 16844 - 18370 (-) CAZyme: CE20 Yes
- 18653 - 20494 (-) other Yes
- 20689 - 21333 (-) other Yes
- 21701 - 23086 (-) other Yes
- 23071 - 24255 (-) CAZyme: GH168 Yes
- 24326 - 26569 (-) other Yes
- 26638 - 26859 (-) other Yes
- 26918 - 28000 (+) other Yes
- 27987 - 29336 (+) TC: gnl|TC-DB|A6DP23|9.B.97.5.2 Yes
- 29575 - 32664 (+) CDS No
- 32661 - 35495 (+) CDS No
- 35656 - 36279 (+) CDS No
- 36733 - 37980 (+) CDS No
- 38055 - 39926 (-) CDS No

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PUL ID

PUL0785

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.