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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0021

PubMed

30006634, Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w.

Characterization method

rapid plate method growth assay,adhesion assay

Genomic accession number

NC_008526.1

Nucelotide position range

2647312-2663903

Substrate

glycosaminoglycan

Loci

LSEI_2661-LSEI_2676

Species

Lactobacillus casei/1582

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- LSEI_RS12770 WP_003596390.1 0 - 984 (-) NC_008526.1:2647312-2648296 -
- LSEI_RS12775 WP_011674964.1 1053 - 2979 (-) NC_008526.1:2648365-2650291 -
- LSEI_RS12780 WP_011674965.1 2917 - 3265 (-) NC_008526.1:2650229-2650577 -
- LSEI_RS12785 WP_003596394.1 3264 - 3735 (-) NC_008526.1:2650576-2651047 2.7.1.69
- LSEI_RS12790 WP_003567930.1 3854 - 4670 (-) NC_008526.1:2651166-2651982 -
- LSEI_RS12795 WP_003577476.1 4659 - 5472 (-) NC_008526.1:2651971-2652784 -
- LSEI_RS12800 WP_003658805.1 5624 - 6125 (-) NC_008526.1:2652936-2653437 -
- LSEI_RS12805 WP_003596395.1 6224 - 7403 (-) NC_008526.1:2653536-2654715 3.2.1.-
- LSEI_RS12810 WP_011674966.1 7399 - 8230 (-) NC_008526.1:2654711-2655542 -
- LSEI_RS12815 WP_003567939.1 8444 - 9212 (+) NC_008526.1:2655756-2656524 -
kduI LSEI_RS12820 WP_032784565.1 9485 - 10319 (+) NC_008526.1:2656797-2657631 5.3.1.17
kduD LSEI_RS12825 WP_011674968.1 10353 - 11178 (+) NC_008526.1:2657665-2658490 1.1.1.127
eda LSEI_RS12830 WP_005687550.1 11288 - 11927 (+) NC_008526.1:2658600-2659239 -
- LSEI_RS12835 WP_003596400.1 11945 - 12965 (+) NC_008526.1:2659257-2660277 -
- LSEI_RS12840 WP_003596401.1 13067 - 13712 (-) NC_008526.1:2660379-2661024 -
rpiA LSEI_RS12845 WP_003567951.1 13780 - 14470 (-) NC_008526.1:2661092-2661782 5.3.1.6
- LSEI_RS12850 WP_011674970.1 14627 - 16592 (-) NC_008526.1:2661939-2663904 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 984 (-) CDS No
- 1054 - 2979 (-) CAZyme: PL12|PL12_1 Yes
- 2918 - 3265 (-) other Yes
- 3265 - 3735 (-) other Yes
- 3855 - 4670 (-) TC: gnl|TC-DB|Q8DR74|4.A.6.1.14 Yes
- 4660 - 5472 (-) TC: gnl|TC-DB|Q8DR75|4.A.6.1.14 Yes
- 5625 - 6125 (-) TC: gnl|TC-DB|Q8DR76|4.A.6.1.14 Yes
- 6225 - 7403 (-) CAZyme: GH88 Yes
- 7400 - 8230 (-) CDS No
- 8445 - 9212 (+) TF: DBD-SUPERFAMILY|0040266 No
kduI 9486 - 10319 (+) CDS No
kduD 10354 - 11178 (+) STP: STP|CHASE2 No
- 11946 - 12965 (+) STP: STP|PfkB No
- 13068 - 13712 (-) CDS No
rpiA 13781 - 14470 (-) STP: STP|DeoRC No
- 14628 - 16592 (-) CDS No

PUL ID

PUL0021

PubMed

30006634, Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w.

Title

Probiotics in human gut microbiota can degrade host glycosaminoglycans.

Author

Kawai K, Kamochi R, Oiki S, Murata K, Hashimoto W

Abstract

Glycosaminoglycans (GAGs) (e.g. heparin, chondroitin sulfate, and hyaluronan) show various significant physiological functions as a major component of extracellular matrix in animals. Some bacteria target GAGs for adhesion and/or infection to host cells, although no probiotics have been known to degrade GAGs. Here, we show GAG degradation by probiotics from human gut microbiota and their adhesion to human intestinal cells through a GAG. GAG-degrading bacteria were isolated from human faeces and identified as Enterococcus faecium, and some typical probiotics such as Lactobacillus casei, Lactobacillus rhamnosus and Enterococcus faecalis were also found to degrade heparin. GAG-degrading lactobacilli and enterococci including the isolated E. faecium possessed a genetic cluster encoding GAG-degrading/metabolising enzymes in the bacterial genome. KduI and KduD enzymes encoded in the GAG cluster of L. rhamnosus functioned as 4-deoxy-l-threo-5-hexosulose-uronate ketol-isomerase and 2-keto-3-deoxy-d-gluconate dehydrogenase, respectively, both of which were crucial for GAG metabolism. GAG-degrading L. rhamnosus and E. faecium attached to human intestinal Caco-2 cells via heparin. Some species of Bacteroides, considered to be the next generation probiotics, degraded chondroitin sulfate C and hyaluronan, and genes coding for the Bacteroides GAG-degrading enzyme were frequently detected from human gut microbiota. This is the first report on GAG-degrading probiotics in human gut microbiota.