Home Repository Download Help About Statistics Taxonomy Blastx
Links
PULDB
CAZy
dbCAN2
dbCAN-seq
run_dbcan
CAZypedia
PlantCAZyme
Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0020

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_013199.1

Nucelotide position range

2717307-2734087

Substrate

glycosaminoglycan

Loci

LC705_RS12690-LC705_RS12765

Species

Lactobacillus rhamnosus/47715

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- LC705_RS12690 WP_014571673.1 0 - 939 (-) NC_013199.1:2717307-2718246 -
- LC705_RS12695 WP_015764761.1 1058 - 2984 (-) NC_013199.1:2718365-2720291 -
- LC705_RS12700 WP_005690847.1 2922 - 3270 (-) NC_013199.1:2720229-2720577 -
- LC705_RS12705 WP_005717674.1 3269 - 3737 (-) NC_013199.1:2720576-2721044 2.7.1.69
- LC705_RS12710 WP_005714176.1 3822 - 4638 (-) NC_013199.1:2721129-2721945 -
- LC705_RS12715 WP_005690844.1 4627 - 5440 (-) NC_013199.1:2721934-2722747 -
- LC705_RS12720 WP_005690843.1 5468 - 5969 (-) NC_013199.1:2722775-2723276 -
- LC705_RS12725 WP_005690842.1 5981 - 7160 (-) NC_013199.1:2723288-2724467 -
- LC705_RS12730 WP_014571676.1 7156 - 7987 (-) NC_013199.1:2724463-2725294 -
- LC705_RS12735 WP_005690838.1 8210 - 8978 (+) NC_013199.1:2725517-2726285 -
kduI LC705_RS12740 WP_005690836.1 9209 - 10055 (+) NC_013199.1:2726516-2727362 5.3.1.17
kduD LC705_RS12745 WP_005690834.1 10088 - 10913 (+) NC_013199.1:2727395-2728220 1.1.1.127
eda LC705_RS12750 WP_005690832.1 11032 - 11686 (+) NC_013199.1:2728339-2728993 4.1.2.14, 4.1.3.16
- LC705_RS12755 WP_005690831.1 11690 - 12710 (+) NC_013199.1:2728997-2730017 -
rpiA LC705_RS12760 WP_014571678.1 12826 - 13516 (-) NC_013199.1:2730133-2730823 5.3.1.6
- LC705_RS12765 WP_014571679.1 13721 - 16781 (-) NC_013199.1:2731028-2734088 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 939 (-) CDS No
- 1059 - 2984 (-) CAZyme: PL12_1|PL12 Yes
- 2923 - 3270 (-) other Yes
- 3270 - 3737 (-) other Yes
- 3823 - 4638 (-) TC: gnl|TC-DB|Q8DR74|4.A.6.1.14 Yes
- 4628 - 5440 (-) TC: gnl|TC-DB|Q8DR75|4.A.6.1.14 Yes
- 5469 - 5969 (-) TC: gnl|TC-DB|Q8DR76|4.A.6.1.14 Yes
- 5982 - 7160 (-) CAZyme: GH88 Yes
- 7157 - 7987 (-) other Yes
- 8211 - 8978 (+) TF: DBD-Pfam|TrmB,DBD-SUPERFAMILY|0040266 Yes
kduI 9210 - 10055 (+) other Yes
kduD 10089 - 10913 (+) other Yes
eda 11033 - 11686 (+) other Yes
- 11691 - 12710 (+) STP: STP|PfkB Yes
rpiA 12827 - 13516 (-) other Yes
- 13722 - 16781 (-) CAZyme: PL8 Yes

PUL ID

PUL0020

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.