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PlantCAZyme
Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0424

PubMed

22205877, PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.

Characterization method

microarray

Genomic accession number

AAXF02000052.1

Nucelotide position range

427830-453092

Substrate

host glycan

Loci

BACOVA_04094-BACOVA_04111

Species

Bacteroides ovatus/28116

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BACOVA_04094 EDO10645.1 0 - 162 (-) AAXF02000052.1:427830-427992 -
- BACOVA_04095 EDO10646.1 149 - 950 (-) AAXF02000052.1:427979-428780 -
- BACOVA_04096 EDO10647.1 973 - 2173 (-) AAXF02000052.1:428803-430003 -
- BACOVA_04097 EDO10648.1 2181 - 3321 (-) AAXF02000052.1:430011-431151 -
- BACOVA_04098 EDO10649.1 3348 - 4899 (-) AAXF02000052.1:431178-432729 -
- BACOVA_04099 EDO10650.1 4916 - 8219 (-) AAXF02000052.1:432746-436049 -
- BACOVA_04100 EDO10651.1 8597 - 9833 (+) AAXF02000052.1:436427-437663 -
- BACOVA_04101 EDO10652.1 9950 - 10142 (+) AAXF02000052.1:437780-437972 -
- BACOVA_04102 EDO10653.1 10220 - 10373 (+) AAXF02000052.1:438050-438203 -
- BACOVA_04103 EDO10654.1 10459 - 13288 (+) AAXF02000052.1:438289-441118 -
- BACOVA_04104 EDO10655.1 13306 - 14884 (+) AAXF02000052.1:441136-442714 -
- BACOVA_04105 EDO10656.1 14916 - 15981 (+) AAXF02000052.1:442746-443811 -
- BACOVA_04106 EDO10657.1 16003 - 17215 (+) AAXF02000052.1:443833-445045 -
- BACOVA_04107 EDO10658.1 17238 - 18204 (+) AAXF02000052.1:445068-446034 -
- BACOVA_04108 EDO10659.1 18407 - 20570 (+) AAXF02000052.1:446237-448400 -
- BACOVA_04109 EDO10660.1 20668 - 21997 (+) AAXF02000052.1:448498-449827 -
- BACOVA_04110 EDO10661.1 21974 - 22982 (+) AAXF02000052.1:449804-450812 -
- BACOVA_04111 EDO10662.1 22989 - 25263 (+) AAXF02000052.1:450819-453093 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 162 (-) CDS No
- 150 - 950 (-) CDS No
- 974 - 2173 (-) CDS No
- 2182 - 3321 (-) CDS No
- 3349 - 4899 (-) TC: gnl|TC-DB|Q8A8X0|8.A.46.2.1 Yes
- 4917 - 8219 (-) TC: gnl|TC-DB|Q8A8X1|1.B.14.6.13 Yes
- 8598 - 9833 (+) other Yes
- 9951 - 10142 (+) other Yes
- 10221 - 10373 (+) other Yes
- 10460 - 13288 (+) TC: gnl|TC-DB|Q8A8X1|1.B.14.6.13 Yes
- 13307 - 14884 (+) TC: gnl|TC-DB|Q8A0N7|8.A.46.2.2 Yes
- 14917 - 15981 (+) CAZyme: GH18 Yes
- 16004 - 17215 (+) other Yes
- 17239 - 18204 (+) other Yes
- 18408 - 20570 (+) CAZyme: GH163 Yes
- 20669 - 21997 (+) other Yes
- 21975 - 22982 (+) CAZyme: GH130 Yes
- 22990 - 25263 (+) CAZyme: GH92 Yes

PUL ID

PUL0424

PubMed

22205877, PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.

Title

Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts.

Author

Martens EC, Lowe EC, Chiang H, Pudlo NA, Wu M, McNulty NP, Abbott DW, Henrissat B, Gilbert HJ, Bolam DN, Gordon JI

Abstract

Symbiotic bacteria inhabiting the human gut have evolved under intense pressure to utilize complex carbohydrates, primarily plant cell wall glycans in our diets. These polysaccharides are not digested by human enzymes, but are processed to absorbable short chain fatty acids by gut bacteria. The Bacteroidetes, one of two dominant bacterial phyla in the adult gut, possess broad glycan-degrading abilities. These species use a series of membrane protein complexes, termed Sus-like systems, for catabolism of many complex carbohydrates. However, the role of these systems in degrading the chemically diverse repertoire of plant cell wall glycans remains unknown. Here we show that two closely related human gut Bacteroides, B. thetaiotaomicron and B. ovatus, are capable of utilizing nearly all of the major plant and host glycans, including rhamnogalacturonan II, a highly complex polymer thought to be recalcitrant to microbial degradation. Transcriptional profiling and gene inactivation experiments revealed the identity and specificity of the polysaccharide utilization loci (PULs) that encode individual Sus-like systems that target various plant polysaccharides. Comparative genomic analysis indicated that B. ovatus possesses several unique PULs that enable degradation of hemicellulosic polysaccharides, a phenotype absent from B. thetaiotaomicron. In contrast, the B. thetaiotaomicron genome has been shaped by increased numbers of PULs involved in metabolism of host mucin O-glycans, a phenotype that is undetectable in B. ovatus. Binding studies of the purified sensor domains of PUL-associated hybrid two-component systems in conjunction with transcriptional analyses demonstrate that complex oligosaccharides provide the regulatory cues that induce PUL activation and that each PUL is highly specific for a defined cell wall polymer. These results provide a view of how these species have diverged into different carbohydrate niches by evolving genes that target unique suites of available polysaccharides, a theme that likely applies to disparate bacteria from the gut and other habitats.