PUL ID

PUL0414

PubMed

30116044, ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16.

Characterization method

enzyme activity assay, thin layer chromatography

Genomic accession number

JN903693.1

Nucelotide position range

25-31062

Substrate

xylan

Loci

AFK83720.1-AFK83745.1

Species

uncultured bacterium 35A20/1194347

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- - AFK83720.1 25 - 355 (+) JN903693.1:50-380 -
- - AFK83721.1 423 - 1080 (-) JN903693.1:448-1105 -
- - AFK83722.1 1046 - 1361 (-) JN903693.1:1071-1386 -
- - AFK83723.1 1457 - 2057 (+) JN903693.1:1482-2082 -
- - AFK83724.1 2082 - 2871 (+) JN903693.1:2107-2896 -
- - AFK83725.1 2874 - 3963 (+) JN903693.1:2899-3988 -
- - AFK83726.1 3969 - 5175 (-) JN903693.1:3994-5200 -
- - AFK83727.1 5485 - 7804 (+) JN903693.1:5510-7829 -
- - AFK83746.1 7843 - 8842 (+) JN903693.1:7868-8867 -
- - AFK83728.1 8841 - 10059 (+) JN903693.1:8866-10084 -
- - AFK83729.1 10114 - 12442 (+) JN903693.1:10139-12467 -
- - AFK83730.1 12516 - 13656 (+) JN903693.1:12541-13681 -
- - AFK83731.1 13742 - 14285 (+) JN903693.1:13767-14310 -
- - AFK83732.1 14356 - 14947 (+) JN903693.1:14381-14972 -
- - AFK83733.1 15012 - 16578 (-) JN903693.1:15037-16603 -
- - AFK83734.1 16633 - 17557 (-) JN903693.1:16658-17582 -
- - AFK83735.1 17564 - 18509 (-) JN903693.1:17589-18534 -
- - AFK83736.1 18595 - 19927 (+) JN903693.1:18620-19952 -
- - AFK83737.1 19927 - 21358 (-) JN903693.1:19952-21383 -
- - AFK83738.1 21372 - 22515 (-) JN903693.1:21397-22540 -
- - AFK83739.1 22511 - 24023 (-) JN903693.1:22536-24048 -
- - AFK83740.1 24165 - 24633 (-) JN903693.1:24190-24658 -
- - AFK83747.1 24510 - 24843 (+) JN903693.1:24535-24868 -
- - AFK83741.1 24851 - 26114 (-) JN903693.1:24876-26139 -
- - AFK83742.1 26313 - 28230 (+) JN903693.1:26338-28255 -
- - AFK83743.1 28103 - 28763 (+) JN903693.1:28128-28788 -
- - AFK83744.1 28769 - 30467 (+) JN903693.1:28794-30492 -
- - AFK83745.1 30450 - 31062 (-) JN903693.1:30475-31087 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 26 - 355 (+) CDS No
- 424 - 1080 (-) CDS No
- 1047 - 1361 (-) CDS No
- 1458 - 2057 (+) CDS No
- 2083 - 2871 (+) CDS No
- 2875 - 3963 (+) CDS No
- 3970 - 5175 (-) CAZyme: GH10 Yes
- 5486 - 7804 (+) TC: gnl|TC-DB|P21458|3.A.12.1.1 Yes
- 7844 - 8842 (+) STP: STP|ATPase_2 Yes
- 8842 - 10059 (+) other Yes
- 10115 - 12442 (+) other Yes
- 12517 - 13656 (+) other Yes
- 13743 - 14285 (+) other Yes
- 14357 - 14947 (+) other Yes
- 15013 - 16578 (-) STP: STP|SBP_bac_1 Yes
- 16634 - 17557 (-) TC: gnl|TC-DB|Q09LY6|3.A.1.1.9 Yes
- 17565 - 18509 (-) TC: gnl|TC-DB|Q9KWT8|3.A.1.1.10 Yes
- 18596 - 19927 (+) TC: gnl|TC-DB|Q9UEF7|8.A.49.1.1 Yes
- 19928 - 21358 (-) CAZyme: GH10 Yes
- 21373 - 22515 (-) CDS No
- 22512 - 24023 (-) CDS No
- 24166 - 24633 (-) CDS No
- 24511 - 24843 (+) CDS No
- 24852 - 26114 (-) CDS No
- 26314 - 28230 (+) CDS No
- 28104 - 28763 (+) CDS No
- 28770 - 30467 (+) CDS No
- 30451 - 31062 (-) STP: STP|Fer4 No

PUL ID

PUL0414

PubMed

30116044, ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16.

Title

Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite.

Author

Liu N, Li H, Chevrette MG, Zhang L, Cao L, Zhou H, Zhou X, Zhou Z, Pope PB, Currie CR, Huang Y, Wang Q

Abstract

Plant cell-wall polysaccharides constitute the most abundant but recalcitrant organic carbon source in nature. Microbes residing in the digestive tract of herbivorous bilaterians are particularly efficient at depolymerizing polysaccharides into fermentable sugars and play a significant support role towards their host's lifestyle. Here, we combine large-scale functional screening of fosmid libraries, shotgun sequencing, and biochemical assays to interrogate the gut microbiota of the wood-feeding "higher" termite Globitermes brachycerastes. A number of putative polysaccharide utilization gene clusters were identified with multiple fibrolytic genes. Our large-scale functional screening of 50,000 fosmid clones resulted in 464 clones demonstrating plant polysaccharide-degrading activities, including 267 endoglucanase-, 24 exoglucanase-, 72 beta-glucosidase-, and 101 endoxylanase-positive clones. We sequenced 173 functionally active clones and identified ~219 genes encoding putative carbohydrate-active enzymes (CAZymes) targeting cellulose, hemicellulose and pectin. Further analyses revealed that 68 of 154 contigs encode one or more CAZyme, which includes 35 examples of putative saccharolytic operons, suggesting that clustering of CAZymes is common in termite gut microbial inhabitants. Biochemical characterization of a representative xylanase cluster demonstrated that constituent enzymes exhibited complementary physicochemical properties and saccharolytic capabilities. Furthermore, diverse cellobiose-metabolizing enzymes include beta-glucosidases, cellobiose phosphorylases, and phopho-6-beta-glucosidases were identified and functionally verified, indicating that the termite gut micro-ecosystem utilizes diverse metabolic pathways to interconnect hydrolysis and central metabolism. Collectively, these results provide an in-depth view of the adaptation and digestive strategies employed by gut microbiota within this tiny-yet-efficient host-associated ecosystem.