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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0592

PubMed

25063665, Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25.

Characterization method

qRT-PCR

Genomic accession number

CP001656.1

Nucelotide position range

1572581-1584525

Substrate

methylglucuronoarabinoxylan

Loci

PJDR2_1318-1325

Species

Paenibacillus sp. JDR-2/324057

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- Pjdr2_1318 ACS99993.1 0 - 1569 (+) CP001656.1:1572581-1574150 -
- Pjdr2_1319 ACS99994.1 1584 - 3303 (+) CP001656.1:1574165-1575884 -
- Pjdr2_1320 ACS99995.1 3436 - 5149 (+) CP001656.1:1576017-1577730 -
- Pjdr2_1321 ACS99996.1 5238 - 6210 (+) CP001656.1:1577819-1578791 -
- Pjdr2_1322 ACS99997.1 6249 - 7170 (+) CP001656.1:1578830-1579751 -
- Pjdr2_1323 ACS99998.1 7266 - 9330 (+) CP001656.1:1579847-1581911 3.2.1.139
- Pjdr2_1324 ACS99999.1 9357 - 10383 (+) CP001656.1:1581938-1582964 3.2.1.8
- Pjdr2_1325 ACT00001.1 10379 - 11945 (+) CP001656.1:1582960-1584526 3.2.1.37

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1569 (+) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 No
- 1585 - 3303 (+) TC: gnl|TC-DB|F4LXP4|8.A.59.2.1 Yes
- 3437 - 5149 (+) TC: gnl|TC-DB|A9QDR6|3.A.1.1.29 Yes
- 5239 - 6210 (+) TC: gnl|TC-DB|A9QDR7|3.A.1.1.29 Yes
- 6250 - 7170 (+) TC: gnl|TC-DB|A9QDR8|3.A.1.1.29 Yes
- 7267 - 9330 (+) CAZyme: GH67 Yes
- 9358 - 10383 (+) CAZyme: GH10 Yes
- 10380 - 11945 (+) CAZyme: GH43_12 Yes

PUL ID

PUL0592

PubMed

25063665, Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25.

Title

GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2.

Author

Sawhney N, Preston JF

Abstract

Methylglucuronoarabinoxylan (MeGAXn) from agricultural residues and energy crops is a significant yet underutilized biomass resource for production of biofuels and chemicals. Mild thermochemical pretreatment of bagasse yields MeGAXn requiring saccharifying enzymes for conversion to fermentable sugars. A xylanolytic bacterium, Paenibacillus sp. strain JDR-2, produces an extracellular cell-associated GH10 endoxylanse (XynA1) which efficiently depolymerizes methylglucuronoxylan (MeGXn) from hardwoods coupled with assimilation of oligosaccharides for further processing by intracellular GH67 alpha-glucuronidase, GH10 endoxylanase, and GH43 beta-xylosidase. This process has been ascribed to genes that comprise a xylan utilization regulon that encodes XynA1 and includes a gene cluster encoding transcriptional regulators, ABC transporters, and intracellular enzymes that convert assimilated oligosaccharides to fermentable sugars. Here we show that Paenibacillus sp. JDR-2 utilized MeGAXn without accumulation of oligosaccharides in the medium. The Paenibacillus sp. JDR-2 growth rate on MeGAXn was 3.1-fold greater than that on oligosaccharides generated from MeGAXn by XynA1. Candidate genes encoding GH51 arabinofuranosidases with potential roles were identified. Following growth on MeGAXn, quantitative reverse transcription-PCR identified a cluster of genes encoding a GH51 arabinofuranosidase (AbfB) and transcriptional regulators which were coordinately expressed along with the genes comprising the xylan utilization regulon. The action of XynA1 on MeGAXn generated arabinoxylobiose, arabinoxylotriose, xylobiose, xylotriose, and methylglucuronoxylotriose. Recombinant AbfB processed arabinoxylooligosaccharides to xylooligosaccharides and arabinose. MeGAXn processing by Paenibacillus sp. JDR-2 may be achieved by extracellular depolymerization by XynA1 coupled to assimilation of oligosaccharides and further processing by intracellular enzymes, including AbfB. Paenibacillus sp. JDR-2 provides a GH10/GH67 system complemented with genes encoding intracellular GH51 arabinofuranosidases for efficient utilization of MeGAXn.