Genome Sequence of Paenibacillus terrae HPL-003, a Xylanase-Producing Bacterium Isolated from Soil Found in Forest Residue

Macrogen Inc., Gasan-dong, Seoul, Republic of Korea.
Journal of bacteriology (Impact Factor: 2.81). 03/2012; 194(5):1266. DOI: 10.1128/JB.06668-11
Source: PubMed

ABSTRACT

This article reports on the full genome sequence of Paenibacillus terrae HPL-003, which is a gram-positive, endospore-forming, xylanase-producing bacterium isolated from soil found in forest residue on Gara Mountain. The strain HPL-003 contains 6,083,395 bp with a G+C content of 46.77 mol%, 2,633 protein-coding genes, and 117 structural RNAs.

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    • "Whole genome sequence of P. terrae HPL-003 used in this study as a source of the xylanase gene was sequenced during our previous study [15]. By sequence similarity search with referred to as xylanase, we detected seven putative xylanaseencoding genes (xy1–xy7) within the P. terrae HPL-003 genome. "
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    ABSTRACT: A new bi-modular, wide pH spectrum and highly active xylanase KRICT PX3 (JF320814) isolated from Paenibacillus terrae HPL-003 (KCTC11987BP) has been cloned and expressed in Escherichia coli. Purified recombinant xylanase KRICT PX-3 (1,620bp, 540aa, NCBI accession number JF320814) showed highly active at 55°C in pH 4.0-11.0, and stability for at least 24h at 50°C, and exhibited Km and Vmax of 0.2mg/mL and 153.8U/mg on birchwood xylan. Most common ions did not affect the enzyme activity at 1mM concentration. This enzyme could belong to glycoside hydrolase family 10 because hydrolyzed glucuronoxylan and arabinoxylan substrate to xylobiose, xylotriose, and some traces of xylose as hydrolysis products. Model 3-D structure was composed of two domains, the catalytic domain of a (β/α)8 barrel fold while the small domain probably functions as a xylan binding domain, and the two domains are connected by a flexible linker peptide (PPLAIEKDIPSL). However, sequence alignment between xylan-binding module in this xylanase KRICT PX3 and CBM22 showed 21% of identity and 35% of similarity. This xylanase structure showed a distinctive group of enzyme cluster separately from the rest of GH10 xylanases, and seems to constitute a new type of xylanases.
    Full-text · Article · Jan 2014
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    • "Whole genome sequence of P. terrae HPL-003 used in this study as a source of the xylanase gene was sequenced during our previous study [15]. By sequence similarity search with referred to as xylanase, we detected seven putative xylanaseencoding genes (xy1–xy7) within the P. terrae HPL-003 genome. "
    [Show abstract] [Hide abstract]
    ABSTRACT: A new bi-modular, wide pH spectrum and highly active xylanase KRICT PX3 (JF320814) isolated from Paenibacillus terrae HPL-003 (KCTC11987BP) has been cloned and expressed in Escherichia coli. Purified recombinant xylanase KRICT PX-3 (1,620 bp, 540aa, NCBI accession number JF320814) showed highly active at 55 °C in pH 4.0–11.0, and stability for at least 24 h at 50 °C, and exhibited Km and Vmax of 0.2 mg/mL and 153.8 U/mg on birchwood xylan. Most common ions did not affect the enzyme activity at 1 mM concentration. This enzyme could belong to glycoside hydrolase family 10 because hydrolyzed glucuronoxylan and arabinoxylan substrate to xylobiose, xylotriose, and some traces of xylose as hydrolysis products. Model 3-D structure was composed of two domains, the catalytic domain of a (β/α)8 barrel fold while the small domain probably functions as a xylan binding domain, and the two domains are connected by a flexible linker peptide (PPLAIEKDIPSL). However, sequence alignment between xylan-binding module in this xylanase KRICT PX3 and CBM22 showed 21% of identity and 35% of similarity. This xylanase structure showed a distinctive group of enzyme cluster separately from the rest of GH10 xylanases, and seems to constitute a new type of xylanases.
    Full-text · Article · Jan 2014 · Enzyme and Microbial Technology
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    ABSTRACT: Paenibacillus sp. strain A9 is an important bioflocculant-producing bacterium, isolated from a soil sample, and is pale pink-pigmented, aerobic, and Gram-positive. Here, we report the draft genome sequence and the initial findings from a preliminary analysis of strain A9, which is a novel species of Paenibacillus.
    Full-text · Article · Feb 2013 · Genome Announcements
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