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Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22

In this study, a bacterial strain CP22 with ability to produce cellulase, xylanase and mannanase was isolated from the oil palm compost. Based on the 16S rRNA gene analysis, the strain was affiliated to genus Micromonospora. To further investigate genes that are related to cellulose and hemicellulos...

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Main Authors: Chen, S. J., Lam, M. Q., Thevarajoo, S., Abd. Manan, F., Yahya, A., Chong, C. S.
Format: Article
Language:English
Published: Springer 2020
Subjects:
Q Science (General)
Online Access:http://eprints.utm.my/id/eprint/86514/1/ChenSyeJinn2020_GenomeAnalysisofcelluloseandHemicellulose.pdf
http://eprints.utm.my/id/eprint/86514/
https://dx.doi.org/10.1007/s13205-020-2148-z
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spelling my.utm.865142020-09-30T08:41:18Z http://eprints.utm.my/id/eprint/86514/ Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22 Chen, S. J. Lam, M. Q. Thevarajoo, S. Abd. Manan, F. Yahya, A. Chong, C. S. Q Science (General) In this study, a bacterial strain CP22 with ability to produce cellulase, xylanase and mannanase was isolated from the oil palm compost. Based on the 16S rRNA gene analysis, the strain was affiliated to genus Micromonospora. To further investigate genes that are related to cellulose and hemicellulose degradation, the genome of strain CP22 was sequenced, annotated and analyzed. The de novo assembled genome of strain CP22 featured a size of 5,856,203 bp with G + C content of 70.84%. Detailed genome analysis on lignocellulose degradation revealed a total of 60 genes consisting of 47 glycoside hydrolase domains and 16 carbohydrate esterase domains predicted to be involved in cellulolytic and hemicellulolytic deconstruction. Particularly, 20 genes encode for cellulases (8 endoglucanases, 3 exoglucanases and 9 β-glucosidases) and 40 genes encode for hemicellulases (15 endo-1,4-β-xylanase, 3 β-xylosidase, 3 α-arabinofuranosidase, 10 acetyl xylan esterase, 6 polysaccharide deacetylase, 1 β-mannanase, 1 β-mannosidase and 1 α-galactosidase). Thirty-two genes encoding carbohydrate-binding modules (CBM) from six different families (CBM2, CBM4, CBM6, CBM9, CBM13 and CBM22) were present in the genome of strain CP22. These CBMs were found in 27 cellulolytic and hemicellulolytic genes, indicating their potential role in enhancing the substrate-binding capability of the enzymes. CBM2 and CBM13 are the major CBMs present in cellulases and hemicellulases (xylanases and mannanases), respectively. Moreover, a GH10 xylanase was found to contain 3 CBMs (1 CBM9 and 2 CBM22) and these CBMs were reported to bind specifically to xylan. This genome-based analysis could facilitate the exploration of this strain for lignocellulosic biomass degradation. Springer 2020-04 Article PeerReviewed application/pdf en http://eprints.utm.my/id/eprint/86514/1/ChenSyeJinn2020_GenomeAnalysisofcelluloseandHemicellulose.pdf Chen, S. J. and Lam, M. Q. and Thevarajoo, S. and Abd. Manan, F. and Yahya, A. and Chong, C. S. (2020) Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22. 3 Biotech, 10 (4). ISSN 2190-572X https://dx.doi.org/10.1007/s13205-020-2148-z DOI:10.1007/s13205-020-2148-z
institution Universiti Teknologi Malaysia
building UTM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Teknologi Malaysia
content_source UTM Institutional Repository
url_provider http://eprints.utm.my/
language English
topic Q Science (General)
spellingShingle Q Science (General)
Chen, S. J.
Lam, M. Q.
Thevarajoo, S.
Abd. Manan, F.
Yahya, A.
Chong, C. S.
Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
description In this study, a bacterial strain CP22 with ability to produce cellulase, xylanase and mannanase was isolated from the oil palm compost. Based on the 16S rRNA gene analysis, the strain was affiliated to genus Micromonospora. To further investigate genes that are related to cellulose and hemicellulose degradation, the genome of strain CP22 was sequenced, annotated and analyzed. The de novo assembled genome of strain CP22 featured a size of 5,856,203 bp with G + C content of 70.84%. Detailed genome analysis on lignocellulose degradation revealed a total of 60 genes consisting of 47 glycoside hydrolase domains and 16 carbohydrate esterase domains predicted to be involved in cellulolytic and hemicellulolytic deconstruction. Particularly, 20 genes encode for cellulases (8 endoglucanases, 3 exoglucanases and 9 β-glucosidases) and 40 genes encode for hemicellulases (15 endo-1,4-β-xylanase, 3 β-xylosidase, 3 α-arabinofuranosidase, 10 acetyl xylan esterase, 6 polysaccharide deacetylase, 1 β-mannanase, 1 β-mannosidase and 1 α-galactosidase). Thirty-two genes encoding carbohydrate-binding modules (CBM) from six different families (CBM2, CBM4, CBM6, CBM9, CBM13 and CBM22) were present in the genome of strain CP22. These CBMs were found in 27 cellulolytic and hemicellulolytic genes, indicating their potential role in enhancing the substrate-binding capability of the enzymes. CBM2 and CBM13 are the major CBMs present in cellulases and hemicellulases (xylanases and mannanases), respectively. Moreover, a GH10 xylanase was found to contain 3 CBMs (1 CBM9 and 2 CBM22) and these CBMs were reported to bind specifically to xylan. This genome-based analysis could facilitate the exploration of this strain for lignocellulosic biomass degradation.
format Article
author Chen, S. J.
Lam, M. Q.
Thevarajoo, S.
Abd. Manan, F.
Yahya, A.
Chong, C. S.
author_facet Chen, S. J.
Lam, M. Q.
Thevarajoo, S.
Abd. Manan, F.
Yahya, A.
Chong, C. S.
author_sort Chen, S. J.
title Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
title_short Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
title_full Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
title_fullStr Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
title_full_unstemmed Genome analysis of cellulose and hemicellulose degrading micromonospora sp. Cp22
title_sort genome analysis of cellulose and hemicellulose degrading micromonospora sp. cp22
publisher Springer
publishDate 2020
url http://eprints.utm.my/id/eprint/86514/1/ChenSyeJinn2020_GenomeAnalysisofcelluloseandHemicellulose.pdf
http://eprints.utm.my/id/eprint/86514/
https://dx.doi.org/10.1007/s13205-020-2148-z
_version_ 1680321057582481408
score 13.211869

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