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In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba

This study reported the isolation and in silico characterization of full-length cellulose synthase (CesA) cDNA from Neolamarckia cadamba, an important tropical plantation tree species. CesA is a member of processive glycosyltransferases that involved in cellulose biosynthesis of plants. CesA acts as...

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Main Authors: Tiong Shing Y, Yiing, Ho Wei, Seng, Pang Shek, Ling, Ismail, Jusoh
Format: Article
Language:English
Published: Science Publications 2015
Subjects:
Q Science (General)
SD Forestry
Online Access:http://ir.unimas.my/id/eprint/7297/1/Pang%20Shek.pdf
http://ir.unimas.my/id/eprint/7297/
http://thescipub.com/abstract/10.3844/ajbsp.2014.30.44
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spelling my.unimas.ir.72972021-06-22T16:03:26Z http://ir.unimas.my/id/eprint/7297/ In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba Tiong Shing Y, Yiing Ho Wei, Seng Pang Shek, Ling Ismail, Jusoh Q Science (General) SD Forestry This study reported the isolation and in silico characterization of full-length cellulose synthase (CesA) cDNA from Neolamarckia cadamba, an important tropical plantation tree species. CesA is a member of processive glycosyltransferases that involved in cellulose biosynthesis of plants. CesA acts as a central catalyst in the generation of plant cell wall biomass or cellulose. It also plays an important role in regulating wood formation. The hypothetical full-length CesA cDNA (NcCesA1; JX134621) was assembled by contig mapping approach using the CesA cDNA sequences from NcdbEST and the amplified 5�-and 3�-RACE PCR sequences. The NcCesA1 cDNA has a length of 3,472 bp with 3,126 bp open reading frame encoding a 1,042 amino acid sequence. The predicted NcCesA1 protein contained N-terminal cysteine rich zinc binding domain, 7 putative Transmembrane Helices (TMH), 4 U-motifs that contain a signature D, D, D, QxxRW motif, an alternating Conserved Region (CR-P) and 2 Hypervariable Regions (HVR). These entire shared domain structures suggest the functional role of NcCesA1 is involved in glycosyltransferation of the secondary cell wall cellulose biosynthesis of N. cadamba. Sequence comparison also revealed the high similarity (90%) among NcCesA1 and PtrCesA2 of Populus tremuloides. This further implies the involvement of NcCesA1 that catalyzes the cellulose biosynthesis of secondary cell wall rather than primary cell wall. This full-length NcCesA1 cDNA can serve as good candidate gene in association genetics study which leads to Gene-Assisted Selection (GAS) in the N. cadamba tree breeding programme. Furthermore, the isolation of new CesA genes from tropical tree genomes is essential for enhancing knowledge of cellulose biosynthesis in trees that has many fundamental and commercial implications. Science Publications 2015 Article PeerReviewed text en http://ir.unimas.my/id/eprint/7297/1/Pang%20Shek.pdf Tiong Shing Y, Yiing and Ho Wei, Seng and Pang Shek, Ling and Ismail, Jusoh (2015) In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba. American Journal of Bioinformatics, 3 (2). pp. 30-44. ISSN 1948-9870 http://thescipub.com/abstract/10.3844/ajbsp.2014.30.44 doi: 10.3844/ajbsp.2014.30.44
institution Universiti Malaysia Sarawak
building Centre for Academic Information Services (CAIS)
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaysia Sarawak
content_source UNIMAS Institutional Repository
url_provider http://ir.unimas.my/
language English
topic Q Science (General)
SD Forestry
spellingShingle Q Science (General)
SD Forestry
Tiong Shing Y, Yiing
Ho Wei, Seng
Pang Shek, Ling
Ismail, Jusoh
In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
description This study reported the isolation and in silico characterization of full-length cellulose synthase (CesA) cDNA from Neolamarckia cadamba, an important tropical plantation tree species. CesA is a member of processive glycosyltransferases that involved in cellulose biosynthesis of plants. CesA acts as a central catalyst in the generation of plant cell wall biomass or cellulose. It also plays an important role in regulating wood formation. The hypothetical full-length CesA cDNA (NcCesA1; JX134621) was assembled by contig mapping approach using the CesA cDNA sequences from NcdbEST and the amplified 5�-and 3�-RACE PCR sequences. The NcCesA1 cDNA has a length of 3,472 bp with 3,126 bp open reading frame encoding a 1,042 amino acid sequence. The predicted NcCesA1 protein contained N-terminal cysteine rich zinc binding domain, 7 putative Transmembrane Helices (TMH), 4 U-motifs that contain a signature D, D, D, QxxRW motif, an alternating Conserved Region (CR-P) and 2 Hypervariable Regions (HVR). These entire shared domain structures suggest the functional role of NcCesA1 is involved in glycosyltransferation of the secondary cell wall cellulose biosynthesis of N. cadamba. Sequence comparison also revealed the high similarity (90%) among NcCesA1 and PtrCesA2 of Populus tremuloides. This further implies the involvement of NcCesA1 that catalyzes the cellulose biosynthesis of secondary cell wall rather than primary cell wall. This full-length NcCesA1 cDNA can serve as good candidate gene in association genetics study which leads to Gene-Assisted Selection (GAS) in the N. cadamba tree breeding programme. Furthermore, the isolation of new CesA genes from tropical tree genomes is essential for enhancing knowledge of cellulose biosynthesis in trees that has many fundamental and commercial implications.
format Article
author Tiong Shing Y, Yiing
Ho Wei, Seng
Pang Shek, Ling
Ismail, Jusoh
author_facet Tiong Shing Y, Yiing
Ho Wei, Seng
Pang Shek, Ling
Ismail, Jusoh
author_sort Tiong Shing Y, Yiing
title In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
title_short In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
title_full In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
title_fullStr In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
title_full_unstemmed In Silico Analysis of Cellulose Synthase Gene (NcCesA1) in Developing Xylem Tissues of Neolamarckia Cadamba
title_sort in silico analysis of cellulose synthase gene (nccesa1) in developing xylem tissues of neolamarckia cadamba
publisher Science Publications
publishDate 2015
url http://ir.unimas.my/id/eprint/7297/1/Pang%20Shek.pdf
http://ir.unimas.my/id/eprint/7297/
http://thescipub.com/abstract/10.3844/ajbsp.2014.30.44
_version_ 1703964046711062528
score 13.211869

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