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Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.

Kenaf (Hibiscus cannabinus L) is widely grown for its fibre. The Gibberellin 20-oxidase (HcGA20ox) gene is responsible for the improvement in quality of kenaf fibre. The two transcripts designated as HcGA20ox1 (KY399834) and HcGA20ox1 (KY399835) were isolated from the shoot tissue of three-week-old...

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Main Authors: Ab Shukor, Nor Aini, Yu Lok, Yusuf Chong, Kumar, Sures M, Abiri, Rambod, Abdullah, Mohd Puad
Format: Article
Published: Pakistan Botanical Society 2022
Online Access:http://psasir.upm.edu.my/id/eprint/110530/
https://www.pakbs.org/pjbot/papers/1676459707.pdf
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spelling my.upm.eprints.1105302024-06-16T03:02:48Z http://psasir.upm.edu.my/id/eprint/110530/ Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l. Ab Shukor, Nor Aini Yu Lok, Yusuf Chong Kumar, Sures M Abiri, Rambod Abdullah, Mohd Puad Kenaf (Hibiscus cannabinus L) is widely grown for its fibre. The Gibberellin 20-oxidase (HcGA20ox) gene is responsible for the improvement in quality of kenaf fibre. The two transcripts designated as HcGA20ox1 (KY399834) and HcGA20ox1 (KY399835) were isolated from the shoot tissue of three-week-old seedlings using the Rapid Amplification of cDNA Ends PCR (RACE), and PCR walking approaches, which encoded the polypeptides of 430 and 345 amino acids, respectively. Therefore, HcGA20ox1b was presumed as a pseudogene and only HcGA20ox1 was focused in downstream works. A high level of similarity has been observed between amino acid sequence of HcGA20ox1 and the GA20ox of other species. In addition, substrate binding site “LPWKET” and two histidine residues which serve as Fe2+ binding domains were found in the sequence. The BLAST results showed that HcGA20ox1 shared high identity with the GA20ox from other species including Gossypium hirsutum, Citrus sinensis, Populus trichocarpa, Jatropha curcas, etc. The highest identity was attributed to the GA20ox of Gossypium hirsutum (accession no.: XP016668427) at 83 identity. Using the Conserved Domain Database (CDD) available in NCBI, the non-heme dioxygenase superfamily, 2OG-Fe (II) oxygenase superfamily and gibberellin 20-oxidase domains were detected in HcGA20ox1. The molecular weight of the protein was 122224.45 with 4.97 theoretical pI. Pakistan Botanical Society 2022 Article PeerReviewed Ab Shukor, Nor Aini and Yu Lok, Yusuf Chong and Kumar, Sures M and Abiri, Rambod and Abdullah, Mohd Puad (2022) Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l. Pakistan Journal of Botany, 55 (2). pp. 489-500. ISSN 0556-3321; ESSN: 2070-3368 https://www.pakbs.org/pjbot/papers/1676459707.pdf 10.30848/PJB2023-2(11)
institution Universiti Putra Malaysia
building UPM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Putra Malaysia
content_source UPM Institutional Repository
url_provider http://psasir.upm.edu.my/
description Kenaf (Hibiscus cannabinus L) is widely grown for its fibre. The Gibberellin 20-oxidase (HcGA20ox) gene is responsible for the improvement in quality of kenaf fibre. The two transcripts designated as HcGA20ox1 (KY399834) and HcGA20ox1 (KY399835) were isolated from the shoot tissue of three-week-old seedlings using the Rapid Amplification of cDNA Ends PCR (RACE), and PCR walking approaches, which encoded the polypeptides of 430 and 345 amino acids, respectively. Therefore, HcGA20ox1b was presumed as a pseudogene and only HcGA20ox1 was focused in downstream works. A high level of similarity has been observed between amino acid sequence of HcGA20ox1 and the GA20ox of other species. In addition, substrate binding site “LPWKET” and two histidine residues which serve as Fe2+ binding domains were found in the sequence. The BLAST results showed that HcGA20ox1 shared high identity with the GA20ox from other species including Gossypium hirsutum, Citrus sinensis, Populus trichocarpa, Jatropha curcas, etc. The highest identity was attributed to the GA20ox of Gossypium hirsutum (accession no.: XP016668427) at 83 identity. Using the Conserved Domain Database (CDD) available in NCBI, the non-heme dioxygenase superfamily, 2OG-Fe (II) oxygenase superfamily and gibberellin 20-oxidase domains were detected in HcGA20ox1. The molecular weight of the protein was 122224.45 with 4.97 theoretical pI.
format Article
author Ab Shukor, Nor Aini
Yu Lok, Yusuf Chong
Kumar, Sures M
Abiri, Rambod
Abdullah, Mohd Puad
spellingShingle Ab Shukor, Nor Aini
Yu Lok, Yusuf Chong
Kumar, Sures M
Abiri, Rambod
Abdullah, Mohd Puad
Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
author_facet Ab Shukor, Nor Aini
Yu Lok, Yusuf Chong
Kumar, Sures M
Abiri, Rambod
Abdullah, Mohd Puad
author_sort Ab Shukor, Nor Aini
title Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
title_short Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
title_full Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
title_fullStr Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
title_full_unstemmed Molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of Hibiscus cannabinus l.
title_sort molecular dissection and an in-silico approach of a novel gibberellin 20-oxidase gene of hibiscus cannabinus l.
publisher Pakistan Botanical Society
publishDate 2022
url http://psasir.upm.edu.my/id/eprint/110530/
https://www.pakbs.org/pjbot/papers/1676459707.pdf
_version_ 1802978800213950464
score 13.211869

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