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Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties

In this study, we analyzed the Rc and Rd genes that are responsible for the coloration of rice pericarps from six upland rice varieties. We also examined the association of pericarp coloration to the single nucleotide polymorphism in 9-cis-epoxycarotenoid dioxygenase 2 (NCED2), a key gene involved i...

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Main Authors: Hamzah, Muazr Amer, Mohd Kasim, Nur Aini, Shamsuddin, Athirah, Mustafa, Nadia, Mohamad Rusli, Norliana Izzati, Teh, Chui Yao, Ho, Chai Ling
Format: Article
Language:English
Published: Springer 2020
Online Access:http://psasir.upm.edu.my/id/eprint/86928/1/Nucleotide%20variations.pdf
http://psasir.upm.edu.my/id/eprint/86928/
https://link.springer.com/article/10.1007/s13205-020-2092-y
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spelling my.upm.eprints.869282022-01-03T04:37:07Z http://psasir.upm.edu.my/id/eprint/86928/ Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties Hamzah, Muazr Amer Mohd Kasim, Nur Aini Shamsuddin, Athirah Mustafa, Nadia Mohamad Rusli, Norliana Izzati Teh, Chui Yao Ho, Chai Ling In this study, we analyzed the Rc and Rd genes that are responsible for the coloration of rice pericarps from six upland rice varieties. We also examined the association of pericarp coloration to the single nucleotide polymorphism in 9-cis-epoxycarotenoid dioxygenase 2 (NCED2), a key gene involved in abscisic acid (ABA) biosynthesis. Our findings demonstrated that all the upland rice varieties analyzed have a Rd gene which encodes a complete dihydroflavonol-4-reductase without early translational termination codon irrespective of their pericarp colors. However, the upland rice varieties with white pericarps were found to have a defective Rc gene with a 14-base deletion at exon 7 which could disrupt the function of a positive regulator of proanthocyanidin biosynthesis. In addition, the NCED2 genes from the upland rice varieties with white pericarps in this study have a C-allele while the NCED2 genes from Pandasan Red, Tomou and Taragang varieties that bear red pericarps were found to have a T-allele which was reported to be associated with a higher ABA level in upland rice. A better understanding of the gene sequences of upland rice varieties with red pericarp may provide important information for rice breeding programs. Springer 2020-02-07 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/86928/1/Nucleotide%20variations.pdf Hamzah, Muazr Amer and Mohd Kasim, Nur Aini and Shamsuddin, Athirah and Mustafa, Nadia and Mohamad Rusli, Norliana Izzati and Teh, Chui Yao and Ho, Chai Ling (2020) Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties. 3 Biotech, 10. art. no. 105. pp. 1-7. ISSN 2190-5738; ESSN: 2190-572X https://link.springer.com/article/10.1007/s13205-020-2092-y 10.1007/s13205-020-2092-y
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/
language English
description In this study, we analyzed the Rc and Rd genes that are responsible for the coloration of rice pericarps from six upland rice varieties. We also examined the association of pericarp coloration to the single nucleotide polymorphism in 9-cis-epoxycarotenoid dioxygenase 2 (NCED2), a key gene involved in abscisic acid (ABA) biosynthesis. Our findings demonstrated that all the upland rice varieties analyzed have a Rd gene which encodes a complete dihydroflavonol-4-reductase without early translational termination codon irrespective of their pericarp colors. However, the upland rice varieties with white pericarps were found to have a defective Rc gene with a 14-base deletion at exon 7 which could disrupt the function of a positive regulator of proanthocyanidin biosynthesis. In addition, the NCED2 genes from the upland rice varieties with white pericarps in this study have a C-allele while the NCED2 genes from Pandasan Red, Tomou and Taragang varieties that bear red pericarps were found to have a T-allele which was reported to be associated with a higher ABA level in upland rice. A better understanding of the gene sequences of upland rice varieties with red pericarp may provide important information for rice breeding programs.
format Article
author Hamzah, Muazr Amer
Mohd Kasim, Nur Aini
Shamsuddin, Athirah
Mustafa, Nadia
Mohamad Rusli, Norliana Izzati
Teh, Chui Yao
Ho, Chai Ling
spellingShingle Hamzah, Muazr Amer
Mohd Kasim, Nur Aini
Shamsuddin, Athirah
Mustafa, Nadia
Mohamad Rusli, Norliana Izzati
Teh, Chui Yao
Ho, Chai Ling
Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
author_facet Hamzah, Muazr Amer
Mohd Kasim, Nur Aini
Shamsuddin, Athirah
Mustafa, Nadia
Mohamad Rusli, Norliana Izzati
Teh, Chui Yao
Ho, Chai Ling
author_sort Hamzah, Muazr Amer
title Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
title_short Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
title_full Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
title_fullStr Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
title_full_unstemmed Nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (NCED2) and pericarp coloration genes (Rc and Rd) from upland rice varieties
title_sort nucleotide variations of 9‑cis‑epoxycarotenoid dioxygenase 2 (nced2) and pericarp coloration genes (rc and rd) from upland rice varieties
publisher Springer
publishDate 2020
url http://psasir.upm.edu.my/id/eprint/86928/1/Nucleotide%20variations.pdf
http://psasir.upm.edu.my/id/eprint/86928/
https://link.springer.com/article/10.1007/s13205-020-2092-y
_version_ 1724075479972970496
score 13.211869

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