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Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)

The diverse colours of mature pepper (Capsicum spp.) fruit result from the accumulation of different carotenoids. The carotenoid biosynthetic pathway has been well elucidated in Solanaceous plants, and analysis of candidate genes involved in this process has revealed variations in carotenoid biosynt...

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Autores principales: Jeong, Hyo‐Bong, Kang, Min‐Young, Jung, Ayoung, Han, Koeun, Lee, Joung‐Ho, Jo, Jinkwan, Lee, Hea‐Young, An, Jong‐Wook, Kim, Suna, Kang, Byoung‐Cheorl
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6523600/
https://www.ncbi.nlm.nih.gov/pubmed/30467964
http://dx.doi.org/10.1111/pbi.13039
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author Jeong, Hyo‐Bong
Kang, Min‐Young
Jung, Ayoung
Han, Koeun
Lee, Joung‐Ho
Jo, Jinkwan
Lee, Hea‐Young
An, Jong‐Wook
Kim, Suna
Kang, Byoung‐Cheorl
author_facet Jeong, Hyo‐Bong
Kang, Min‐Young
Jung, Ayoung
Han, Koeun
Lee, Joung‐Ho
Jo, Jinkwan
Lee, Hea‐Young
An, Jong‐Wook
Kim, Suna
Kang, Byoung‐Cheorl
author_sort Jeong, Hyo‐Bong
collection PubMed
description The diverse colours of mature pepper (Capsicum spp.) fruit result from the accumulation of different carotenoids. The carotenoid biosynthetic pathway has been well elucidated in Solanaceous plants, and analysis of candidate genes involved in this process has revealed variations in carotenoid biosynthetic genes in Capsicum spp. However, the allelic variations revealed by previous studies could not fully explain the variation in fruit colour in Capsicum spp. due to technical difficulties in detecting allelic variation in multiple candidate genes in numerous samples. In this study, we uncovered allelic variations in six carotenoid biosynthetic genes, including phytoene synthase (PSY1,PSY2), lycopene β‐cyclase, β‐carotene hydroxylase, zeaxanthin epoxidase and capsanthin‐capsorubin synthase (CCS) genes, in 94 pepper accessions by single‐molecule real‐time (SMRT) sequencing. To investigate the relationship between allelic variations in the candidate genes and differences in fruit colour, we performed ultra‐performance liquid chromatography analysis using 43 accessions representing each allelic variation. Different combinations of dysfunctional mutations in PSY1 and CCS could explain variation in the compositions and levels of carotenoids in the accessions examined in this study. Our results demonstrate that SMRT sequencing technology can be used to rapidly identify allelic variation in target genes in various germplasms. The newly identified allelic variants will be useful for pepper breeding and for further analysis of carotenoid biosynthesis pathways.
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spelling pubmed-65236002019-05-24 Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.) Jeong, Hyo‐Bong Kang, Min‐Young Jung, Ayoung Han, Koeun Lee, Joung‐Ho Jo, Jinkwan Lee, Hea‐Young An, Jong‐Wook Kim, Suna Kang, Byoung‐Cheorl Plant Biotechnol J Research Articles The diverse colours of mature pepper (Capsicum spp.) fruit result from the accumulation of different carotenoids. The carotenoid biosynthetic pathway has been well elucidated in Solanaceous plants, and analysis of candidate genes involved in this process has revealed variations in carotenoid biosynthetic genes in Capsicum spp. However, the allelic variations revealed by previous studies could not fully explain the variation in fruit colour in Capsicum spp. due to technical difficulties in detecting allelic variation in multiple candidate genes in numerous samples. In this study, we uncovered allelic variations in six carotenoid biosynthetic genes, including phytoene synthase (PSY1,PSY2), lycopene β‐cyclase, β‐carotene hydroxylase, zeaxanthin epoxidase and capsanthin‐capsorubin synthase (CCS) genes, in 94 pepper accessions by single‐molecule real‐time (SMRT) sequencing. To investigate the relationship between allelic variations in the candidate genes and differences in fruit colour, we performed ultra‐performance liquid chromatography analysis using 43 accessions representing each allelic variation. Different combinations of dysfunctional mutations in PSY1 and CCS could explain variation in the compositions and levels of carotenoids in the accessions examined in this study. Our results demonstrate that SMRT sequencing technology can be used to rapidly identify allelic variation in target genes in various germplasms. The newly identified allelic variants will be useful for pepper breeding and for further analysis of carotenoid biosynthesis pathways. John Wiley and Sons Inc. 2018-12-09 2019-06 /pmc/articles/PMC6523600/ /pubmed/30467964 http://dx.doi.org/10.1111/pbi.13039 Text en © 2018 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Jeong, Hyo‐Bong
Kang, Min‐Young
Jung, Ayoung
Han, Koeun
Lee, Joung‐Ho
Jo, Jinkwan
Lee, Hea‐Young
An, Jong‐Wook
Kim, Suna
Kang, Byoung‐Cheorl
Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title_full Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title_fullStr Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title_full_unstemmed Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title_short Single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.)
title_sort single‐molecule real‐time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (capsicum spp.)
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6523600/
https://www.ncbi.nlm.nih.gov/pubmed/30467964
http://dx.doi.org/10.1111/pbi.13039
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