Cargando…

Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries

More than half-century ago, local rice varieties were collected from Indochinese countries (Cambodia, Thailand, Laos, and Vietnam). Of these, 162 local varieties were examined for 7 grain-size traits: seed length/width/thickness, brown rice length/width/thickness, and 100-seed weight. Since these tr...

Descripción completa

Detalles Bibliográficos
Autores principales: Lim, Sathya, Onoda, Anna, Orn, Chhourn, Iwamoto, Hiromu, Ishikawa, Ryo, Saito, Hiroki, Sato, Yutaka, Ishii, Takashige
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9824235/
https://www.ncbi.nlm.nih.gov/pubmed/36616262
http://dx.doi.org/10.3390/plants12010133
_version_ 1784866359939694592
author Lim, Sathya
Onoda, Anna
Orn, Chhourn
Iwamoto, Hiromu
Ishikawa, Ryo
Saito, Hiroki
Sato, Yutaka
Ishii, Takashige
author_facet Lim, Sathya
Onoda, Anna
Orn, Chhourn
Iwamoto, Hiromu
Ishikawa, Ryo
Saito, Hiroki
Sato, Yutaka
Ishii, Takashige
author_sort Lim, Sathya
collection PubMed
description More than half-century ago, local rice varieties were collected from Indochinese countries (Cambodia, Thailand, Laos, and Vietnam). Of these, 162 local varieties were examined for 7 grain-size traits: seed length/width/thickness, brown rice length/width/thickness, and 100-seed weight. Since these traits varied considerably, a survey of functional mutations was performed in the genes related to these traits. In total, 19 markers (12 InDel and 7 dCAPS markers) were used to investigate the mutations at 14 grain-size loci of GW2, GS2, qLGY3, GS3, GL3.1, TGW3, GS5, GW5, GS6, TGW6, GW6a, GLW7, GL7, and GW8. Significant allele effects were observed with six markers detecting base substitution mutations at GW2 and GS3 and insertion/deletion mutations at GS5, GW5, and GW6a, suggesting that these mutations might have affected the grain trait and caused variation among local varieties in the Indochinese countries. In addition to grain size, the hull color, grain color, and glutinosity were also examined using a survey of loss-of-function mutations at major responsible loci. Most phenotypes were reflected based on functional mutations at these loci. Since the local varieties have wide genetic variation, they are important genetic resources for future rice breeding.
format Online
Article
Text
id pubmed-9824235
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-98242352023-01-08 Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries Lim, Sathya Onoda, Anna Orn, Chhourn Iwamoto, Hiromu Ishikawa, Ryo Saito, Hiroki Sato, Yutaka Ishii, Takashige Plants (Basel) Article More than half-century ago, local rice varieties were collected from Indochinese countries (Cambodia, Thailand, Laos, and Vietnam). Of these, 162 local varieties were examined for 7 grain-size traits: seed length/width/thickness, brown rice length/width/thickness, and 100-seed weight. Since these traits varied considerably, a survey of functional mutations was performed in the genes related to these traits. In total, 19 markers (12 InDel and 7 dCAPS markers) were used to investigate the mutations at 14 grain-size loci of GW2, GS2, qLGY3, GS3, GL3.1, TGW3, GS5, GW5, GS6, TGW6, GW6a, GLW7, GL7, and GW8. Significant allele effects were observed with six markers detecting base substitution mutations at GW2 and GS3 and insertion/deletion mutations at GS5, GW5, and GW6a, suggesting that these mutations might have affected the grain trait and caused variation among local varieties in the Indochinese countries. In addition to grain size, the hull color, grain color, and glutinosity were also examined using a survey of loss-of-function mutations at major responsible loci. Most phenotypes were reflected based on functional mutations at these loci. Since the local varieties have wide genetic variation, they are important genetic resources for future rice breeding. MDPI 2022-12-27 /pmc/articles/PMC9824235/ /pubmed/36616262 http://dx.doi.org/10.3390/plants12010133 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Lim, Sathya
Onoda, Anna
Orn, Chhourn
Iwamoto, Hiromu
Ishikawa, Ryo
Saito, Hiroki
Sato, Yutaka
Ishii, Takashige
Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title_full Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title_fullStr Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title_full_unstemmed Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title_short Variations in Grain Traits among Local Rice Varieties Collected More Than Half-Century Ago in Indochinese Countries
title_sort variations in grain traits among local rice varieties collected more than half-century ago in indochinese countries
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9824235/
https://www.ncbi.nlm.nih.gov/pubmed/36616262
http://dx.doi.org/10.3390/plants12010133
work_keys_str_mv AT limsathya variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT onodaanna variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT ornchhourn variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT iwamotohiromu variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT ishikawaryo variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT saitohiroki variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT satoyutaka variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries
AT ishiitakashige variationsingraintraitsamonglocalricevarietiescollectedmorethanhalfcenturyagoinindochinesecountries