Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers

Rice (<i>Oryza sativa</i> L.) is the primary food for half of the global population. Recently, there has been increasing concern in the rice industry regarding the eating and milling quality of rice. This study was conducted to identify genetic information for grain characteristics using...

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Autores principales:	Yheni Dwiningsih, Anuj Kumar, Julie Thomas, Charles Ruiz, Jawaher Alkahtani, Abdulrahman Al-hashimi, Andy Pereira
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	rice chalkiness SNP QTL gene Genetics QH426-470
Acceso en línea:	https://doaj.org/article/8c66a44c6e3c4f5d826b8867009c22ad
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spelling	oai:doaj.org-article:8c66a44c6e3c4f5d826b8867009c22ad2021-11-25T17:40:51ZIdentification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers10.3390/genes121116902073-4425https://doaj.org/article/8c66a44c6e3c4f5d826b8867009c22ad2021-10-01T00:00:00Zhttps://www.mdpi.com/2073-4425/12/11/1690https://doaj.org/toc/2073-4425Rice (<i>Oryza sativa</i> L.) is the primary food for half of the global population. Recently, there has been increasing concern in the rice industry regarding the eating and milling quality of rice. This study was conducted to identify genetic information for grain characteristics using a recombinant inbred line (RIL) population from a japonica/indica cross based on high-throughput SNP markers and to provide a strategy for improving rice quality. The RIL population used was derived from a cross of “Kaybonnet (KBNT <i>lpa</i>)” and “ZHE733” named the K/Z RIL population, consisting of 198 lines. A total of 4133 SNP markers were used to identify quantitative trait loci (QTLs) with higher resolution and to identify more accurate candidate genes. The characteristics measured included grain length (GL), grain width (GW), grain length to width ratio (RGLW), hundred grain weight (HGW), and percent chalkiness (PC). QTL analysis was performed using QTL IciMapping software. Continuous distributions and transgressive segregations of all the traits were observed, suggesting that the traits were quantitatively inherited. A total of twenty-eight QTLs and ninety-two candidate genes related to rice grain characteristics were identified. This genetic information is important to develop rice varieties of high quality.Yheni DwiningsihAnuj KumarJulie ThomasCharles RuizJawaher AlkahtaniAbdulrahman Al-hashimiAndy PereiraMDPI AGarticlericechalkinessSNPQTLgeneGeneticsQH426-470ENGenes, Vol 12, Iss 1690, p 1690 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	rice chalkiness SNP QTL gene Genetics QH426-470
spellingShingle	rice chalkiness SNP QTL gene Genetics QH426-470 Yheni Dwiningsih Anuj Kumar Julie Thomas Charles Ruiz Jawaher Alkahtani Abdulrahman Al-hashimi Andy Pereira Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
description	Rice (<i>Oryza sativa</i> L.) is the primary food for half of the global population. Recently, there has been increasing concern in the rice industry regarding the eating and milling quality of rice. This study was conducted to identify genetic information for grain characteristics using a recombinant inbred line (RIL) population from a japonica/indica cross based on high-throughput SNP markers and to provide a strategy for improving rice quality. The RIL population used was derived from a cross of “Kaybonnet (KBNT <i>lpa</i>)” and “ZHE733” named the K/Z RIL population, consisting of 198 lines. A total of 4133 SNP markers were used to identify quantitative trait loci (QTLs) with higher resolution and to identify more accurate candidate genes. The characteristics measured included grain length (GL), grain width (GW), grain length to width ratio (RGLW), hundred grain weight (HGW), and percent chalkiness (PC). QTL analysis was performed using QTL IciMapping software. Continuous distributions and transgressive segregations of all the traits were observed, suggesting that the traits were quantitatively inherited. A total of twenty-eight QTLs and ninety-two candidate genes related to rice grain characteristics were identified. This genetic information is important to develop rice varieties of high quality.
format	article
author	Yheni Dwiningsih Anuj Kumar Julie Thomas Charles Ruiz Jawaher Alkahtani Abdulrahman Al-hashimi Andy Pereira
author_facet	Yheni Dwiningsih Anuj Kumar Julie Thomas Charles Ruiz Jawaher Alkahtani Abdulrahman Al-hashimi Andy Pereira
author_sort	Yheni Dwiningsih
title	Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
title_short	Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
title_full	Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
title_fullStr	Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
title_full_unstemmed	Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers
title_sort	identification of genomic regions controlling chalkiness and grain characteristics in a recombinant inbred line rice population based on high-throughput snp markers
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/8c66a44c6e3c4f5d826b8867009c22ad
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Identification of Genomic Regions Controlling Chalkiness and Grain Characteristics in a Recombinant Inbred Line Rice Population Based on High-Throughput SNP Markers

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