Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs

In temperate areas, rice deals with low temperatures that can affect plant growth and crop yield. Rapid germination is required for adequate plant establishment in the field, therefore obtaining cultivars that maintain this phenotype under suboptimal temperature conditions is a challenge for rice br...

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Autores principales:	Ester Sales, Eva Miedes, Luis Marqués
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	cold tolerance gene expression GWAS Marker-assisted breeding qPCR Agriculture S
Acceso en línea:	https://doaj.org/article/79decf4be10c493bafbede3494d78722
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spelling	oai:doaj.org-article:79decf4be10c493bafbede3494d787222021-11-25T16:03:31ZBreeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs10.3390/agronomy111121252073-4395https://doaj.org/article/79decf4be10c493bafbede3494d787222021-10-01T00:00:00Zhttps://www.mdpi.com/2073-4395/11/11/2125https://doaj.org/toc/2073-4395In temperate areas, rice deals with low temperatures that can affect plant growth and crop yield. Rapid germination is required for adequate plant establishment in the field, therefore obtaining cultivars that maintain this phenotype under suboptimal temperature conditions is a challenge for rice breeders. Our study aimed to investigate temperature-induced expression changes in genes underlying quantitative trait loci (QTLs) associated to this trait (low temperature germinability, LTG) that were detected in a previous genome wide association study (GWAS). In the context of a breeding program for <i>japonica</i> rice cultivars adapted to cultivation in Spain, we obtained two biparental families of lines derived from hybridization with two cold tolerant Italian cultivars, and we have studied the effect on the LTG phenotype of introgressing these QTLs. A wide region in chromosome 3 was related to significant increases in seedling growth rate at 15 °C, although the extent of the effect depended on the analyzed family. In parallel, we studied the pattern of expression during germination at different temperatures of 10 genes located in the LTG-associated QTLs, in five <i>japonica</i> rice cultivars and in a biparental family of recombinant inbred lines (RILs). Cold induced changes in the expression of the 10 analyzed genes, with significant differences among genotypes. Variation in LTG phenotype was consistently associated with changes in the pattern of expression of five genes from the tagged regions in rice chromosome 3, which encoded for enzymes implicated in phytohormone metabolism (OsFBK12, Os3Bglu6), oxidative stress (SPL35, OsSRO1c) and Mn homeostasis maintenance (OsMTP8.1). Differential expression induced by cold in two regulatory genes (Os02g0824000 and Os06g06400) also contributed to explain low temperature tolerance during rice germination. In conclusion, introgression in defective cultivars of favorable alleles for these genes would contribute to the genetic improvement of LTG in <i>japonica</i> rice varieties.Ester SalesEva MiedesLuis MarquésMDPI AGarticlecold tolerancegene expressionGWASMarker-assisted breedingqPCRAgricultureSENAgronomy, Vol 11, Iss 2125, p 2125 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	cold tolerance gene expression GWAS Marker-assisted breeding qPCR Agriculture S
spellingShingle	cold tolerance gene expression GWAS Marker-assisted breeding qPCR Agriculture S Ester Sales Eva Miedes Luis Marqués Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
description	In temperate areas, rice deals with low temperatures that can affect plant growth and crop yield. Rapid germination is required for adequate plant establishment in the field, therefore obtaining cultivars that maintain this phenotype under suboptimal temperature conditions is a challenge for rice breeders. Our study aimed to investigate temperature-induced expression changes in genes underlying quantitative trait loci (QTLs) associated to this trait (low temperature germinability, LTG) that were detected in a previous genome wide association study (GWAS). In the context of a breeding program for <i>japonica</i> rice cultivars adapted to cultivation in Spain, we obtained two biparental families of lines derived from hybridization with two cold tolerant Italian cultivars, and we have studied the effect on the LTG phenotype of introgressing these QTLs. A wide region in chromosome 3 was related to significant increases in seedling growth rate at 15 °C, although the extent of the effect depended on the analyzed family. In parallel, we studied the pattern of expression during germination at different temperatures of 10 genes located in the LTG-associated QTLs, in five <i>japonica</i> rice cultivars and in a biparental family of recombinant inbred lines (RILs). Cold induced changes in the expression of the 10 analyzed genes, with significant differences among genotypes. Variation in LTG phenotype was consistently associated with changes in the pattern of expression of five genes from the tagged regions in rice chromosome 3, which encoded for enzymes implicated in phytohormone metabolism (OsFBK12, Os3Bglu6), oxidative stress (SPL35, OsSRO1c) and Mn homeostasis maintenance (OsMTP8.1). Differential expression induced by cold in two regulatory genes (Os02g0824000 and Os06g06400) also contributed to explain low temperature tolerance during rice germination. In conclusion, introgression in defective cultivars of favorable alleles for these genes would contribute to the genetic improvement of LTG in <i>japonica</i> rice varieties.
format	article
author	Ester Sales Eva Miedes Luis Marqués
author_facet	Ester Sales Eva Miedes Luis Marqués
author_sort	Ester Sales
title	Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
title_short	Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
title_full	Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
title_fullStr	Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
title_full_unstemmed	Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs
title_sort	breeding for low temperature germinability in temperate <i>japonica</i> rice varieties: analysis of candidate genes in associated qtls
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/79decf4be10c493bafbede3494d78722
work_keys_str_mv	AT estersales breedingforlowtemperaturegerminabilityintemperateijaponicairicevarietiesanalysisofcandidategenesinassociatedqtls AT evamiedes breedingforlowtemperaturegerminabilityintemperateijaponicairicevarietiesanalysisofcandidategenesinassociatedqtls AT luismarques breedingforlowtemperaturegerminabilityintemperateijaponicairicevarietiesanalysisofcandidategenesinassociatedqtls
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Breeding for Low Temperature Germinability in Temperate <i>Japonica</i> Rice Varieties: Analysis of Candidate Genes in Associated QTLs

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