Cold tolerance in rice germinating seeds revealed by deep RNAseq analysis of contrasting indica genotypes

Dametto, Andressa; Sperotto, Raul Antônio; Adamski, Janete Mariza; Blasi, Édina A.R.; Cargnelutti, Denise; Oliveira, Luiz Felipe Valter de; Ricachenevsky, Felipe Klein; Fregonezi, Jéferson Nunes; Mariath, Jorge Ernesto de Araújo; Cruz, Renato Souza; Margis, Rogério; Fett, Janette Palma

doi:10.1016/j.plantsci.2015.05.009

Cited by 57 publications

(37 citation statements)

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“…We evaluated the expression of 20 genes previously described as related to cold responses in rice, two of which showed differential regulation in leaves from the tolerant genotype: cold induction of OsLIP9 expression and constitutive high OsWCOR413 expression. Our group is also using next generation sequencing to compare the transcriptome of both genotypes under cold stress during germination (Dametto et al 2015) and vegetative stages. In future studies, the indica genotypes identified as tolerant and sensitive to cold in this work may help to identify new cold tolerance mechanisms in rice plants, possibly including pathways not known from the previous studies in japonica rice.…”

Section: Discussionmentioning

confidence: 99%

“…The final percentage of germination 26 days after imbibition at 13°C was not significantly different between the two genotypes (ranging from 80 to 87%). However, progression of coleoptile growth was slower in the cold-sensitive genotype (Dametto et al 2015), resulting in 80 and 15.8% of the seeds with coleoptile length ≥ to 5 mm, respectively in the tolerant and sensitive genotypes (26 days at 13°C - Table 1). Both genotypes reached above 93% germination after one week of imbibition at 28°C, with 100% of seeds with coleoptile length ≥ to 5 mm.…”

Section: Rice Genotypes Sensitive and Tolerant To Low Temperaturementioning

confidence: 99%

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Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

et al. 2016

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Exposure to low temperature during germination and vegetative growth is a limiting factor to the establishment and development of rice seedlings. Higher cold tolerance of japonica than indica subspecies is well documented. However, reports of cold tolerance in indica genotypes are rare. We screened a large number of indica rice genotypes for cold tolerance during germination and initial vegetative growth. The indica genotypes IRGA 959-1-2-2F-4-1-4-A and IRGA 959-1-2-2F-4-1-4-D-1-CA-1, derived from the same cross, were characterized, respectively, as tolerant and sensitive to low temperature. Indexes of photosynthetic performance during light absorption were heavily affected by cold in both genotypes, but recovered after cold exposure only in the tolerant genotype. Activities of the antioxidant enzymes SOD and CAT (at the vegetative stage) and CAT and APX (at the germination stage) were higher in the tolerant than in the sensitive genotype. Expression of 20 genes previously related to cold response in rice was evaluated. Expression of OsLIP9 and OsWCOR413 were higher in the tolerant genotype upon or prior to cold exposure, respectively. The two sister lines show different molecular and physiological responses to low temperature stress. Further in-depth studies with these lines may help to identify new cold tolerance mechanisms in rice.Key words: abiotic stress, antioxidant enzymes, cold, gene expression, indica rice, JIP-test.Résumé : L'exposition à basse température pendant la germination et la croissance végétative est un facteur limitant à l'établissement et le développement des plantules de riz. La tolérance supérieure au froid observée en japonica par rapport à sous-espèces indica c'est bien documentée. Cependant, les rapports de la tolérance adéquate au froid dans les génotypes de indica sont encore rares. Cette étude a examiné plusieurs génotypes de indica en relation à leurs tolérances au froid pendant la germination et la croissance végétative initiale. Corresponding author: Janette P. Fett (email: jpfett@cbiot.ufrgs.br).*These authors contributed equally to this work.Abbreviations: ABS/RC, energy flux absorption per reaction center; APX, ascorbate peroxidase; CAT, catalase; DI 0 /RC, energy dissipation per reaction center; ET0/ABS, quantum yield of electron transport from QA − to the intersystem electron acceptors; ET0/CS, flow of electron transport per CS at t = 0; ET 0 /RC, electron transport flux per reaction center; ET 0 /TR 0 , probability that a trapped exciton moves an electron into the electron transport chain beyond QA − , at t = 0; H2O2, hydrogen peroxide; PIABS, performance index (potential) for energy conservation from photons absorbed by PSII to the reduction of intersystem electron acceptors; PIABS,total, performance index (potential) for energy conservation from photons absorbed by PSII to the reduction of PSI end acceptors; ROS, reactive oxygen species; SOD, superoxide dismutase; TBARS, thiobarbituric acid reactant substances; TR0/CS, flow of energy captured by CS at t = 0; TR0...

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Section: Discussionmentioning

confidence: 99%

Section: Rice Genotypes Sensitive and Tolerant To Low Temperaturementioning

confidence: 99%

Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

et al. 2016

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“…Thus, temperate japonica cultivars are more tolerant to low temperatures than indica , and introgression of cold tolerance traits from temperate into tropical genotypes is desirable (Cruz et al , 2013; Dametto et al , 2015). However, little is known about the molecular basis for low temperature tolerance in O. sativa , and even less about the variation of cold tolerance among its wild relatives.…”

Section: Coldmentioning

confidence: 99%

“…Low temperature can affect growth and development of rice plants during any developmental stage, from germination to grain filling. During germination, the most common symptoms of cold temperature damage are low percentage and delayed germination (Cruz et al , 2013; Dametto et al , 2015), resulting in yield decreases up to 25% of the final yield and in increased weed competition (Fujino et al , 2004). During the vegetative stage, it can severely affect seedling establishment, leading to yellowing of the leaves, growth retardation, and decreased tillering (Cruz et al , 2013).…”

Section: Introductionmentioning

confidence: 99%

A walk on the wild side: Oryza species as source for rice abiotic stress tolerance

2017

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Oryza sativa, the common cultivated rice, is one of the most important crops for human consumption, but production is increasingly threatened by abiotic stresses. Although many efforts have resulted in breeding rice cultivars that are relatively tolerant to their local environments, climate changes and population increase are expected to soon call for new, fast generation of stress tolerant rice germplasm, and current within-species rice diversity might not be enough to overcome such needs. The Oryza genus contains other 23 wild species, with only Oryza glaberrima being also domesticated. Rice domestication was performed with a narrow genetic diversity, and the other Oryza species are a virtually untapped genetic resource for rice stress tolerance improvement. Here we review the origin of domesticated Oryza sativa from wild progenitors, the ecological and genomic diversity of the Oryza genus, and the stress tolerance variation observed for wild Oryza species, including the genetic basis underlying the tolerance mechanisms found. The summary provided here is important to indicate how we should move forward to unlock the full potential of these germplasms for rice improvement.

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“…Low temperatures affect the growth and development of plants at any phenological stage, from germination to grain filling. During germination, the most common symptoms are low rates and delayed seedling emergence, which may compromise crop grain yield by 25% [32] [34]. During the vegetative stages, it is possible to occur yellowing of leaves, reduction of tillering and delay of plant growth.…”

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<i>Oryza</i> Wild Species: An Alternative for Rice Breeding under Abiotic Stress Conditions

Szareski¹,

Carvalho²,

Rosa³

et al. 2018

AJPS

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Rice (Oryza sativa L.) presents a strategic role in social and economic levels. The aim of this study was to elucidate the presence of genetic variability for the genus Oryza, and the possibility of using genotypes with wild characteristics in rice breeding programs. The Oryza genus shows great genetic variability through wild genotypes available in the most varied environments around the world. The negative effects imposed by abiotic stresses such as flood, salinity, low temperatures, water deficiency and high temperatures may be minimized by the efficient identification of a genetic variability source from the Oryza genus. Among the main wild species presented by the Oryza genus, Oryza glumaepatula stands out being an active source of germplasm. The occurrence and preservation of genetic variability of Oryza genus is indispensable to obtain new rice genotypes, to guarantee food security for the human population, as well as to develop genotypes that adapt to climatic changes and natural adversities.

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Cold tolerance in rice germinating seeds revealed by deep RNAseq analysis of contrasting indica genotypes

Cited by 57 publications

References 65 publications

Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

A walk on the wild side: Oryza species as source for rice abiotic stress tolerance

<i>Oryza</i> Wild Species: An Alternative for Rice Breeding under Abiotic Stress Conditions

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Cold tolerance in rice germinating seeds revealed by deep RNAseq analysis of contrasting indica genotypes

Cited by 57 publications

References 65 publications

Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

Identification and physiological characterization of two sister lines ofindicarice (Oryza sativaL.) with contrasting levels of cold tolerance

A walk on the wild side: Oryza species as source for rice abiotic stress tolerance

&lt;i&gt;Oryza&lt;/i&gt; Wild Species: An Alternative for Rice Breeding under Abiotic Stress Conditions

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<i>Oryza</i> Wild Species: An Alternative for Rice Breeding under Abiotic Stress Conditions