Comparative transcriptome profiling of developing caryopses from two rice cultivars with differential dormancy

Huh, S.M.; Hwang, Yong-sic; Shin, Yong Un; Nam, Myung Hee; Kim, Dool Yi; Yoon, In Sun

doi:10.1016/j.jplph.2013.03.003

Cited by 13 publications

(8 citation statements)

References 46 publications

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“…Understanding of the molecular mechanism underlying rice seed development, an important process dedicated to provide seeds for food and nutrition and an essential component of rice life cycle, is of great interest among multiple field scientists. Rice seed development is a complex and coordinated process, which is coupled with many genetic, physiological, metabolic, and signaling pathways, and affected by both internal and external stimuli 1 2 3 4 .…”

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confidence: 99%

Identification of Conserved and Diverse Metabolic Shifts during Rice Grain Development

Tohge

Chan³

et al. 2016

Sci Rep

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Seed development dedicates to reserve synthesis and accumulation and uncovering its genetic and biochemical mechanisms has been a major research focus. Although proteomic and transcriptomic analyses revealed dynamic changes of genes and enzymes involved, the information regarding concomitant metabolic changes is missing. Here we investigated the dynamic metabolic changes along the rice grain development of two japonica and two indica cultivars using non-targeted metabolomics approach, in which we successfully identified 214 metabolites. Statistical analyses revealed both cultivar and developmental stage dependent metabolic changes in rice grains. Generally, the stage specific metabolic kinetics corresponded well to the physiological status of the developing grains, and metabolic changes in developing rice grain are similar to those of dicot Arabidopsis and tomato at reserve accumulation stage but are different from those of dicots at seed desiccation stage. The remarkable difference in metabolite abundances between japonica and indica rice grain was observed at the reserve accumulation stage. Metabolite-metabolite correlation analysis uncovered potential new pathways for several metabolites. Taken together, this study uncovered both conserved and diverse development associated metabolic kinetics of rice grains, which facilitates further study to explore fundamental questions regarding the evolution of seed metabolic capabilities as well as their potential applications in crop improvement.

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confidence: 99%

Identification of Conserved and Diverse Metabolic Shifts during Rice Grain Development

Tohge

Chan³

et al. 2016

Sci Rep

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“…The seed maturation pathways are signi cantly correlated with seed dormancy [32] . In another study, however, the strongly dormant rice cultivar N22 and two mutants derived from it, Q4359 and Q4646, which showed weaker dormancy, were used in a microarray study.…”

Section: Discussionmentioning

confidence: 99%

A Comparative Transcriptome Analysis Reveals New Insights into Pre-Harvest Sprouting (PHS) in Wheat

Qiao

Wang

et al. 2021

Preprint

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Background: pre-harvest sprouting (PHS) is a significant cause of yield loss in cereal crops, and is an important topic of study for the improvement of wheat quality. Many studies have focused on PHS in wheat during the last 10 years, especially on the involvement of abscisic acid (ABA) in PHS, however, a lot remained unknown about this topic.Results: In this study, a PHS resistant line was isolated from an ethylmethane sulfonate (EMS) mutant population derived from the wheat cultivar ‘Long 13-3778’, namely ‘LQ18’. The mutant line LQ18 showed highly significant resistance to PHS compared with the wild-type. Transcriptome sequencing was conducted to determine the differences between the LQ18 mutant and the wild-type at the level of gene expression. The results showed no conclusive evidence that the ABA biosynthesis and signaling pathways contribute to the differences in PHS between the mutant and the wild-type, and some genes and their alleles associated with PHS tolerance showed differential expression between the mutant and wild-type lines. The most interesting result of this study was that the expression levels of the chitinase family genes showed significant differences between the mutant and the wild-type as determined by GO enrichment analysis, and a subsequent analysis of differential expression profiling of the chitinase genes led to the same conclusion.Conclusions: Transcriptomic analysis in this study have revealed the global transcriptome profiles of the PHS sensitive wheat cultivar ‘Long 13-3778’ and its PHS resistant mutants. Furthermore, this study has proposed a possible explanation of the connection between PHS and the chitinase family for the first time, which added to our understanding of PHS and seed dormancy in common wheat.

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“…Seed dormancy is defined as a physiological trait, where the viable seed remains temporarily quiescent for a specific length of time even though environmental conditions for germination are favourable and germination is induced when natural or artificial conditions terminate the restrictive state (Takahashi 1984;Simpson 1990;Bewley 1997). Huh et al (2013) reported that the transcriptomic profile of the caryopsis during the maturation phase is correlated strongly with establishment of dormancy in rice and differential gene expression levels between the genotypes may account for variation in dormancy. The present investigation precluded the study of physiological or biochemical factors during the period of seed maturation that could be responsible for differences in dormancy of the six genotypes used, but variation in germination response among them has been expressed in the differences of both morphological as well as physiological traits.…”

Section: Discussionmentioning

confidence: 99%

“…In rice, seed dormancy distributes germination over time, which is an agronomically undesirable trait but necessary to prevent viviparous germination of mature seeds when untimely rains frequent rice fields (Gu et al 2003). Viviparous germination causes loss of grain quality and reduces the market value of the produce (Huh et al 2013). Seed dormancy is an essential factor for plant survival under natural conditions, but for crops strong dormancy is undesirable because it leads to inadequate germination and poor stand development.…”

Section: Introductionmentioning

confidence: 99%

De-hulling facilitates seed germination and ethylene production in dormant and non-dormant rice genotypes

et al. 2017

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SUMMARYThe hull or husk of rice, comprising the lemma and palea, provides a fitting enclosure for the caryopsis. The physiological significance of the hull in seed dormancy has been examined by comparing the effects of its removal on germination, seed vigour, assimilate mobilization and ethylene production in germinating seeds of six rice genotypes; two each belonging to dormant, semi-dormant and non-dormant groups. Hull removal promoted the above parameters in all three categories of seeds, but the effect was relatively higher in dormant seeds compared with less dormant categories. Ethylene production in non-dormant seeds was initiated after imbibition of water, normally before visible emergence of the radicle. It peaked when the radicle began to protrude and declined thereafter. In comparison, dormant seeds produced very low levels of ethylene during germination; however, hull removal resulted in a dramatic rise in its production. Overall, ethylene evolution at the radicle protrusion stage correlated negatively with germination time. It was concluded that ethylene production starts with breaking of the caryopsis coat and peaks when the radicle ruptures it completely, at the stage of radicle visible emergence. Removal of the hull facilitates germination and ethylene production can be a good indicator for the progress of germination.

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Comparative transcriptome profiling of developing caryopses from two rice cultivars with differential dormancy

Cited by 13 publications

References 46 publications

Identification of Conserved and Diverse Metabolic Shifts during Rice Grain Development

Identification of Conserved and Diverse Metabolic Shifts during Rice Grain Development

A Comparative Transcriptome Analysis Reveals New Insights into Pre-Harvest Sprouting (PHS) in Wheat

De-hulling facilitates seed germination and ethylene production in dormant and non-dormant rice genotypes

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