Comparative analysis of microRNA profiles of rice anthers between cool-sensitive and cool-tolerant cultivars under cool-temperature stress

Sakazono, Satomi; Masuko-Suzuki, Hiromi; Taguchi, Midori; Yamamura, Kaori; Nagano, Keiji; Endo, Takashi R.; Saeki, Ken-ichi; Osaka, Mariko; Nabemoto, Moe; Ito, Kana; Kudo, Toru; Kobayashi, Mariko; Kawagishi, Mizuho; Fujita, Kotomi; Nanjo, Hikaru; Shindo, Tomoe; Yano, Kentarô; Suzuki, Go; Suwabe, Keita; Watanabe, Masao

doi:10.1266/ggs.15-00056

Cited by 13 publications

(13 citation statements)

References 45 publications

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“…Consistently, after 3 days recovering, most of the OXmiR397 seedlings survived while most of the WT seedlings died ( Figure 4G ). It has been reported that miR397 is induced by different stresses in various species (Sunkar and Zhu, 2004; Wang et al, 2013; Maeda et al, 2016). Thus OsmiR397 regulated OsLAC13 abundance might play a role in stress response by suppressing H 2 O 2 production in roots.…”

Section: Resultsmentioning

confidence: 99%

Laccase-13 Regulates Seed Setting Rate by Affecting Hydrogen Peroxide Dynamics and Mitochondrial Integrity in Rice

Zhang

et al. 2017

Front. Plant Sci.

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Seed setting rate is one of the most important components of rice grain yield. To date, only several genes regulating setting rate have been identified in plant. In this study, we showed that laccase-13 (OsLAC13), a member of laccase family genes which are known for their roles in modulating phenylpropanoid pathway and secondary lignification in cell wall, exerts a regulatory function in rice seed setting rate. OsLAC13 expressed in anthers and promotes hydrogen peroxide production both in vitro and in the filaments and anther connectives. Knock-out of OsLAC13 showed significantly increased seed setting rate, while overexpression of this gene exhibited induced mitochondrial damage and suppressed sugar transportation in anthers, which in turn affected seed setting rate. OsLAC13 also induced H2O2 production and mitochondrial damage in the root tip cells which caused the lethal phenotype. We also showed that high abundant of OsmiR397, the suppressor of OsLAC13 mRNA, increased the seed setting rate of rice plants, and restrains H2O2 accumulation in roots during oxidative stress. Our results suggested a novel regulatory role of OsLAC13 gene in regulating seed setting rate by affecting H2O2 dynamics and mitochondrial integrity in rice.

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Section: Resultsmentioning

confidence: 99%

Laccase-13 Regulates Seed Setting Rate by Affecting Hydrogen Peroxide Dynamics and Mitochondrial Integrity in Rice

Zhang

et al. 2017

Front. Plant Sci.

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“…In fact, rice production is not only impacted by drought but also the influence of saline and alkaline conditions [52], cold stress [53], heavy metal pollution [17], etc. The miR393, miR396 and miR820 responded to the saline and alkaline stress [52].…”

Section: Discussionmentioning

confidence: 99%

Identification of microRNAs in Response to Drought in Common Wild Rice (Oryza rufipogon Griff.) Shoots and Roots

et al. 2017

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BackgroundDrought is the most important factor that limits rice production in drought-prone environments. Plant microRNAs (miRNAs) are involved in biotic and abiotic stress responses. Common wild rice (Oryza rufipogon Griff.) contains abundant drought-resistant genes, which provide an opportunity to explore these excellent resources as contributors to improve rice resistance, productivity, and quality.ResultsIn this study, we constructed four small RNA libraries, called CL and CR from PEG6000-free samples and DL and DR from PEG6000-treated samples, where ‘R’ indicates the root tissue and ‘L’ indicates the shoot tissue. A total of 200 miRNAs were identified to be differentially expressed under the drought-treated conditions (16% PEG6000 for 24 h), and the changes in the miRNA expression profile of the shoot were distinct from those of the root. At the miRNA level, 77 known miRNAs, which belong to 23 families, including 40 up-regulated and 37 down-regulated in the shoot, and 85 known miRNAs in 46 families, including 65 up-regulated and 20 down-regulated in the root, were identified as differentially expressed. In addition, we predicted 26 new miRNA candidates from the shoot and 43 from the root that were differentially expressed during the drought stress. The quantitative real-time PCR analysis results were consistent with high-throughput sequencing data. Moreover, 88 miRNAs that were differentially-expressed were predicted to match with 197 targets for drought-stress.ConclusionOur results suggest that the miRNAs of O. rufipogon are responsive to drought stress. The differentially expressed miRNAs that are tissue-specific under drought conditions could play different roles in the regulation of the auxin pathway, the flowering pathway, the drought pathway, and lateral root formation. Thus, the present study provides an account of tissue-specific miRNAs that are involved in the drought adaption of O. rufipogon.

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“…Cheah et al (2015) showed that several miRNAs including osa-miR398, osa-miR397, osa-miR408-5p and osa-miR528-5p were upregulated in the drought-susceptible rice variety [59]. This was also true for in cool-tolerant rice (Hitomebore) under cool-temperature [60]. The interaction network showed that 4 transcription factors (TFs), OsbZIP18, OsbZIP23, OsMYB5P and OsERF141, were potential target genes of aforementioned miRNAs.…”

Section: Interaction Relationship Of Mirnas and Mrna In Response To Cmentioning

confidence: 84%

“…The effect of osa-miR528-3p has not been studied till now. Both osa-miR528 and osa-miR408 family members were differentially expressed in response to abiotic stresses, such as drought [59], low temperature [60], heavy metal [61] and plant defense responses (the reference is about drought) [62]. Cheah et al (2015) showed that several miRNAs including osa-miR398, osa-miR397, osa-miR408-5p and osa-miR528-5p were upregulated in the drought-susceptible rice variety [59].…”

Section: Interaction Relationship Of Mirnas and Mrna In Response To Cmentioning

confidence: 99%

Transcriptome analysis reveals the roles of stem nodes in cadmium transport to rice grain

Liu

Zhou

et al. 2020

BMC Genomics

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Background: Node is the central organ of transferring nutrients and ions in plants. Cadmium (Cd) induced crop pollution threatens the food safety. Breeding of low Cd accumulation cultivar is a chance to resolve this universal problem. This study was performed to identify tissue specific genes involved in Cd accumulation in different rice stem nodes. Panicle node and the first node under panicle (node I) were sampled in two rice cultivars: Xiangwanxian No. 12 (low Cd accumulation cultivar) and Yuzhenxiang (high Cd accumulation cultivar). RNA-seq analysis was performed to identify differentially expressed genes (DEGs) and microRNAs. Results: Xiangwanxian No. 12 had lower Cd concentration in panicle node, node I and grain compared with Yuzhenxiang, and node I had the highest Cd concentration in the two cultivars. RNA seq analysis identified 4535 DEGs and 70 miRNAs between the two cultivars. Most genesrelated to the "transporter activity", such as OsIRT1, OsNramp5, OsVIT2, OsNRT1.5A, and OsABCC1, play roles in blocking the upward transport of Cd. Among the genes related to "response to stimulus", we identified OsHSP70 and OsHSFA2d/B2c in Xiangwanxian No. 12, but not in Yuzhenxiang, were all down-regulated by Cd stimulus. The up-regulation of miRNAs (osa-miR528 and osa-miR408) in Xiangwanxian No. 12 played a potent role in lowering Cd accumulation via down regulating the expression of candidate genes, such as bZIP, ERF, MYB, SnRK1 and HSPs. Conclusions: Both panicle node and node I of Xiangwanxian No. 12 played a key role in blocking the upward transportation of Cd, while node I played a critical role in Yuzhenxiang. Distinct expression patterns of various transporter genes such as OsNRT1.5A, OsNramp5, OsIRT1, OsVIT2 and OsABCC1 resulted in differential Cd accumulation in different nodes. Likewise, distinct expression patterns of these transporter genes are likely responsible for the low Cd accumulation in Xiangwanxian No. 12 cultivar. MiRNAs drove multiple transcription factors, such as OsbZIPs, OsERFs, OsMYBs, to play a role in Cd stress response.

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Comparative analysis of microRNA profiles of rice anthers between cool-sensitive and cool-tolerant cultivars under cool-temperature stress

Cited by 13 publications

References 45 publications

Laccase-13 Regulates Seed Setting Rate by Affecting Hydrogen Peroxide Dynamics and Mitochondrial Integrity in Rice

Laccase-13 Regulates Seed Setting Rate by Affecting Hydrogen Peroxide Dynamics and Mitochondrial Integrity in Rice

Identification of microRNAs in Response to Drought in Common Wild Rice (Oryza rufipogon Griff.) Shoots and Roots

Transcriptome analysis reveals the roles of stem nodes in cadmium transport to rice grain

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