Dynamic Transcriptome Analysis of Anther Response to Heat Stress during Anthesis in Thermotolerant Rice (Oryza sativa L.)

Liu, Gang; Zha, Zhongping; Cai, Huan; Qin, Dandan; Jia, Haitao; Liu, Changyan; Dong-feng, Qiu; Zhang, Zaijun; Wan, Zhengjie; Yang, Yuanyuan; Wan, Biao; You, Aiqing; Chen, Jiao

doi:10.3390/ijms21031155

Cited by 34 publications

(34 citation statements)

References 43 publications

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“…Based on previous reports, SDWG005 and MH101 showed contrasting thermotolerance differences during the flowering stage (Zha et al, 2016). Recently, a transcriptional profile analysis under different time courses of heat treatment on the anthers of SDWG005 at anthesis were conducted and identified agmatine-coumarin-acyltransferase gene OsACT may involve in SDWG005 thermotolerance (Liu et al, 2020). Here, we further characterized the physiological observation and transcriptomic expression patterns analysis on spikelets of SDWG005 during meiosis under different high-temperature treatment.…”

Section: Discussionmentioning

confidence: 90%

Transcriptomic Analysis Reveals Important Roles of Lignin and Flavonoid Biosynthetic Pathways in Rice Thermotolerance During Reproductive Stage

Cai

Feng

et al. 2020

Front. Genet.

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Rice is one of the major staple cereals in the world, but heat stress is increasingly threatening its yield. Analyzing the thermotolerance mechanism from new thermotolerant germplasms is very important for rice improvement. Here, physiological and transcriptome analyses were used to characterize the difference between two germplasms, heat-sensitive MH101 and heat-tolerant SDWG005. Two genotypes exhibited diverse heat responses in pollen viability, pollination characteristics, and antioxidant enzymatic activity in leaves and spikelets. Through cluster analysis, the global transcriptomic changes indicated that the ability of SDWG005 to maintain a steady-state balance of metabolic processes played an important role in thermotolerance. After analyses of gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment, we found that the thermotolerance mechanism in SDWG00 was associated with reprogramming the cellular activities, such as response to abiotic stress and metabolic reorganization. In contrast, the down-regulated genes in MH101 that appeared to be involved in DNA replication and DNA repair proofreading, could cause serious injury to reproductive development when exposed to high temperature during meiosis. Furthermore, we identified 77 and 11 differentially expressed genes (DEGs) involved in lignin and flavonoids biosynthetic pathways, respectively. Moreover, we found that more lignin deposition and flavonoids accumulation happened in SDWG005 than in MH101 under heat stress. The results indicated that lignin and flavonoid biosynthetic pathways might play important roles in rice heat resistance during meiosis.

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Section: Discussionmentioning

confidence: 90%

Transcriptomic Analysis Reveals Important Roles of Lignin and Flavonoid Biosynthetic Pathways in Rice Thermotolerance During Reproductive Stage

Cai

Feng

et al. 2020

Front. Genet.

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“…Identification of trait linked candidate genes has high practical value in marker-assisted breeding. In recent past, transcriptional changes in rice panicles under high-temperature stress conditions were extensively investigated and several heat-responsive genes have been identified (Zhang et al 2012;González-Schain et al 2016;Liu et al 2020). We took advantage of previous work and compared all our genes underlying the MQTL regions with differentially expressed genes of two prominent studies (Zhang et al 2012;González-Schain et al 2016).…”

Section: Prioritization Of Candidate Genes By Integrating Genetics Anmentioning

confidence: 99%

“…1 8 Zhang et al (2012); 3,4,5 , Cross-reference studies (Wilkins et al 2016;Lafarge et al 2017;Liu et al 2020) conducted after González-Schain et al (2016) and Zhang et al (2012).…”

Section: Fig 4 Gene Evidence Network Showing Possible Relationship Bmentioning

confidence: 99%

Reproductive tissues-specific meta-QTLs and candidate genes for development of heat-tolerant rice cultivars

Raza

Riaz

Sabar

2020

Preprint

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Rice holds the key to future food security. In rice-growing areas, temperature has already reached an optimum level for growth, hence, any further increase due to global climate change could significantly reduce rice yield. Several mapping studies have identified a plethora of reproductive tissue-specific and heat stress associated inconsistent quantitative trait loci (QTL), which could be exploited for improvement of heat tolerance. In this study, we performed a meta-analysis on previously reported QTLs and identified 35 most consistent meta-QTLs (MQTLs) across diverse genetic backgrounds and environments. Genetic and physical intervals of nearly 66% MQTLs were narrower than 5 cM and 2 Mb respectively, indicating hotspot genomic regions for heat tolerance. Comparative analyses of MQTLs underlying genes with microarray and RNA-seq based transcriptomic data sets revealed a core set of 45 heat-responsive genes, among which 24 were reproductive tissue-specific and have not been studied in detail before. Remarkably, all these genes corresponded to various stress associated functions, ranging from abiotic stress sensing to regulating plant stress responses, and included heat-shock genes (OsBiP2, OsMed37_1), transcription factors (OsNAS3, OsTEF1, OsWRKY10, OsWRKY21), transmembrane transporters (OsAAP7A, OsAMT2;1), sugar metabolizing (OsSUS4, α -Gal III) and abiotic stress (OsRCI2-7, SRWD1) genes. Functional data evidences from Arabidopsis heat-shock genes also suggest that OsBIP2 may be associated with thermotolerance of pollen tubes under heat stress conditions. Furthermore, promoters of identified genes were enriched with heat, dehydration, pollen and sugar responsive cis-acting regulatory elements, proposing a common regulatory mechanism might exist in rice for mitigating reproductive stage heat stress. These findings strongly support our results and provide new candidate genes for fast-track development of heat-tolerant rice cultivars. Key MessageBy integrating genetics and genomics data, reproductive tissues-specific and heat stress responsive 35 meta-QTLs and 45 candidate genes were identified, which could be exploited through marker-assisted breeding for fast-track development of heat-tolerant rice cultivars.

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“…Along with the rapid development of sequencing technology, transcriptomic analysis is an extremely powerful tool for investigating plant molecular responses to abiotic stress, the knowledge of which could be further used to improve plant tolerance through molecular engineering. It has been widely used to identify heat-responsive genes in model plants, moss species, crop species and turfgrass species, such as Arabidopsis [13], rice [14], pepper (Capsicum annuum L.) [15], Physcomitrella patens [16], and Agrostis scabra [17]. Many HS-responsive genes have been identified in transcriptional regulatory network of model plant, including heat shock proteins (HSPs) and HSFs [18,19].…”

Section: Introductionmentioning

confidence: 99%

Integrated analysis of co-expression, conserved genes and gene families reveal core regulatory network of heat stress response in Cleistogenes songorica, a xerophyte perennial desert plant

Zong

et al. 2020

BMC Genomics

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Background As global warming continues, heat stress (HS) is becoming an increasingly significant factor limiting plant growth and reproduction, especially for cool-season grass species. The objective of this study was to determine the transcriptional regulatory network of Cleistogenes songorica under HS via transcriptome profiling, identify of gene families and comparative analysis across major Poaceae species. Results Physiological analysis revealed significantly decreased leaf relative water content (RWC) but increased proline (Pro) content in C. songorica under 24 h of HS. Transcriptome profiling indicated that 16,028 and 14,645 genes were differentially expressed in the shoots and roots of C. songorica under HS, respectively. Two subgenomes of C. songorica provide equal contribution under HS on the basis of the distribution and expression of differentially expressed genes (DEGs). Furthermore, 216 DEGs were identified as key evolutionarily conserved genes involved in the response to HS in C. songorica via comparative analysis with genes of four Poaceae species; these genes were involved in the ‘response to heat’ and ‘heat acclimation’. Notably, most of the conserved DEGs belonged to the heat-shock protein (HSP) superfamily. Similar results were also obtained from co-expression analysis. Interestingly, hub-genes of co-expression analysis were found to overlap with conserved genes, especially heat-shock protein (HSP). In C. songorica, 84 HSP and 32 heat-shock transcription factor (HSF) genes were identified in the allotetraploid C. songorica genome, and might have undergone purifying selection during evolutionary history based on syntenic and phylogenetic analysis. By analysing the expression patterns of the CsHSPs and CsHSFs, we found that the transcript abundance of 72.7% of the CsHSP genes and of 62.5% of the CsHSF genes changed under heat stress in both the shoots and roots. Finally, a core regulatory network of HS was constructed on the basis of the CsHSP, CsHSF and other responsive genes in C. songorica. Conclusions Regulatory network and key genes were comprehensively analysed and identified in C. songorica under HS. This study improves our knowledge of thermotolerance mechanisms in native grasses, and also provides candidate genes for potential applications in the genetic improvement of grasses.

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Dynamic Transcriptome Analysis of Anther Response to Heat Stress during Anthesis in Thermotolerant Rice (Oryza sativa L.)

Cited by 34 publications

References 43 publications

Transcriptomic Analysis Reveals Important Roles of Lignin and Flavonoid Biosynthetic Pathways in Rice Thermotolerance During Reproductive Stage

Transcriptomic Analysis Reveals Important Roles of Lignin and Flavonoid Biosynthetic Pathways in Rice Thermotolerance During Reproductive Stage

Reproductive tissues-specific meta-QTLs and candidate genes for development of heat-tolerant rice cultivars

Integrated analysis of co-expression, conserved genes and gene families reveal core regulatory network of heat stress response in Cleistogenes songorica, a xerophyte perennial desert plant

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