Microarray data uncover the genome-wide gene expression patterns in response to heat stress in rice post-meiosis panicle

Zhang, Xianwen; Xiong, Hairong; Liu, Ailing; Zhou, Xiaoyun; Peng, Yan; Li, Zhuoxue; Luo, Guangyu; Tian, Xiangrong; Chen, X.

doi:10.1007/s12374-014-0177-z

Cited by 26 publications

(12 citation statements)

References 53 publications

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“…Metabolism overview showed that most of the heat-responsive genes were involved in the abiotic stress responses, development, secondary metabolism, carbohydrate metabolism, and starch biosynthesis, which are in conformity with the findings of Zhang et al (2014) in rice post-meiosis panicle under the HS. GO enrichment analysis too revealed that DETs were significantly enriched in signaling, biological, and metabolic process regulation in poplar under HS (Song et al, 2014).…”

Section: Discussionsupporting

confidence: 82%

Harnessing Next Generation Sequencing in Climate Change: RNA-Seq Analysis of Heat Stress-Responsive Genes in Wheat (Triticum aestivum L.)

Kumar

Goswami

Sharma

et al. 2015

OMICS: A Journal of Integrative Biology

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Wheat is a staple food worldwide and provides 40% of the calories in the diet. Climate change and global warming pose a threat to wheat production, however, and demand a deeper understanding of how heat stress might impact wheat production and wheat biology. However, it is difficult to identify novel heat stress associated genes when the genomic information is not available. Wheat has a very large and complex genome that is about 37 times the size of the rice genome. The present study sequenced the whole transcriptome of the wheat cv. HD2329 at the flowering stage, under control (22°-3°C) and heat stress (42°C, 2 h) conditions using Illumina HiSeq and Roche GS-FLX 454 platforms. We assembled more than 26.3 and 25.6 million high-quality reads from the control and HS-treated tissues transcriptome sequences respectively. About 76,556 (control) and 54,033 (HS-treated) contigs were assembled and annotated de novo using different assemblers and a total of 21,529 unigenes were obtained. Gene expression profile showed significant differential expression of 1525 transcripts under heat stress, of which 27 transcripts showed very high (>10) fold upregulation. Cellular processes such as metabolic processes, protein phosphorylation, oxidations-reductions, among others were highly influenced by heat stress. In summary, these observations significantly enrich the transcript dataset of wheat available on public domain and show a de novo approach to discover the heat-responsive transcripts of wheat, which can accelerate the progress of wheat stress-genomics as well as the course of wheat breeding programs in the era of climate change.

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Section: Discussionsupporting

confidence: 82%

Harnessing Next Generation Sequencing in Climate Change: RNA-Seq Analysis of Heat Stress-Responsive Genes in Wheat (Triticum aestivum L.)

Kumar

Goswami

Sharma

et al. 2015

OMICS: A Journal of Integrative Biology

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“…Eight common MTAs were detected for NDVI at anthesis and grain filing period on chromosomes 1D, 3B, 5A, 6A, 7B, and 7D which can be potentially important targets for marker assisted selection. Three MTAs (S3A_699988530, S7B_701649275, and S7D_ [27,28,48]. Our study identified novel MTAs associated with NDVI which provides insight into the genetic basis of this trait in wheat at different growth stages in US soft wheat under HDT and HNT conditions.…”

Section: Discussionmentioning

confidence: 72%

Genetic dissection of heat-responsive physiological traits to improve adaptation and increase yield potential in soft winter wheat

et al. 2020

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Background: Climate change, including higher temperatures (HT) has a detrimental impact on wheat productivity and modeling studies predict more frequent heat waves in the future. Wheat growth can be impaired by high daytime and nighttime temperature at any developmental stage, especially during the grain filling stage. Leaf chlorophyll content, leaf greenness, cell membrane thermostability, and canopy temperature have been proposed as candidate traits to improve crop adaptation and yield potential of wheat under HT. Nonetheless, a significant gap exists in knowledge of genetic backgrounds associated with these physiological traits. Identifying genetic loci associated with these traits can facilitate physiological breeding for increased yield potential under high temperature stress condition in wheat. Results: We conducted genome-wide association study (GWAS) on a 236 elite soft wheat association mapping panel using 27,466 high quality single nucleotide polymorphism markers. The panel was phenotyped for three years in two locations where heat shock was common. GWAS identified 500 significant marker-trait associations (MTAs) (p ≤ 9.99 × 10 − 4). Ten MTAs with pleiotropic effects detected on chromosomes 1D, 2B, 3A, 3B, 6A, 7B, and 7D are potentially important targets for selection. Five MTAs associated with physiological traits had pleiotropic effects on grain yield and yield-related traits. Seventy-five MTAs were consistently expressed over several environments indicating stability and more than half of these stable MTAs were found in genes encoding different types of proteins associated with heat stress. Conclusions: We identified 500 significant MTAs in soft winter wheat under HT stress. We found several stable loci across environments and pleiotropic markers controlling physiological and agronomic traits. After further validation, these MTAs can be used in marker-assisted selection and breeding to develop varieties with high stability for grain yield under high temperature.

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“…High-temperature induction of HSF and HSP genes in developing anthers, microspores, and pollen has been reported for different species (Frank et al, 2009;Giorno et al, 2010;Bita et al, 2011;Zhang et al, 2014;Li et al, 2015). Furthermore, proteins of different types of HSPs (i.e.…”

Section: Acclimationmentioning

confidence: 99%

“…Indeed, long-term mild heat has been shown to increase ROS levels in sorghum pollen (Djanaguiraman et al, 2014). In rice, heat induced the expression of several ROS-related genes in florets (Zhang et al, 2012;Zhang et al, 2014), and GST and APX genes were upregulated in developing tomato anthers and pollen (Frank et al, 2009;Bita et al, 2011;Fragkostefanakis et al, 2016b). The up-regulation of GST and APX genes in response to heat is reflected by increased levels of the corresponding proteins (Chaturvedi et al, 2015).…”

Section: Reactive Oxygen Species Scavengingmentioning

confidence: 99%

“…For example, transcripts related to ethylene and abscisic acid (ABA) signaling accumulate in developing tomato pollen and in rice florets after a short heat episode (Frank et al, 2009;Bita et al, 2011;Zhang et al, 2012;Zhang et al, 2014). Pollen of an ethylene insensitive tomato mutant was found to be more sensitive to chronic mild heat stress, while chemical induction of ethylene production prior to a short heat stress treatment improved pollen thermotolerance and application of an ethylene inhibitor reduced it .…”

Section: Distinguishing Acclimation From Injurymentioning

confidence: 99%

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Pollen Development at High Temperature: From Acclimation to Collapse

2017

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Microarray data uncover the genome-wide gene expression patterns in response to heat stress in rice post-meiosis panicle

Cited by 26 publications

References 53 publications

Harnessing Next Generation Sequencing in Climate Change: RNA-Seq Analysis of Heat Stress-Responsive Genes in Wheat (Triticum aestivum L.)

Harnessing Next Generation Sequencing in Climate Change: RNA-Seq Analysis of Heat Stress-Responsive Genes in Wheat (Triticum aestivum L.)

Genetic dissection of heat-responsive physiological traits to improve adaptation and increase yield potential in soft winter wheat

Pollen Development at High Temperature: From Acclimation to Collapse

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