scholarly journals Linkage analysis, GWAS, transcriptome analysis to identify candidate genes for rice seedlings in response to high temperature stress

2021 ◽  
Author(s):  
Zhaoran Wei ◽  
Qiaoling Yuan ◽  
Hai Lin ◽  
Xiaoxia Li ◽  
Chao Zhang ◽  
...  
Keyword(s):  
High Temperature ◽  
Linkage Analysis ◽  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Recombinant Inbred Lines ◽  
High Temperature Stress ◽  
Seedling Stage ◽  
High Temperature Treatment ◽  
Heat Resistant ◽  
Resistant Genes

Abstract Background: Rice plants suffer from the rising temperature which is becoming more and more prominent. Mining heat-resistant genes and applying them to rice breeding is a feasible and effective way to solve the problem.Result: Three main biomass traits, including shoot length, dry weight, and fresh weight, changed after abnormally high temperature treatment in the rice seedling stage of a recombinant inbred lines and germplasm population. Based on a comparison of the results of linkage analysis and genome-wide association analysis, two loci with lengths of 57 kb and 69 kb in qDW7 and qFW6, respectively, was associated with the rice response to abnormally high temperatures in the seedling stage. Meanwhile, based on integrated transcriptome analysis, some genes are considered as important candidate genes. Combining with known genes and analysis of homologous genes, it was found that there are eight genes in candidate intervals that need to be focused in subsequent research.Conclusions: The results indicated several relevant loci, which would help researchers to further discover beneficial heat-resistant genes that can be applied to rice heat-resistant breeding.

scholarly journals Linkage analysis, GWAS, transcriptome analysis to identify candidate genes for rice seedlings in response to high temperature stress

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Zhaoran Wei ◽  
Qiaoling Yuan ◽  
Hai Lin ◽  
Xiaoxia Li ◽  
Chao Zhang ◽  
...  
Keyword(s):  
High Temperature ◽  
Linkage Analysis ◽  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Recombinant Inbred Lines ◽  
High Temperature Stress ◽  
Seedling Stage ◽  
High Temperature Treatment ◽  
Heat Resistant ◽  
Resistant Genes

Abstract Background Rice plants suffer from the rising temperature which is becoming more and more prominent. Mining heat-resistant genes and applying them to rice breeding is a feasible and effective way to solve the problem. Result Three main biomass traits, including shoot length, dry weight, and fresh weight, changed after abnormally high-temperature treatment in the rice seedling stage of a recombinant inbred lines and the natural indica germplasm population. Based on a comparison of the results of linkage analysis and genome-wide association analysis, two loci with lengths of 57 kb and 69 kb in qDW7 and qFW6, respectively, were associated with the rice response to abnormally high temperatures at the seedling stage. Meanwhile, based on integrated transcriptome analysis, some genes are considered as important candidate genes. Combining with known genes and analysis of homologous genes, it was found that there are eight genes in candidate intervals that need to be focused on in subsequent research. Conclusions The results indicated several relevant loci, which would help researchers to further discover beneficial heat-resistant genes that can be applied to rice heat-resistant breeding.

scholarly journals Linkage Analysis, GWAS, Transcriptome Analysis to Identify Candidate Genes for Rice Seedlings in Response to High Temperature Stress

2020 ◽  
Author(s):  
Zhaoran Wei ◽  
Qiaoling Yuan ◽  
Hai Lin ◽  
Xiaoxia Li ◽  
Chao Zhang ◽  
...  
Keyword(s):  
High Temperature ◽  
Linkage Analysis ◽  
Candidate Genes ◽  
Transcriptome Analysis ◽  
High Temperature Stress ◽  
Seedling Stage ◽  
High Temperature Treatment ◽  
Subsequent Research ◽  
Heat Resistant ◽  
Resistant Genes

Abstract Background: With the increase of global temperature, the problem of rice yield decline caused by the rising temperature is becoming more and more prominent, which urgently needs to be solved . Mining heat-resistant genes and applying them to rice breeding is a feasible and effective way to solve the problem. Result: Three main biomass traits, including shoot length, dry weight, and fresh weight, changed after abnormally high temperature treatment in the seedling stage of a recombinant inbred line and natural groups. Based on a comparison of the results of linkage analysis and genome-wide association analysis, the presence of two sections with lengths of 57 kb and 69 kb in qDW7 and q F W6 , respectively, was associated with the rice response to abnormally high temperatures in the seedling stage. Meanwhile, based on integrated transcriptome analysis, some genes are considered as candidate genes for subsequent research and analysis. Combining with reports of known genes and analysis of homologous genes, it was found that there are 8 genes in candidate genes that need to be focused in subsequent research. Conclusions: The results indicated several relevant beneficial loci reacted to heat stress in rice seedling stage, which would help researchers to further discover excellent heat-resistant genes that can be applied to rice heat-resistant breeding.

scholarly journals Linkage analysis, GWAS, transcriptome analysis to identify candidate genes for rice seedlings in response to high temperature stress

2020 ◽  
Author(s):  
Zhaoran Wei ◽  
Qiaoling Yuan ◽  
Hai Lin ◽  
Xiaoxia Li ◽  
Chao Zhang ◽  
...  
Keyword(s):  
High Temperature ◽  
Linkage Analysis ◽  
Candidate Genes ◽  
Transcriptome Analysis ◽  
High Temperature Stress ◽  
Seedling Stage ◽  
High Temperature Treatment ◽  
Subsequent Research ◽  
Heat Resistant ◽  
Resistant Genes

Abstract Background: With the increase of global temperature, rice yield decline caused by the rising temperature is becoming more and more prominent. Mining heat-resistant genes and applying them to rice breeding is a feasible and effective way to solve the problem.Result: Three main biomass traits, including shoot length, dry weight, and fresh weight, changed after abnormally high temperature treatment in the seedling stage of a recombinant inbred line and natural groups. Based on a comparison of the results of linkage analysis and genome-wide association analysis, the presence of two sections with lengths of 57 kb and 69 kb in qDW7 and qFW6, respectively, was associated with the rice response to abnormally high temperatures in the seedling stage. Meanwhile, based on integrated transcriptome analysis, some genes are considered as candidate genes for subsequent research and analysis. Combining with reports of known genes and analysis of homologous genes, it was found that there are 8 genes in candidate genes that need to be focused in subsequent research.Conclusions: The results indicated several relevant loci, which would help researchers to further discover excellent heat-resistant genes that can be applied to rice heat-resistant breeding.

scholarly journals Phosphoproteomic analysis of lettuce (Lactuca sativa L.) reveals starch and sucrose metabolism functions during bolting induced by high temperature

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0244198
Author(s):  
Xiaoxiao Qin ◽  
Panpan Li ◽  
Shaowei Lu ◽  
Yanchuan Sun ◽  
Lifeng Meng ◽  
...  
Keyword(s):  
High Temperature ◽  
High Temperatures ◽  
Lactuca Sativa ◽  
Molecular Mechanisms ◽  
Soluble Sugar ◽  
High Temperature Stress ◽  
Temperature Treatment ◽  
Sucrose Metabolism ◽  
High Temperature Treatment ◽  
Lactuca Sativa L

High temperatures induce early bolting in lettuce (Lactuca sativa L.), which decreases both quality and production. However, knowledge of the molecular mechanism underlying high temperature promotes premature bolting is lacking. In this study, we compared lettuce during the bolting period induced by high temperatures (33/25 °C, day/night) to which raised under controlled temperatures (20/13 °C, day/night) using iTRAQ-based phosphoproteomic analysis. A total of 3,814 phosphorylation sites located on 1,766 phosphopeptides from 987 phosphoproteins were identified after high-temperature treatment,among which 217 phosphoproteins significantly changed their expression abundance (116 upregulated and 101 downregulated). Most phosphoproteins for which the abundance was altered were associated with the metabolic process, with the main molecular functions were catalytic activity and transporter activity. Regarding the functional pathway, starch and sucrose metabolism was the mainly enriched signaling pathways. Hence, high temperature influenced phosphoprotein activity, especially that associated with starch and sucrose metabolism. We suspected that the lettuce shorten its growth cycle and reduce vegetative growth owing to changes in the contents of starch and soluble sugar after high temperature stress, which then led to early bolting/flowering. These findings improve our understanding of the regulatory molecular mechanisms involved in lettuce bolting.

scholarly journals Differential modulation of heat inducible genes across diverse genotypes and molecular cloning of a sHSP from Pearl millet [Pennisetum glaucum (L.) R. Br.]

2020 ◽  
Author(s):  
S MukeshSankar ◽  
C. Tara Satyavathi ◽  
Sharmistha Barthakur ◽  
S.P Singh ◽  
Roshan Kumar ◽  
...  
Keyword(s):  
Heat Stress ◽  
High Temperature ◽  
Pearl Millet ◽  
Temperature Stress ◽  
Expression Profiling ◽  
Stability Index ◽  
High Temperature Stress ◽  
Seedling Stage ◽  
Transcript Expression ◽  
Membrane Stability Index

AbstractEnvironmental stresses negatively influence survival, biomass and grain yield of most crops. Towards functionally clarifying the role of heat responsive genes in Pearl millet under high temperature stress, the present study were carried out using semi quantitative RT- PCR for transcript expression profiling of hsf and hsps in 8 different inbred lines at seedling stage, which was earlier identified as thermo tolerant/susceptible lines through initial screening for thermo tolerance using membrane stability index among 38 elite genotypes. Transcript expression pattern suggested existence of differential response among different genotypes in response to heat stress in the form of accumulation of heat shock responsive gene transcripts. Genotypes WGI 126, TT-1 and MS 841B responded positively towards high temperature stress for transcript accumulation for both Pgcp 70 and Pghsf and also had better growth under heat stress, whereas PPMI 69 showed the least responsiveness to transcript induction supporting the membrane stability index data for scoring thermotolerance, suggesting the efficacy of transcript expression profiling as a molecular based screening technique for identification of thermotolerant genes and genotypes at particular crop growth stages. As to demonstrate this, a full length cDNA of Pghsp 16.97 was cloned from the thermotolerant cultivar, WGI 126 and characterized for thermotolerance. The results of demonstration set forth the transcript profiling for heat tolerant genes can be a very useful technique for high throughput screening of tolerant genotypes at molecular level from large cultivar collections at seedling stage.

scholarly journals BmCncC/keap1-pathway is involved in high-temperature induced metamorphosis regulation of silkworm, Bombyx mori

2018 ◽  
Author(s):  
Jinxin Li ◽  
Tingting Mao ◽  
Zhengting Lu ◽  
Mengxue Li ◽  
Zhengting Lu ◽  
...  
Keyword(s):  
High Temperature ◽  
Bombyx Mori ◽  
Temperature Stress ◽  
Hormone Level ◽  
High Temperature Stress ◽  
Temperature Treatment ◽  
Endogenous Hormone ◽  
High Temperature Treatment ◽  
Regulation Mechanism ◽  
The Relationship

AbstractThe global warming has affected the growth, development and reproduction of insects. However, the molecular mechanism of high temperature stress-mediated metamorphosis regulation of lepidopteran insect has not been elucidated. In this study, the relationship between the insect developmental process and endogenous hormone level was investigated under high temperature (36 ° C) stress in Bombyx mori (B. mori). The results showed that the duration of 5th instar larvae were shortened by 28 ± 2 h, and the content of 20E was up-regulated significantly after 72 h of high temperature treatment, while the transcription levels of 20E response genes E93, Br-C, USP, E75 were up-regulated 1.35, 1.25, 1.28, and 1.27-fold, respectively. The high temperature treatment promoted the phosphorylation level of Akt and the downstream BmCncC/keap1 pathway was activated, the transcription levels of 20E synthesis-related genes cyp302a1, cyp306a1, cyp314a1 and cyp315a1 were up-regulated by 1.12, 1.51, 2.17 and 1.23-fold, respectively. After treatment with double stranded RNA of BmCncC (dsBmCncC) in BmN cells, the transcription levels of cyp302a1 and cyp306a1 were significantly decreased, whereas up-regulated by 2.15 and 1.31-fold, respectively, after treatment with CncC activator Curcumin. These results suggested that BmCncC/keap1-mediated P450 genes (cyp302a1, cyp306a1) expression resulted in the changes of endogenous hormone level, which played an important role in the regulation of metamorphosis under high temperature stress. Studies provide novel clues for understanding the CncC/keap1 pathway-mediated metamorphosis regulation mechanism in insects.Author SummaryMammalian nuclear transcription factor Nrf2 (NF-E2-related factor 2) plays an important role in the stress response of cells. CncC is a homolog of mammalian Nrf2 in insect, regulating the genes expression of insect antioxidant enzymes and cytochrome P450 detoxification enzyme. Evidence suggests that the CncC/Keap1 pathway also plays an important role in regulating insect development. Here, we investigated the regulatory mechanism between the CncC/Keap1 pathway and metabolism of silkworm hormones in Lepidoptera. We found that high temperature induction accelerated the development of silkworm, the ecdysone content and related metabolic genes in hemolymph were significantly up-regulated, the CncC/Keap1 pathway was activated, and the expression of BmCncC was significantly increased, indicating that the Cncc/Keap1 pathway plays an important role in this process. The expression of cyp302a1 and cyp306a1 was significantly decreased by RNA interference with BmCncC, which indicated that CncC in silkworm had a regulatory relationship with downstream 20E synthetic gene. In summary, the results indicate that the CncC/Keap1 pathway plays an important role in regulating hormone metabolism in silkworm, providing a basis for further study of the relationship between CncC/Keap1 pathway and development in insects.

scholarly journals Heat Stress After Pollination Reduces Kernel Number in Maize by Insufficient Assimilates

2021 ◽  
Vol 12 ◽  
Author(s):  
Shiduo Niu ◽  
Xiong Du ◽  
Dejie Wei ◽  
Shanshan Liu ◽  
Qian Tang ◽  
...  
Keyword(s):  
Heat Stress ◽  
High Temperature ◽  
Soluble Sugar ◽  
Pollen Grains ◽  
Field Studies ◽  
High Temperature Stress ◽  
Sequencing Analysis ◽  
Grain Number ◽  
Heat Resistant ◽  
Grain Starch

Global warming has increased the occurrence of high temperature stress in plants, including maize, resulting in decreased the grain number and yield. Previous studies indicate that heat stress mainly damages the pollen grains and thus lowered maize grain number. Other field studies have shown that heat stress after pollination results in kernel abortion. However, the mechanism by which high temperature affect grain abortion following pollination remains unclear. Hence, this study investigated the field grown heat-resistant maize variety “Zhengdan 958” (ZD958) and heat-sensitive variety “Xianyu 335” (XY335) under a seven-day heat stress treatment (HT) after pollination. Under HT, the grain numbers of XY335 and ZD958 were reduced by 10.9% (p = 0.006) and 5.3% (p = 0.129), respectively. The RNA sequencing analysis showed a higher number of differentially expressed genes (DEGs) between HT and the control in XY335 compared to ZD958. Ribulose diphosphate carboxylase (RuBPCase) genes were downregulated by heat stress, and RuBPCase activity was significantly lowered by 14.1% (p = 0.020) in XY335 and 5.3% (p = 0.436) in ZD958 in comparison to CK. The soluble sugar and starch contents in the grains of XY335 were obviously reduced by 26.1 and 58.5%, respectively, with no distinct change observed in ZD958. Heat stress also inhibited the synthesis of grain starch, as shown by the low activities of metabolism-related enzymes. Under HT, the expression of trehalose metabolism genes in XY335 were upregulated, and these genes may be involved in kernel abortion at high temperature. In conclusion, this study revealed that post-pollination heat stress in maize mainly resulted in reduced carbohydrate availability for grain development, though the heat-resistant ZD958 was nevertheless able to maintain growth.

scholarly journals Transcriptome Analysis Reveals a Gene Expression Pattern Associated with Fuzz Fiber Initiation Induced by High Temperature in Gossypium barbadense

Genes ◽  
2020 ◽  
Vol 11 (9) ◽  
pp. 1066
Author(s):  
Gongmin Cheng ◽  
Longyan Zhang ◽  
Hengling Wei ◽  
Hantao Wang ◽  
Jianhua Lu ◽  
...  
Keyword(s):  
Gene Expression ◽  
High Temperature ◽  
Candidate Genes ◽  
Transcriptome Analysis ◽  
Expression Patterns ◽  
Gene Expression Pattern ◽  
Gossypium Barbadense ◽  
Fiber Development ◽  
Potential Candidate ◽  
Fiber Initiation

Gossypium barbadense is an important source of natural textile fibers, as is Gossypium hirsutum. Cotton fiber development is often affected by various environmental factors, such as abnormal temperature. However, little is known about the underlying mechanisms of temperature regulating the fuzz fiber initiation. In this study, we reveal that high temperatures (HT) accelerate fiber development, improve fiber quality, and induced fuzz initiation of a thermo-sensitive G. barbadense variety L7009. It was proved that fuzz initiation was inhibited by low temperature (LT), and 4 dpa was the stage most susceptible to temperature stress during the fuzz initiation period. A total of 43,826 differentially expressed genes (DEGs) were identified through comparative transcriptome analysis. Of these, 9667 were involved in fiber development and temperature response with 901 transcription factor genes and 189 genes related to plant hormone signal transduction. Further analysis of gene expression patterns revealed that 240 genes were potentially involved in fuzz initiation induced by high temperature. Functional annotation revealed that the candidate genes related to fuzz initiation were significantly involved in the asparagine biosynthetic process, cell wall biosynthesis, and stress response. The expression trends of sixteen genes randomly selected from the RNA-seq data were almost consistent with the results of qRT-PCR. Our study revealed several potential candidate genes and pathways related to fuzz initiation induced by high temperature. This provides a new view of temperature-induced tissue and organ development in Gossypium barbadense.

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