scholarly journals Single-molecule real-time sequencing of the full-length transcriptome of loquat under low-temperature stress

PLoS ONE ◽  
2020 ◽  
Vol 15 (9) ◽  
pp. e0238942
Author(s):  
Cuiping Pan ◽  
Yongqing Wang ◽  
Lian Tao ◽  
Hui Zhang ◽  
Qunxian Deng ◽  
...  
Keyword(s):  
Low Temperature ◽  
Real Time ◽  
Temperature Stress ◽  
Single Molecule ◽  
Low Temperature Stress ◽  
Full Length

scholarly journals Full-length transcriptome sequencing reveals the low-temperature-tolerance mechanism of Medicago falcata roots

2019 ◽  
Vol 19 (1) ◽  
Author(s):  
Guowen Cui ◽  
Hua Chai ◽  
Hang Yin ◽  
Mei Yang ◽  
Guofu Hu ◽  
...  
Keyword(s):  
Low Temperature ◽  
Temperature Stress ◽  
Electrolyte Leakage ◽  
Temperature Tolerance ◽  
Low Temperature Stress ◽  
Full Length ◽  
Rna Seq ◽  
Smrt Sequencing ◽  
Tolerance Mechanism ◽  
Low Temperature Tolerance

Abstract Background Low temperature is one of the main environmental factors that limits crop growth, development, and production. Medicago falcata is an important leguminous herb that is widely distributed worldwide. M. falcata is related to alfalfa but is more tolerant to low temperature than alfalfa. Understanding the low temperature tolerance mechanism of M. falcata is important for the genetic improvement of alfalfa. Results In this study, we explored the transcriptomic changes in the roots of low-temperature-treated M. falcata plants by combining SMRT sequencing and NGS technologies. A total of 115,153 nonredundant sequences were obtained, and 8849 AS events, 73,149 SSRs, and 4189 lncRNAs were predicted. A total of 111,587 genes from SMRT sequencing were annotated, and 11,369 DEGs involved in plant hormone signal transduction, protein processing in endoplasmic reticulum, carbon metabolism, glycolysis/gluconeogenesis, starch and sucrose metabolism, and endocytosis pathways were identified. We characterized 1538 TF genes into 45 TF gene families, and the most abundant TF family was the WRKY family, followed by the ERF, MYB, bHLH and NAC families. A total of 134 genes, including 101 whose expression was upregulated and 33 whose expression was downregulated, were differentially coexpressed at all five temperature points. PB40804, PB75011, PB110405 and PB108808 were found to play crucial roles in the tolerance of M. falcata to low temperature. WGCNA revealed that the MEbrown module was significantly correlated with low-temperature stress in M. falcata. Electrolyte leakage was correlated with most genetic modules and verified that electrolyte leakage can be used as a direct stress marker in physiological assays to indicate cell membrane damage from low-temperature stress. The consistency between the qRT-PCR results and RNA-seq analyses confirmed the validity of the RNA-seq data and the analysis of the regulatory mechanism of low-temperature stress on the basis of the transcriptome. Conclusions The full-length transcripts generated in this study provide a full characterization of the transcriptome of M. falcata and may be useful for mining new low-temperature stress-related genes specific to M. falcata. These new findings could facilitate the understanding of the low-temperature-tolerance mechanism of M. falcata.

scholarly journals Full-length transcriptome sequencing reveals a low-temperature-tolerance mechanism in Medicago falcata roots

2019 ◽  
Author(s):  
Guowen Cui ◽  
Hua Chai ◽  
Hang Yin ◽  
Mei Yang ◽  
Guofu Hu ◽  
...  
Keyword(s):  
Low Temperature ◽  
Temperature Stress ◽  
Electrolyte Leakage ◽  
Temperature Tolerance ◽  
Low Temperature Stress ◽  
Full Length ◽  
Rna Seq ◽  
Tolerance Mechanism ◽  
Medicago Falcata ◽  
Low Temperature Tolerance

Abstract Background Low temperature is one of the main environmental factors that limits crop growth, development and production. Medicago falcata is an economically and ecologically important legume that is closely related to alfalfa and exhibits better tolerance to low temperature than alfalfa. Understanding the low-temperature-tolerance mechanism of M. falcata is important for the genetic improvement of alfalfa. Results In this study, we explored the transcriptomic changes in low-temperature-treated M. falcata roots by combining SMRT and NGS technologies. A total of 115,153 nonredundant sequences were obtained, and 8,849 AS events, 73,149 SSRs and 4,189 LncRNAs were predicted. A total of 111,587 genes from SMRT were annotated, and 11,369 DEGs were identified in this paper that are involved in plant hormone signal transduction, protein processing in endoplasmic reticulum, carbon metabolism, glycolysis/gluconeogenesis, starch and sucrose metabolism, and endocytosis pathways. We characterized 1,538 TF genes into 45 TF gene families, and the most abundant TF family was WRKY, followed by ERF, MYB, bHLH and NAC. A total of 134 genes were differentially coexpressed at all five temperature points, including 101 upregulated genes and 33 downregulated genes. PB40804, PB75011, PB110405 and PB108808 were found to play crucial roles in the tolerance of M. falcata to low temperature. The WGCNA results showed that the MEbrown module was significantly correlated with low-temperature stress in M. falcata. Electrolyte leakage was correlated with most genetic modules and corroborated that electrolyte leakage can be used as direct stress markers to reflect cell membrane damage from low-temperature stress in physiological assays. The consistency between the qRT-PCR results and RNA-Seq analyses confirm the validity of the RNA-Seq data and the analysis of the regulation of low-temperature stress in the transcriptome. Conclusions The full-length transcripts generated in this study provided a full characterization of the gene transcription of M. falcata and are useful for mining new low-temperature stress-related genes specific to M. falcata. These new findings facilitate the understanding of low-temperature-tolerance mechanisms in M. falcata.

scholarly journals Full-length transcriptome sequencing reveals the low-temperature-tolerance mechanism of Medicago falcata roots

2019 ◽  
Author(s):  
Guowen Cui ◽  
Hua Chai ◽  
Hang Yin ◽  
Mei Yang ◽  
Guofu Hu ◽  
...  
Keyword(s):  
Low Temperature ◽  
Temperature Stress ◽  
Electrolyte Leakage ◽  
Temperature Tolerance ◽  
Low Temperature Stress ◽  
Full Length ◽  
Rna Seq ◽  
Smrt Sequencing ◽  
Tolerance Mechanism ◽  
Low Temperature Tolerance

Abstract Background: Low temperature is one of the main environmental factors that limits crop growth, development, and production. Medicago falcata is an important leguminous herb that is widely distributed worldwide. M. falcata is related to alfalfa but is more tolerant to low temperature than alfalfa. Understanding the low temperature tolerance mechanism of M. falcata is important for the genetic improvement of alfalfa. Results: In this study, we explored the transcriptomic changes in the roots of low-temperature-treated M. falcata plants by combining SMRT sequencing and NGS technologies. A total of 115,153 nonredundant sequences were obtained, and 8,849 AS events, 73,149 SSRs, and 4,189 lncRNAs were predicted. A total of 111,587 genes from SMRT sequencing were annotated, and 11,369 DEGs involved in plant hormone signal transduction, protein processing in endoplasmic reticulum, carbon metabolism, glycolysis/gluconeogenesis, starch and sucrose metabolism, and endocytosis pathways were identified. We characterized 1,538 TF genes into 45 TF gene families, and the most abundant TF family was the WRKY family, followed by the ERF, MYB, bHLH and NAC families. A total of 134 genes, including 101 whose expression was upregulated and 33 whose expression was downregulated, were differentially coexpressed at all five temperature points. PB40804, PB75011, PB110405 and PB108808 were found to play crucial roles in the tolerance of M. falcata to low temperature. WGCNA revealed that the MEbrown module was significantly correlated with low-temperature stress in M. falcata. Electrolyte leakage was correlated with most genetic modules and verified that electrolyte leakage can be used as a direct stress marker in physiological assays to indicate cell membrane damage from low-temperature stress. The consistency between the qRT-PCR results and RNA-seq analyses confirmed the validity of the RNA-seq data and the analysis of the regulatory mechanism of low-temperature stress on the basis of the transcriptome. Conclusions: The full-length transcripts generated in this study provide a full characterization of the transcriptome of M. falcata and may be useful for mining new low-temperature stress-related genes specific to M. falcata. These new findings could facilitate the understanding of the low-temperature-tolerance mechanism of M. falcata.

Effects of low-temperature stress on histone modification in ZF4 cells

2019 ◽  
Vol 26 (2) ◽  
pp. 280
Author(s):  
Penglei JIANG ◽  
Yingdi SHI ◽  
Yanwen HOU ◽  
Bingshe HAN ◽  
Junfang ZHANG
Keyword(s):  
Low Temperature ◽  
Histone Modification ◽  
Temperature Stress ◽  
Low Temperature Stress

Effects of low temperature stress on photosynthesis in potato leaves

2014 ◽  
Vol 39 (1) ◽  
pp. 26-30 ◽  
Author(s):  
Yu-zhi QIN ◽  
Jue CHEN ◽  
Zhen XING ◽  
Chang-zheng HE ◽  
Xing-yao XIONG
Keyword(s):  
Low Temperature ◽  
Temperature Stress ◽  
Low Temperature Stress

scholarly journals Zinc Seed Priming Improves Spinach Germination at Low Temperature

Agriculture ◽  
2021 ◽  
Vol 11 (3) ◽  
pp. 271
Author(s):  
Muhammad Imran ◽  
Asim Mahmood ◽  
Günter Neumann ◽  
Birte Boelt
Keyword(s):  
Low Temperature ◽  
Temperature Stress ◽  
Multispectral Imaging ◽  
Germination Rate ◽  
Cost Effective ◽  
Seed Priming ◽  
Seedling Development ◽  
Low Temperature Stress ◽  
Early Seedling ◽  
Early Seedling Development

Low temperature during germination hinders germination speed and early seedling development. Zn seed priming is a useful and cost-effective tool to improve germination rate and resistance to low temperature stress during germination and early seedling development. Spinach was tested to improve germination and seedling development with Zn seed priming under low temperature stress conditions. Zn priming increased seed Zn concentration up to 48 times. The multispectral imaging technique with VideometerLab was used as a non-destructive method to differentiate unprimed, water- and Zn-primed spinach seeds successfully. Localization of Zn in the seeds was studied using the 1,5-diphenyl thiocarbazone (DTZ) dying technique. Active translocation of primed Zn in the roots of young seedlings was detected with laser confocal microscopy. Zn priming of spinach seeds at 6 mM Zn showed a significant increase in germination rate and total germination under low temperature at 8 °C.

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