scholarly journals Comparative Transcriptome Analysis Reveals Potential Gene Modules Associated with Cold Tolerance in Sugarcane (Saccharum officinarum L.)

2021 ◽  
Author(s):  
Xing Huang ◽  
Yongsheng Liang ◽  
Baoqing Zhang ◽  
Xiupeng Song ◽  
Yangrui Li ◽  
...  
Keyword(s):  
Cold Stress ◽  
Cold Tolerance ◽  
Cold Resistance ◽  
Soluble Sugar ◽  
Resistance Mechanism ◽  
Saccharum Officinarum ◽  
Calcium Signal ◽  
Protein Kinase Activity ◽  
Comparative Transcriptome ◽  
Climate Conditions

AbstractSugarcane is an important crop worldwide, and most sugar is derived directly from sugarcane. Due to its thermophilic nature, the yield of sugarcane is largely influenced by extreme climate conditions, especially cold stress. Therefore, the development of sugarcane with improved cold tolerance is an important goal. However, little is known about the multiple mechanisms underlying cold acclimation at the bud stage in sugarcane. In this study, we emphasized that sensitivity to cold stress was higher for the sugarcane variety ROC22 than for GT42, as determined by physical signs, including bud growth capacity, relative conductivity, malonaldehyde contents, and soluble sugar contents. To understand the factors contributing to the difference in cold tolerance between ROC22 and GT42, comparative transcriptome analyses were performed. We found that genes involved in the regulation of the stability of the membrane system were the relative determinants of difference in cold tolerance. Additionally, genes related to protein kinase activity, starch metabolism, and calcium signal transduction were associated with cold tolerance. Finally, 25 candidate genes, including 23 variety-specific and 2 common genes, and 7 transcription factors were screened out for understanding the possible cold resistance mechanism. The findings of this study provide candidate gene resources for cold resistance and will improve our understanding of the regulation of cold tolerance at the bud stage in sugarcane.

scholarly journals Transcriptome Analysis to Elucidate the Enhanced Cold Resistance of Phoebe zhennan Pretreated with Exogenous Calcium

2021 ◽  
Vol 25 (01) ◽  
pp. 151-159
Author(s):  
Bo Deng,
Keyword(s):  
Cold Stress ◽  
Cold Resistance ◽  
Abiotic Factors ◽  
Soluble Sugar ◽  
Resistance Mechanism ◽  
Enrichment Analysis ◽  
Calcium Dependent ◽  
Timber Tree ◽  
Phoebe Zhennan ◽  
Relative Electrical Conductivity

Phoebe zhennan is a high-quality timber tree species, and cold stress is one of the most remarkable abiotic factors limiting its growth and development. In this study, effects of exogenous CaCl2 on cold resistance of P. Zhennan were surveyed. CaCl2-pretreatment increased the levels of abscisic acid, peroxidase, catalase, proline, and soluble sugar, while decreased the levels of malondialdehyde and relative electrical conductivity. In addition, RNA-sequencing was used to investigate global transcriptome responses to cold stress. A total of 4245 differentially expressed genes were identified, including 477 up-regulated and 3768 down-regulated. The Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis indicated that these DEGs were associated to the plant-pathogen interaction pathway, in which calcium-dependent protein kinase (CDPK) play key role for improving the cold resistance of P. zhennan. Our results can be useful to understand the Ca2+-mediated cold resistance mechanism for improving cold stress tolerance in P. Zhennan seedlings. © 2021 Friends Science Publishers

scholarly journals Comparative Transcriptomics for Pepper (Capsicum annuum L.) under Cold Stress and after Rewarming

2021 ◽  
Vol 11 (21) ◽  
pp. 10204
Author(s):  
Wu Miao ◽  
Jingshuang Song ◽  
Yanwu Huang ◽  
Rongyun Liu ◽  
Gaofeng Zou ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Cold Stress ◽  
Cold Tolerance ◽  
Inbred Line ◽  
Soluble Sugar ◽  
Cold Treatment ◽  
Nac Transcription Factors ◽  
Physiological Indicators ◽  
Damage Repair ◽  
Cytochrome P450 Family

Cold stress has become one of the main abiotic stresses in pepper, which severely limits the growth and development of pepper. In this study, the physiological indicators and transcriptome of a cold-tolerance (CT) inbred line A188 and a cold-sensitive (CS) inbred line A122 under cold–rewarm treatments were studied; the aim of this study was to determine the potential of the key factors in pepper response to cold stress. Compared with CT, CS wilts more seriously after cold stress, with poor resilience, higher content of malondialdehyde, and lower content of soluble sugar and total chlorophyll. Moreover, during cold treatment, 7333 and 5953 differentially expressed genes (DEGs) were observed for CT and CS, respectively. These DEGs were significantly enriched in pathways related to photosynthesis, plant hormone signal transduction, and DNA damage repair. Interestingly, in addition to the widely studied transcription factors related to cold, it was also found that 13 NAC transcription factors increased significantly in the T4 group; meanwhile, the NAC8 (Capana02g003557) and NAC72 (Capana07g002219) in CT were significantly higher than those in CS under rewarming for 1 h after 72 h cold treatment. Notably, weighted gene coexpression network analysis identified four positively correlated modules and eight hub genes, including zinc finger proteins, heat shock 70 kda protein, and cytochrome P450 family, which are related to cold tolerance. All of these pathways and genes may be responsible for the response to cold and even the cold tolerance in pepper.

scholarly journals Physiological Responses and Proteomic Analysis on the Cold Stress Responses of Annual Pitaya (Hylocereus spp.) Branches

2021 ◽  
Vol 2021 ◽  
pp. 1-12
Author(s):  
Junliang Zhou ◽  
Lijuan Wang ◽  
Tujian Xiao ◽  
Zhuang Wang ◽  
Yongya Mao ◽  
...  
Keyword(s):  
Cold Stress ◽  
Stress Responses ◽  
Molecular Mechanisms ◽  
Cold Resistance ◽  
Physiological Responses ◽  
Soluble Sugar ◽  
Multivariate Statistical ◽  
Chlorophyll Contents ◽  
Proteomic Approach ◽  
Related Proteins

In this study, the physiological response of the annual branches of three varieties of pitaya (Xianmi, Fulong, and Zihonglong) in cold stress was investigated using a multivariate statistical method. Physiological change results showed that cold stress could decrease the moisture and chlorophyll contents, on the contrary, increase the relative electric conductivity, the contents of malonadehyde, soluble protein, soluble sugar, and free proline, and enhance the enzyme activities of peroxidase, superoxide dismutase, and catalase. Meanwhile, a comparative proteomic approach was also conducted to clarify the cold resistance-related proteins and pathways in annual pitaya branches. Proteomics results concluded that the cold tolerance of annual pitaya branches could be improved by modulating autophagy. Therefore, we hypothesized that an increased autophagy ability may be an important characteristic of the annual pitaya branches in response to cold stress conditions. Our results provide a good understanding of the physiological responses and molecular mechanisms of the annual pitaya branches in response to cold stress.

scholarly journals Comparative Transcriptome-Based Mining and Expression Profiling of Transcription Factors Related to Cold Tolerance in Peanut

2020 ◽  
Vol 21 (6) ◽  
pp. 1921 ◽  
Author(s):  
Chunji Jiang ◽  
He Zhang ◽  
Jingyao Ren ◽  
Jiale Dong ◽  
Xinhua Zhao ◽  
...  
Keyword(s):  
Cold Stress ◽  
Cold Tolerance ◽  
Expression Profiling ◽  
Gene Networks ◽  
Functional Enrichment ◽  
Differentially Expressed ◽  
Regulation Of Transcription ◽  
Evolutionary Analysis ◽  
Comparative Transcriptome ◽  
Cold Tolerant

Plants tolerate cold stress by regulating gene networks controlling cellular and physiological traits to modify growth and development. Transcription factor (TF)-directed regulation of transcription within these gene networks is key to eliciting appropriate responses. Identifying TFs related to cold tolerance contributes to cold-tolerant crop breeding. In this study, a comparative transcriptome analysis was carried out to investigate global gene expression of entire TFs in two peanut varieties with different cold-tolerant abilities. A total of 87 TF families including 2328 TF genes were identified. Among them, 445 TF genes were significantly differentially expressed in two peanut varieties under cold stress. The TF families represented by the largest numbers of differentially expressed members were bHLH (basic helix—loop—helix protein), C2H2 (Cys2/His2 zinc finger protein), ERF (ethylene-responsive factor), MYB (v-myb avian myeloblastosis viral oncogene homolog), NAC (NAM, ATAF1/2, CUC2) and WRKY TFs. Phylogenetic evolutionary analysis, temporal expression profiling, protein–protein interaction (PPI) network, and functional enrichment of differentially expressed TFs revealed the importance of plant hormone signal transduction and plant-pathogen interaction pathways and their possible mechanism in peanut cold tolerance. This study contributes to a better understanding of the complex mechanism of TFs in response to cold stress in peanut and provides valuable resources for the investigation of evolutionary history and biological functions of peanut TFs genes involved in cold tolerance.

scholarly journals Foliar Application of Polyamines Modulates Winter Oilseed Rape Responses to Increasing Cold

Plants ◽  
2020 ◽  
Vol 9 (2) ◽  
pp. 179 ◽  
Author(s):  
Elžbieta Jankovska-Bortkevič ◽  
Virgilija Gavelienė ◽  
Vaidevutis Šveikauskas ◽  
Rima Mockevičiūtė ◽  
Jurga Jankauskienė ◽  
...  
Keyword(s):  
Cold Stress ◽  
Cold Tolerance ◽  
Oilseed Rape ◽  
Cold Resistance ◽  
Foliar Application ◽  
Negative Impact ◽  
Winter Oilseed Rape ◽  
Physiological Processes ◽  
Ethylene Emission ◽  
Stimulation Of

Cold stress is one of the most common abiotic stresses experienced by plants and is caused by low temperature extremes and variations. Polyamines (PAs) have been reported to contribute in abiotic stress defense processes in plants. The present study investigates the survival and responses of PA-treated non-acclimated (N) and acclimated (A) winter oilseed rape to increasing cold conditions. The study was conducted under controlled conditions. Seedlings were foliarly sprayed with spermidine (Spd), spermine (Spm), and putrescine (Put) solutions (1 mM) and exposed to four days of cold acclimation (4 °C) and two days of increasing cold (from −1 to −3 °C). Two cultivars with different cold tolerance were used in this study. The recorded traits included the percentage of survival, H+-ATPase activity, proline accumulation, and ethylene emission. Exogenous PA application improved cold resistance, maintained the activity of plasma membrane H+-ATPase, increased content of free proline, and delayed stimulation of ethylene emission under increasing cold. The results of the current study on winter oilseed rape revealed that foliar application of PAs may activate a defensive response (act as elicitor to trigger physiological processes), which may compensate the negative impact of cold stress. Thus, cold tolerance of winter oilseed rape can be enhanced by PA treatment.

scholarly journals Comparative Study on Cold Resistance Physiology of Red Pulp Pitaya and White Pulp Pitaya

2019 ◽  
Vol 131 ◽  
pp. 01113
Author(s):  
Yan Gong ◽  
Xiaoyi Bi ◽  
Lijun Deng ◽  
Juan Hu ◽  
Shan Jiang ◽  
...  
Keyword(s):  
Cold Stress ◽  
Room Temperature ◽  
Cold Resistance ◽  
Sugar Content ◽  
Soluble Sugar ◽  
White Pulp ◽  
White Crystal ◽  
Soluble Protein Content ◽  
Malondialdehyde Content ◽  
Red Pulp

The red pulp pitaya variety ’Taiwan No. 2’ and the white pulp pitaya variety ’white crystal’ were used as experimental materials, which were cold stressed at low temperature of 3 °C for 48h, 96h, and recovering at room temperature after 96h cold stress for control. The relative conductivity (REC), malondialdehyde content (MDA), soluble sugar content (SS), soluble protein content (SP), free proline content (Pro), activity of superoxide dismutase (SOD), and catalase (CAT) were determined and the cold resistance were analyzed. The results showed that, after cold stress, the SP, Pro content and SOD and CAT activities of ’White Crystal’ pitaya were higher than that of ’Taiwan No. 2’ pitaya. It showed that the cold resistance of ’White Crystal’ white pulp pitaya was stronger than that of ’Taiwan No. 2’ red pulp pitaya.

scholarly journals Integrated Transcriptomics and Metabolomics Analysis Reveal Key Metabolism Pathways Contributing to Cold Tolerance in Peanut

2021 ◽  
Vol 12 ◽  
Author(s):  
Xin Wang ◽  
Yue Liu ◽  
Zhongkui Han ◽  
Yuning Chen ◽  
Dongxin Huai ◽  
...  
Keyword(s):  
Low Temperature ◽  
Cold Tolerance ◽  
Gene Networks ◽  
Cold Resistance ◽  
Chilling Stress ◽  
Soluble Sugar ◽  
Growth Yield ◽  
Limiting Factors ◽  
Accumulation Pattern ◽  
Cold Tolerant

Low temperature (non-freezing) is one of the major limiting factors in peanut (Arachis hypogaea L.) growth, yield, and geographic distribution. Due to the complexity of cold-resistance trait in peanut, the molecular mechanism of cold tolerance and related gene networks were largely unknown. In this study, metabolomic analysis of two peanut cultivars subjected to chilling stress obtained a set of cold-responsive metabolites, including several carbohydrates and polyamines. These substances showed a higher accumulation pattern in cold-tolerant variety SLH than cold-susceptible variety ZH12 under cold stress, indicating their importance in protecting peanut from chilling injuries. In addition, 3,620 cold tolerance genes (CTGs) were identified by transcriptome sequencing, and the CTGs were most significantly enriched in the “phenylpropanoid biosynthesis” pathway. Two vital modules and several novel hub genes were obtained by weighted gene co-expression network analysis (WGCNA). Several key genes involved in soluble sugar, polyamine, and G-lignin biosynthetic pathways were substantially higher and/or responded more quickly in SLH (cold tolerant) than ZH12 (cold susceptible) under low temperature, suggesting they might be crucial contributors during the adaptation of peanut to low temperature. These findings will not only provide valuable resources for study of cold resistance in peanut but also lay a foundation for genetic modification of cold regulators to enhance stress tolerance in crops.

scholarly journals MaMAPK3-MaICE1-MaPOD P7 pathway, a positive regulator of cold tolerance in banana

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Jie Gao ◽  
Tongxin Dou ◽  
Weidi He ◽  
Ou Sheng ◽  
Fangcheng Bi ◽  
...  
Keyword(s):  
Transgenic Plants ◽  
Cold Tolerance ◽  
Molecular Breeding ◽  
Cold Resistance ◽  
Oxidoreductase Activity ◽  
Tropical Fruit ◽  
Over Expression ◽  
Cavendish Banana ◽  
Cold Tolerant ◽  
Necrotic Symptoms

Abstract Background Banana is a tropical fruit with a high economic impact worldwide. Cold stress greatly affects the development and production of banana. Results In the present study, we investigated the functions of MaMAPK3 and MaICE1 involved in cold tolerance of banana. The effect of RNAi of MaMAPK3 on Dajiao (Musa spp. ‘Dajiao’; ABB Group) cold tolerance was evaluated. The leaves of the MaMAPK3 RNAi transgenic plants showed wilting and severe necrotic symptoms, while the wide-type (WT) plants remained normal after cold exposure. RNAi of MaMAPK3 significantly changed the expressions of the cold-responsive genes, and the oxidoreductase activity was significantly changed in WT plants, while no changes in transgenic plants were observed. MaICE1 interacted with MaMAPK3, and the expression level of MaICE1 was significantly decreased in MaMAPK3 RNAi transgenic plants. Over-expression of MaICE1 in Cavendish banana (Musa spp. AAA group) indicated that the cold resistance of transgenic plants was superior to that of the WT plants. The POD P7 gene was significantly up-regulated in MaICE1-overexpressing transgenic plants compared with WT plants, and the POD P7 was proved to interact with MaICE1. Conclusions Taken together, our work provided new and solid evidence that MaMAPK3-MaICE1-MaPOD P7 pathway positively improved the cold tolerance in monocotyledon banana, shedding light on molecular breeding for the cold-tolerant banana or other agricultural species.

scholarly journals Combining QTL-seq and linkage mapping to fine map a candidate gene in qCTS6 for cold tolerance at the seedling stage in rice

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Luomiao Yang ◽  
Jingguo Wang ◽  
Zhenghong Han ◽  
Lei Lei ◽  
Hua Long Liu ◽  
...  
Keyword(s):  
Cold Stress ◽  
Cold Tolerance ◽  
Regulatory Gene ◽  
Snp Markers ◽  
Seedling Stage ◽  
Pcr Analysis ◽  
Sequencing Data ◽  
Coding Region ◽  
Rice Varieties ◽  
Major Qtl

Abstract Background Cold stress caused by low temperatures is an important factor restricting rice production. Identification of cold-tolerance genes that can stably express in cold environments is crucial for molecular rice breeding. Results In this study, we employed high-throughput quantitative trait locus sequencing (QTL-seq) analyses in a 460-individual F2:3 mapping population to identify major QTL genomic regions governing cold tolerance at the seedling stage in rice. A novel major QTL (qCTS6) controlling the survival rate (SR) under low-temperature conditions of 9°C/10 days was mapped on the 2.60-Mb interval on chromosome 6. Twenty-seven single-nucleotide polymorphism (SNP) markers were designed for the qCST6 region based on re-sequencing data, and local QTL mapping was conducted using traditional linkage analysis. Eventually, we mapped qCTS6 to a 96.6-kb region containing 13 annotated genes, of which seven predicted genes contained 13 non-synonymous SNP loci. Quantitative reverse transcription PCR analysis revealed that only Os06g0719500, an OsbZIP54 transcription factor, was strongly induced by cold stress. Haplotype analysis confirmed that +376 bp (T>A) in the OsbZIP54 coding region played a key role in regulating cold tolerance in rice. Conclusion We identified OsbZIP54 as a novel regulatory gene associated with rice cold-responsive traits, with its Dongfu-104 allele showing specific cold-induction expression serving as an important molecular variation for rice improvement. This result is expected to further exploration of the genetic mechanism of rice cold tolerance at the seedling stage and improve cold tolerance in rice varieties by marker-assisted selection.

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