scholarly journals Mulberry EIL3 confers salt and drought tolerances and modulates ethylene biosynthetic gene expression

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6391 ◽  
Author(s):  
Changying Liu ◽  
Jun Li ◽  
Panpan Zhu ◽  
Jian Yu ◽  
Jiamin Hou ◽  
...  
Keyword(s):  
Stress Responses ◽  
Abiotic Stresses ◽  
Woody Plant ◽  
Pcr Analysis ◽  
Biosynthetic Gene ◽  
Quantitative Real Time Pcr ◽  
Biosynthetic Genes ◽  
Gene Encoding ◽  
Salt And Drought Stresses ◽  
Plant Abiotic Stress

Ethylene regulates plant abiotic stress responses and tolerances, and ethylene-insensitive3 (EIN3)/EIN3-like (EIL) proteins are the key components of ethylene signal transduction. Although the functions of EIN3/EIL proteins in response to abiotic stresses have been investigated in model plants, little is known in non-model plants, including mulberry (Morus L.), which is an economically important perennial woody plant. We functionally characterized a gene encoding an EIN3-like protein from mulberry, designated as MnEIL3. A quantitative real-time PCR analysis demonstrated that the expression of MnEIL3 could be induced in roots and shoot by salt and drought stresses. Arabidopsis overexpressing MnEIL3 exhibited an enhanced tolerance to salt and drought stresses. MnEIL3 overexpression in Arabidopsis significantly upregulated the transcript abundances of ethylene biosynthetic genes. Furthermore, MnEIL3 enhanced the activities of the MnACO1 and MnACS1 promoters, which respond to salt and drought stresses. Thus, MnEIL3 may play important roles in tolerance to abiotic stresses and the expression of ethylene biosynthetic genes.

scholarly journals Genome-Wide Characterization and Identification of Trihelix Transcription Factor and Expression Profiling in Response to Abiotic Stresses in Rice (Oryza sativa L.)

2019 ◽  
Vol 20 (2) ◽  
pp. 251 ◽  
Author(s):  
Jiaming Li ◽  
Minghui Zhang ◽  
Jian Sun ◽  
Xinrui Mao ◽  
Jing Wang ◽  
...  
Keyword(s):  
Hydrogen Peroxide ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Developmental Stages ◽  
Oryza Sativa L ◽  
Expression Patterns ◽  
Rice Genome ◽  
High Salt ◽  
Pcr Analysis ◽  
Signal Molecule

Trihelix transcription factors play a role in plant growth, development and various stress responses. Here, we identified 41 trihelix family genes in the rice genome. These OsMSLs (Myb/SANT-LIKE) were located on twelve chromosomes. Synteny analysis indicated only six duplicated gene pairs in the rice trihelix family. Phylogenetic analysis of these OsMSLs and the trihelix genes from other species divided them into five clusters. OsMSLs from different groups significantly diverged in terms of gene structure and conserved functional domains. However, all OsMSLs contained the same five cis-elements. Some of these were responsive to light and dehydration stress. All OsMSLs expressed in four tissues and six developmental stages of rice but with different expression patterns. Quantitative real-time PCR analysis revealed that the OsMSLs responded to abiotic stresses including drought and high salt stress and stress signal molecule including ABA (abscisic acid), hydrogen peroxide. OsMSL39 were simultaneously expressed under all treatments, while OsMSL28 showed high expression under hydrogen peroxide, drought, and high salt treatments. Moreover, OsMSL16/27/33 displayed significant expression under ABA and drought treatments. Nevertheless, their responses were regulated by light. The expression levels of the 12 chosen OsMSLs differed between light and dark conditions. In conclusion, our results helped elucidate the biological functions of rice trihelix genes and provided a theoretical basis for further characterizing their biological roles in responding to abiotic stresses.

scholarly journals Conserved miR396b-GRF Regulation Is Involved in Abiotic Stress Responses in Pitaya (Hylocereus polyrhizus)

2019 ◽  
Vol 20 (10) ◽  
pp. 2501 ◽  
Author(s):  
A-Li Li ◽  
Zhuang Wen ◽  
Kun Yang ◽  
Xiao-Peng Wen
Keyword(s):  
Abiotic Stress ◽  
Drought Stress ◽  
Binding Site ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Molecular Mechanisms ◽  
Evolutionary Relationship ◽  
Pcr Analysis ◽  
Sequencing Analysis ◽  
Hylocereus Polyrhizus

MicroRNA396 (miR396) is a conserved microRNA family that targets growth-regulating factors (GRFs), which play significant roles in plant growth and stress responses. Available evidence justifies the idea that miR396-targeted GRFs have important functions in many plant species; however, no genome-wide analysis of the pitaya (Hylocereus polyrhizus) miR396 gene has yet been reported. Further, its biological functions remain elusive. To uncover the regulatory roles of miR396 and its targets, the hairpin sequence of pitaya miR396b and the open reading frame (ORF) of its target, HpGRF6, were isolated from pitaya. Phylogenetic analysis showed that the precursor miR396b (MIR396b) gene of plants might be clustered into three major groups, and, generally, a more recent evolutionary relationship in the intra-family has been demonstrated. The sequence analysis indicated that the binding site of hpo-miR396b in HpGRF6 is located at the conserved motif which codes the conserved “RSRKPVE” amino acid in the Trp–Arg–Cys (WRC) region. In addition, degradome sequencing analysis confirmed that four GRFs (GRF1, c56908.graph_c0; GRF4, c52862.graph_c0; GRF6, c39378.graph_c0 and GRF9, c54658.graph_c0) are hpo-miR396b targets that are regulated by specific cleavage at the binding site between the 10th and 11th nucleotides from the 5′ terminus of hpo-miR396b. Furthermore, quantitative real-time polymerase chain reaction (qRT-PCR) analysis showed that hpo-miR396b is down-regulated when confronted with drought stress (15% polyethylene glycol, PEG), and its expression fluctuates under other abiotic stresses, i.e., low temperature (4 ± 1 °C), high temperature (42 ± 1 °C), NaCl (100 mM), and abscisic acid (ABA; 0.38 mM). Conversely, the expression of HpGRF6 showed the opposite trend to exposure to these abiotic stresses. Taken together, hpo-miR396b plays a regulatory role in the control of HpGRF6, which might influence the abiotic stress response of pitaya. This is the first documentation of this role in pitaya and improves the understanding of the molecular mechanisms underlying the tolerance to drought stress in this fruit.

scholarly journals Identification and evaluation of reference genes for quantitative real-time PCR analysis in Polygonum cuspidatum based on transcriptome data

2019 ◽  
Vol 19 (1) ◽  
Author(s):  
Xiaowei Wang ◽  
Zhijun Wu ◽  
Wenqi Bao ◽  
Hongyan Hu ◽  
Mo Chen ◽  
...  
Keyword(s):  
Gene Expression ◽  
Real Time ◽  
Stress Responses ◽  
Real Time Pcr ◽  
Abiotic Stresses ◽  
Reference Genes ◽  
Expression Patterns ◽  
Polygonum Cuspidatum ◽  
Quantitative Real Time Pcr ◽  
Different Tissues

Abstract Background Polygonum cuspidatum of the Polygonaceae family is a traditional medicinal plant with many bioactive compounds that play important roles in human health and stress responses. Research has attempted to identify biosynthesis genes and metabolic pathways in this species, and quantitative real-time PCR (RT-qPCR) has commonly been used to detect gene expression because of its speed, sensitivity, and specificity. However, no P. cuspidatum reference genes have been identified, which hinders gene expression studies. Here, we aimed to identify suitable reference genes for accurate and reliable normalization of P. cuspidatum RT-qPCR data. Results Twelve candidate reference genes, including nine common (ACT, TUA, TUB, GAPDH, EF-1γ, UBQ, UBC, 60SrRNA, and eIF6A) and three novel (SKD1, YLS8, and NDUFA13), were analyzed in different tissues (root, stem, and leaf) without treatment and in leaves under abiotic stresses (salt, ultraviolet [UV], cold, heat, and drought) and hormone stimuli (abscisic acid [ABA], ethylene [ETH], gibberellin [GA3], methyl jasmonate [MeJA], and salicylic acid [SA]). Expression stability in 65 samples was calculated using the △CT method, geNorm, NormFinder, BestKeeper, and RefFinder. Two reference genes (NDUFA13 and EF-1γ) were sufficient to normalize gene expression across all sample sets. They were also the two most stable genes for abiotic stresses and different tissues, whereas NDUFA13 and SKD1 were the top two choices for hormone stimuli. Considering individual experimental sets, GAPDH was the top-ranked gene under ABA, ETH, and GA3 treatments, while 60SrRNA showed good stability under MeJA and cold treatments. ACT, UBC, and TUB were suitable genes for drought, UV, and ABA treatments, respectively. TUA was not suitable because of its considerable variation in expression under different conditions. The expression patterns of PcPAL, PcSTS, and PcMYB4 under UV and SA treatments and in different tissues normalized by stable and unstable reference genes demonstrated the suitability of the optimal reference genes. Conclusions We propose NDUFA13 and EF-1γ as reference genes to normalize P. cuspidatum expression data. To our knowledge, this is the first systematic study of reference genes in P. cuspidatum which could help advance molecular biology research in P. cuspidatum and allied species.

scholarly journals Long non-coding RNAs: emerging players regulating plant abiotic stress response and adaptation

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Uday Chand Jha ◽  
Harsh Nayyar ◽  
Rintu Jha ◽  
Muhammad Khurshid ◽  
Meiliang Zhou ◽  
...  
Keyword(s):  
Heavy Metal ◽  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Metal Toxicity ◽  
Molecular Mechanisms ◽  
Abiotic Stress Response ◽  
Non Coding Rnas ◽  
Plant Abiotic Stress

Abstract Background The immobile nature of plants means that they can be frequently confronted by various biotic and abiotic stresses during their lifecycle. Among the various abiotic stresses, water stress, temperature extremities, salinity, and heavy metal toxicity are the major abiotic stresses challenging overall plant growth. Plants have evolved complex molecular mechanisms to adapt under the given abiotic stresses. Long non-coding RNAs (lncRNAs)—a diverse class of RNAs that contain > 200 nucleotides(nt)—play an essential role in plant adaptation to various abiotic stresses. Results LncRNAs play a significant role as ‘biological regulators’ for various developmental processes and biotic and abiotic stress responses in animals and plants at the transcription, post-transcription, and epigenetic level, targeting various stress-responsive mRNAs, regulatory gene(s) encoding transcription factors, and numerous microRNAs (miRNAs) that regulate the expression of different genes. However, the mechanistic role of lncRNAs at the molecular level, and possible target gene(s) contributing to plant abiotic stress response and adaptation, remain largely unknown. Here, we review various types of lncRNAs found in different plant species, with a focus on understanding the complex molecular mechanisms that contribute to abiotic stress tolerance in plants. We start by discussing the biogenesis, type and function, phylogenetic relationships, and sequence conservation of lncRNAs. Next, we review the role of lncRNAs controlling various abiotic stresses, including drought, heat, cold, heavy metal toxicity, and nutrient deficiency, with relevant examples from various plant species. Lastly, we briefly discuss the various lncRNA databases and the role of bioinformatics for predicting the structural and functional annotation of novel lncRNAs. Conclusions Understanding the intricate molecular mechanisms of stress-responsive lncRNAs is in its infancy. The availability of a comprehensive atlas of lncRNAs across whole genomes in crop plants, coupled with a comprehensive understanding of the complex molecular mechanisms that regulate various abiotic stress responses, will enable us to use lncRNAs as potential biomarkers for tailoring abiotic stress-tolerant plants in the future.

scholarly journals Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era

Plants ◽  
2020 ◽  
Vol 9 (5) ◽  
pp. 591
Author(s):  
Luca Ambrosino ◽  
Chiara Colantuono ◽  
Gianfranco Diretto ◽  
Alessia Fiore ◽  
Maria Luisa Chiusano
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Climate Changes ◽  
State Of The Art ◽  
Limiting Factors ◽  
Abiotic Stress Response ◽  
Data Production ◽  
Molecular Aspects ◽  
Plant Abiotic Stress

Abiotic stresses are among the principal limiting factors for productivity in agriculture. In the current era of continuous climate changes, the understanding of the molecular aspects involved in abiotic stress response in plants is a priority. The rise of -omics approaches provides key strategies to promote effective research in the field, facilitating the investigations from reference models to an increasing number of species, tolerant and sensitive genotypes. Integrated multilevel approaches, based on molecular investigations at genomics, transcriptomics, proteomics and metabolomics levels, are now feasible, expanding the opportunities to clarify key molecular aspects involved in responses to abiotic stresses. To this aim, bioinformatics has become fundamental for data production, mining and integration, and necessary for extracting valuable information and for comparative efforts, paving the way to the modeling of the involved processes. We provide here an overview of bioinformatics resources for research on plant abiotic stresses, describing collections from -omics efforts in the field, ranging from raw data to complete databases or platforms, highlighting opportunities and still open challenges in abiotic stress research based on -omics technologies.

scholarly journals Genome-Wide Characterization and Abiotic Stresses Expression Analysis of Annexin Family Genes in Poplar

2022 ◽  
Vol 23 (1) ◽  
pp. 515
Author(s):  
Hui Wei ◽  
Ali Movahedi ◽  
Guoyuan Liu ◽  
Yixin Li ◽  
Shiwei Liu ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Growth And Development ◽  
Woody Plant ◽  
Calcium Dependent ◽  
Genome Wide ◽  
Duplication Events ◽  
Gene Structures ◽  
Similar Gene

Poplar is an illustrious industrial woody plant with rapid growth, providing a range of materials, and having simple post-treatment. Various kinds of environmental stresses limit its output. Plant annexin (ANN) is a calcium-dependent phospholipid-binding protein involved in plant metabolism, growth and development, and cooperatively regulating drought resistance, salt tolerance, and various stress responses. However, the features of the PtANN gene family and different stress responses remain unknown in poplar. This study identified 12 PtANN genes in the P. trichocarpa whole-genome and PtANNs divided into three subfamilies based on the phylogenetic tree. The PtANNs clustered into the same clade shared similar gene structures and conserved motifs. The 12 PtANN genes were located in ten chromosomes, and segmental duplication events were illustrated as the main duplication method. Additionally, the PtANN4 homogenous with AtANN1 was detected localized in the cytoplasm and plasma membrane. In addition, expression levels of PtANNs were induced by multiple abiotic stresses, which indicated that PtANNs could widely participate in response to abiotic stress. These results revealed the molecular evolution of PtANNs and their profiles in response to abiotic stress.

scholarly journals The Soybean bZIP Transcription Factor Gene GmbZIP2 Confers Drought and Salt Resistances in Transgenic Plants

2020 ◽  
Vol 21 (2) ◽  
pp. 670 ◽  
Author(s):  
Yan Yang ◽  
Tai-Fei Yu ◽  
Jian Ma ◽  
Jun Chen ◽  
Yong-Bin Zhou ◽  
...  
Keyword(s):  
Plant Growth ◽  
Hairy Roots ◽  
Plant Resistance ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
De Novo ◽  
Crop Productivity ◽  
Bzip Transcription Factor ◽  
Pcr Analysis ◽  
Qrt Pcr

Abiotic stresses, such as drought and salt, are major environmental stresses, affecting plant growth and crop productivity. Plant bZIP transcription factors (bZIPs) confer stress resistances in harsh environments and play important roles in each phase of plant growth processes. In this research, 15 soybean bZIP family members were identified from drought-induced de novo transcriptomic sequences of soybean, which were unevenly distributed across 12 soybean chromosomes. Promoter analysis showed that these 15 genes were rich in ABRE, MYB and MYC cis-acting elements which were reported to be involved in abiotic stress responses. Quantitative real-time polymerase chain reaction (qRT-PCR) analysis indicated that 15 GmbZIP genes could be induced by drought and salt stress. GmbZIP2 was significantly upregulated under stress conditions and thus was selected for further study. Subcellular localization analysis revealed that the GmbZIP2 protein was located in the cell nucleus. qRT-PCR results show that GmbZIP2 can be induced by multiple stresses. The overexpression of GmbZIP2 in Arabidopsis and soybean hairy roots could improve plant resistance to drought and salt stresses. The result of differential expression gene analysis shows that the overexpression of GmbZIP2 in soybean hairy roots could enhance the expression of the stress responsive genes GmMYB48, GmWD40, GmDHN15, GmGST1 and GmLEA. These results indicate that soybean bZIPs played pivotal roles in plant resistance to abiotic stresses.

Functional activation of a novel R2R3-MYB protein gene, GmMYB68, confers salt-alkali resistance in soybean (Glycine max L.)

Genome ◽  
2020 ◽  
Vol 63 (1) ◽  
pp. 13-26 ◽  
Author(s):  
Yuxuan He ◽  
Yingshan Dong ◽  
Xiangdong Yang ◽  
Dongquan Guo ◽  
Xueyan Qian ◽  
...  
Keyword(s):  
Glycine Max ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Alkali Resistance ◽  
Myb Transcription Factor ◽  
Pcr Analysis ◽  
Predicted Amino Acid Sequence ◽  
Wild Type ◽  
Glycine Max L ◽  
R2r3 Myb

Soil salinity significantly reduces soybean (Glycine max L.) production worldwide. Plants resistance to stress conditions is a complex characteristic regulated by multiple signaling pathways. The v-Myb avian myeloblastosis viral oncogene homolog (MYB) transcription factor (TF) plays a crucial role in plant development, secondary metabolism, and abiotic stress responses. GmMYB68-overexpression and RNA interference (RNAi) lines were established for examining the function of G. max GmMYB68 in plant responses to abiotic stresses. The predicted amino acid sequence of GmMYB68 was similar to that of R2R3-MYB proteins. Quantitative real-time PCR analysis revealed that GmMYB68 expression varied in response to abiotic stresses. GmMYB68-overexpression lines showed enhanced resistance to salt and alkali stresses and their osmotic adjustment and photosynthetic rates were also stronger than that of GmMYB68-RNAi and wild type plants. Although wild type and transgenic plants showed no significant differences in agronomic traits under normal conditions, the overexpression of GmMYB68 increased grain number and 100-grain weights under salt stress. Our study identified a valuable TF associated with stress response in soybean, as its overexpression might help improve salt and alkali tolerance in soybean and other crops.

scholarly journals Genome-Wide Characterization, Evolution, and Expression Profiling of VQ Gene Family in Response to Phytohormone Treatments and Abiotic Stress in Eucalyptus grandis

2019 ◽  
Vol 20 (7) ◽  
pp. 1765 ◽  
Author(s):  
Huifang Yan ◽  
Yujiao Wang ◽  
Bing Hu ◽  
Zhenfei Qiu ◽  
Bingshan Zeng ◽  
...  
Keyword(s):  
Stress Responses ◽  
Molecular Breeding ◽  
Eucalyptus Grandis ◽  
Pcr Analysis ◽  
Quantitative Real Time Pcr ◽  
Motif Analysis ◽  
Comprehensive Overview ◽  
Abiotic Stressors ◽  
Genome Wide ◽  
Gene Expression Analyses

VQ genes play important roles in plant development, growth, and stress responses. However, little information regarding the functions of VQ genes is available for Eucalyptus grandis. In our study, genome-wide characterization and identification of VQ genes were performed in E. grandis. Results showed that 27 VQ genes, which divided into seven sub-families (I–VII), were found, and all but two VQ genes showed no intron by gene structure and conserved motif analysis. To further identify the function of EgrVQ proteins, gene expression analyses were also developed under hormone treatments (brassinosteroids, methyl jasmonate, salicylic acid, and abscisic acid) and abiotic conditions (salt stress, cold 4 °C, and heat 42 °C). The results of a quantitative real-time PCR analysis indicated that the EgrVQs were variously expressed under different hormone treatments and abiotic stressors. Our study provides a comprehensive overview of VQ genes in E. grandis, which will be beneficial in the molecular breeding of E. grandis to promote its resistance to abiotic stressors; the results also provide a basis from which to conduct further investigation into the functions of VQ genes in E. grandis.

scholarly journals Jasmonic Acid in Plant Abiotic Stress Tolerance and Interaction with Abscisic Acid

Agronomy ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 1886
Author(s):  
Hui Jin Kim ◽  
Subhin Seomun ◽  
Youngdae Yoon ◽  
Geupil Jang
Keyword(s):  
Abscisic Acid ◽  
Abiotic Stress ◽  
Jasmonic Acid ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Crucial Role ◽  
Abiotic Stress Tolerance ◽  
Plant Responses ◽  
Plant Abiotic Stress

The phytohormone jasmonic acid (JA), a cyclopentane fatty acid, mediates plant responses to abiotic stresses. Abiotic stresses rapidly and dynamically affect JA metabolism and JA responses by upregulating the expression of genes involved in JA biosynthesis and signaling, indicating that JA has a crucial role in plant abiotic stress responses. The crucial role of JA has been demonstrated in many previous studies showing that JA response regulates various plant defense systems, such as removal of reactive oxygen species and accumulation of osmoprotectants. Furthermore, increasing evidence shows that plant tolerance to abiotic stresses is linked to the JA response, suggesting that abiotic stress tolerance can be improved by modulating JA responses. In this review, we briefly describe the JA biosynthetic and signaling pathways and summarize recent studies showing an essential role of JA in plant responses and tolerance to a variety of abiotic stresses, such as drought, cold, salt, and heavy metal stress. Additionally, we discuss JA crosstalk with another key stress hormone, abscisic acid, in plant abiotic stress responses.

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