Overview of Cold Stress Regulation in Plants

S, Lekshmi Manasa; Panigrahy, Madhusmita; Panigrahi, Kishore C. S.; Rout, Gyana Ranjan

doi:10.1007/s12229-021-09267-x

Cited by 55 publications

(43 citation statements)

References 215 publications

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“…We found that two cold-related cis -acting elements, LTR (CCGAAA) and DRE/CRT (TACCGACAT), were observed in the promoters of GsMCU1.1 , GsMCU5.1 , GsMCU6.2 , and GsMCU6.4 . Moreover, phytohormones play well-documented and critical roles in stress responses ( Fahad et al, 2015 ; Manasa et al, 2021 ). Several cis -elements related to phytohormones have also been found in GsMCU promoters, such as ABA (ABRE, core sequence ACGTG) ( Gusta et al, 2005 ), JA (CGTCA, core sequence CGTCA) ( Kosova et al, 2012 ), GA (GARE, core sequence TCTGTTG) ( Manasa et al, 2021 ), and SA (TCA, core sequence CCATCTTTTT) ( Miura and Ohta, 2010 ).…”

Section: Resultsmentioning

confidence: 99%

“…Moreover, phytohormones play well-documented and critical roles in stress responses ( Fahad et al, 2015 ; Manasa et al, 2021 ). Several cis -elements related to phytohormones have also been found in GsMCU promoters, such as ABA (ABRE, core sequence ACGTG) ( Gusta et al, 2005 ), JA (CGTCA, core sequence CGTCA) ( Kosova et al, 2012 ), GA (GARE, core sequence TCTGTTG) ( Manasa et al, 2021 ), and SA (TCA, core sequence CCATCTTTTT) ( Miura and Ohta, 2010 ). Notably, cis -elements related to ABA and JA, which have been suggested to play key roles in cold stress, were enriched in the GsMCU promoters, indicating that GsMCU expression may respond to cold stress via ABA and JA signaling pathways.…”

Section: Resultsmentioning

confidence: 99%

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Genome-Wide Identification of Wild Soybean Mitochondrial Calcium Uniporter Family Genes and Their Responses to Cold and Carbonate Alkaline Stresses

Sun

Liu

et al. 2022

Front. Plant Sci.

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The mitochondrial calcium uniporter (MCU), as an important component of the Ca2+ channel uniporter complex, plays a regulatory role in intracellular Ca2+ signal transduction. However, only a few studies to date have investigated plant MCU genes. In this study, we identified the MCU family genes in wild soybean and investigated their expression under cold and carbonate alkaline stresses. Eleven Glycine soja MCU genes (GsMCUs) were identified and clustered into two subgroups (subgroups I and II), and subgroup II could be further divided into two branches (MCU5 and MCU6). A total of 21 pairs of GsMCUs were characterized as duplicated genes, and displayed a similar exon-intron architecture. All GsMCU proteins contained one conserved MCU domain, within which two transmembrane domains were found. An analysis of the conserved motifs further supported that the GsMCUs showed high conservation in protein sequence and structure. Moreover, we found that all GsMCUs were expressed ubiquitously in different tissues and organs, and GsMCUs from the same subgroup displayed varied tissue expression profiles. In addition, based on RNA-seq and qRT-PCR assays, six and nine GsMCUs were differentially expressed under cold and carbonate alkaline stress, respectively. Promoter analysis also uncovered the existence of two canonical cold-related cis-acting elements, LTR and DRE/CRT, as well as stress-related phytohormone-responsive elements. Our results provide valuable information about the MCU family in soybean responses to cold and carbonate alkaline stress, which will be helpful in further characterizing their biological roles in response to abiotic stress.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Genome-Wide Identification of Wild Soybean Mitochondrial Calcium Uniporter Family Genes and Their Responses to Cold and Carbonate Alkaline Stresses

Sun

Liu

et al. 2022

Front. Plant Sci.

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“…2B ). CAMTAs are known to be up-regulated by the activation of Ca +2 dependent Calmodulin due to cold-induced Ca +2 spike (Finkler et al, 2007; Manasa et al, 2021). In addition, CAMTAs are major regulators of CBF genes that are known regulators of cold responses, for the immediate cold stress response (Finkler et al, 2007).…”

Section: Resultsmentioning

confidence: 99%

“…4C ). These GO terms are known to be enriched in late responsive genes under cold stress (Manasa et al, 2021). Our findings suggest that some genes containing pCREs from these non-specific pCRE clusters may contribute to metabolic processes crucial for cold tolerance.…”

Section: Resultsmentioning

confidence: 99%

Temporal Regulation of Cold Transcriptional Response in Switchgrass

Ranaweera

Brown

Wang

et al. 2022

Preprint

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Switchgrass low-land ecotypes have significantly higher biomass but lower cold tolerance compared to up-land ecotypes. Understanding the molecular mechanisms underlying cold response, including the ones at transcriptional level, can contribute to improving tolerance of high-yield switchgrass under chilling and freezing environmental conditions. Here, by analyzing an existing switchgrass transcriptome dataset, the temporal cis-regulatory basis of switchgrass transcriptional response to cold is dissected computationally. We found that the number of cold-responsive genes and enriched Gene Ontology terms increased as duration of cold treatment increased from 30 min to 24 hours, suggesting an amplified response/cascading effect in cold-responsive gene expression. To identify genomic sequences likely important for regulating cold response, machine learning models predictive of cold response were established using k-mer sequences enriched in the genic and flanking regions of cold-responsive genes but not non-responsive genes. These k-mers, referred to as putative cis-regulatory elements (pCREs) are likely regulatory sequences of cold response in switchgrass. There are in total 655 pCREs where 54 are important in all cold treatment time points. Consistent with this, eight of 35 known cold-responsive CREs were similar to top-ranked pCREs in the models and only these eight were important for predicting temporal cold response. More importantly, most of the top-ranked pCREs were novel sequences in cold regulation. Our findings suggest additional sequence elements important for cold-responsive regulation previously not known that warrant further studies.

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“…Many functional genes mainly participate in osmotic regulation and increased antioxidant activity and, thus, allow plants to respond to diverse stresses. Secondary metabolites can protect plants from low-temperature stress via the accumulation of soluble sugar and cryoprotective proteins, as well as with the stabilization of cell permeability [ 73 ]. More genes involved in secondary metabolic synthesis pathways were upregulated in M3 plants than in WT plants under low temperature ( Table S17 ), which may be an important factor protecting W3 plants from low-temperature stress.…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome and Interaction Protein Analysis Reveals the Mechanism of IbMPK3-Overexpressing Transgenic Sweet Potato Response to Low-Temperature Stress

Jin

Tang

Guo

et al. 2022

Genes

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The sweet potato is very sensitive to low temperature. Our previous study revealed that IbMPK3-overexpressing transgenic sweet potato (M3) plants showed stronger low-temperature stress tolerance than wild-type plants (WT). However, the mechanism of M3 plants in response to low-temperature stress is unclear. To further analyze how IbMPK3 mediates low-temperature stress in sweet potato, WT and M3 plants were exposed to low-temperature stress for 2 h and 12 h for RNA-seq analysis, whereas normal conditions were used as a control (CK). In total, 3436 and 8718 differentially expressed genes (DEGs) were identified in WT at 2 h (vs. CK) and 12 h (vs. CK) under low-temperature stress, respectively, whereas 1450 and 9291 DEGs were detected in M3 plants, respectively. Many common and unique DEGs were analyzed in WT and M3 plants. DEGs related to low temperature were involved in Ca2+ signaling, MAPK cascades, the reactive oxygen species (ROS) signaling pathway, hormone transduction pathway, encoding transcription factor families (bHLH, NAC, and WRKY), and downstream stress-related genes. Additionally, more upregulated genes were associated with the MAPK pathway in M3 plants during short-term low-temperature stress (CK vs. 2 h), and more upregulated genes were involved in secondary metabolic synthesis in M3 plants than in the WT during the long-time low-temperature stress treatment (CK vs. 12 h), such as fatty acid biosynthesis and elongation, glutathione metabolism, flavonoid biosynthesis, carotenoid biosynthesis, and zeatin biosynthesis. Moreover, the interaction proteins of IbMPK3 related to photosynthesis, or encoding CaM, NAC, and ribosomal proteins, were identified using yeast two-hybrid (Y2H). This study may provide a valuable resource for elucidating the sweet potato low-temperature stress resistance mechanism, as well as data to support molecular-assisted breeding with the IbMPK3 gene.

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Overview of Cold Stress Regulation in Plants

Cited by 55 publications

References 215 publications

Genome-Wide Identification of Wild Soybean Mitochondrial Calcium Uniporter Family Genes and Their Responses to Cold and Carbonate Alkaline Stresses

Genome-Wide Identification of Wild Soybean Mitochondrial Calcium Uniporter Family Genes and Their Responses to Cold and Carbonate Alkaline Stresses

Temporal Regulation of Cold Transcriptional Response in Switchgrass

Comparative Transcriptome and Interaction Protein Analysis Reveals the Mechanism of IbMPK3-Overexpressing Transgenic Sweet Potato Response to Low-Temperature Stress

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