Expression Profiling of the CSDP Transcription Factor Gene Family Points to Roles in Organ Development and Abiotic Stress Response in Tomato (Solanum lycopersicum L.)

Khatun, Khadiza; Nath, Ujjal Kumar; Park, Jong-In; Kim, Chang Kil; Nou, Ill Sup; Chung, Mi-Young

doi:10.1007/s11105-018-1075-1

Cited by 4 publications

(3 citation statements)

References 28 publications

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“…Leaves were collected at various time points: 0, 1, 3, 6, 12, and 24 h after onset of treatment. Tomato plants were incubated in a growth cabinet at 40 °C (heat treatment) or 4 °C (cold treatment) for 24 h. NaCl stress treatment was imposed by submerging plant roots in a 200 mM NaCl solution for 24 h. For NWD stress, whole plants were gently pulled out from the soil, their root systems carefully cleaned with fresh water and subsequently placed on a dry paper towel for 24 h [ 54 , 55 , 56 , 57 , 58 ]. ABA treatment was applied by spraying plant leaves with 100 μM ABA [ 54 ].…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling of the PDI Gene Family Reveals Their Probable Involvement in Abiotic Stress Tolerance in Tomato (Solanum lycopersicum L.)

Wai

Waseem

Khan

et al. 2020

Genes

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Protein disulfide isomerases (PDI) and PDI-like proteins catalyze the formation and isomerization of protein disulfide bonds in the endoplasmic reticulum and prevent the buildup of misfolded proteins under abiotic stress conditions. In the present study, we conducted the first comprehensive genome-wide exploration of the PDI gene family in tomato (Solanum lycopersicum L.). We identified 19 tomato PDI genes that were unevenly distributed on 8 of the 12 tomato chromosomes, with segmental duplications detected for 3 paralogous gene pairs. Expression profiling of the PDI genes revealed that most of them were differentially expressed across different organs and developmental stages of the fruit. Furthermore, most of the PDI genes were highly induced by heat, salt, and abscisic acid (ABA) treatments, while relatively few of the genes were induced by cold and nutrient and water deficit (NWD) stresses. The predominant expression of SlPDI1-1, SlPDI1-3, SlPDI1-4, SlPDI2-1, SlPDI4-1, and SlPDI5-1 in response to abiotic stress and ABA treatment suggested they play regulatory roles in abiotic stress tolerance in tomato in an ABA-dependent manner. Our results provide new insight into the structure and function of PDI genes and will be helpful for the selection of candidate genes involved in fruit development and abiotic stress tolerance in tomato.

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Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling of the PDI Gene Family Reveals Their Probable Involvement in Abiotic Stress Tolerance in Tomato (Solanum lycopersicum L.)

Wai

Waseem

Khan

et al. 2020

Genes

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“…Seedling was harvested first and that represented both shoots and roots. That's why seedlings were taken as a calibrator Whereas the leaf samples were collected at 0 h after treatment was the calibrator for abiotic stress and hormone treatments [49]. Primers used for qRT-PCR based gene expression analysis were designed using Primer3 software (http://frodo.wi.mit.edu/primer3/ input.htm) software (Table S1).…”

Section: Rna Preparation Cdna Synthesis Rt-pcr and Qrt-pcr Analysesmentioning

confidence: 99%

Genome-wide identification, genomic organization, and expression profiling of the CONSTANS-like (COL) gene family in petunia under multiple stresses

et al. 2021

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Background CONSTANS-like (CO-like, COL) are putative zinc-finger transcription factors known to play vital role in various plant biological processes such as control of flowering time, regulation of plant growth and development and responses to stresses. However, no systematic analysis of COL family gene regarding the plant development and stress response has been previously performed in any solanaceous crop. In the present study, a comprehensive genome-wide analysis of COL family genes in petunia has been conducted to figure out their roles in development of organs and stress response. Results A total of 33 COL genes, 15 PaCOL genes in P. axillaris and 18 PiCOL genes in P. inflata, were identified in petunia. Subsequently, a genome-wide systematic analysis was performed in 15 PaCOL genes. Considering the domain composition and sequence similarity the 15 PaCOL and 18 PiCOL genes were phylogenetically classified into three groups those are conserved among the flowering plants. Moreover, all of the 15 PaCOL proteins were localized in nucleus. Furthermore, differential expression patterns of PaCOL genes were observed at different developmental stages of petunia. Additionally, transcript expression of 15 PaCOL genes under various abiotic and phytohormone treatments showed their response against stresses. Moreover, several cis-elements related to stress, light-responsive, hormone signaling were also detected in different PaCOL genes. Conclusion The phylogenetic clustering, organ specific expression pattern and stress responsive expression profile of conserved petunia COL genes indicating their involvement in plant growth and development and stress response mechanism. This work provide a significant foundation for understanding the biological roles of petunia COL genes in plant growth, development and in stress response.

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“…LOC101268350) [45] and the relative amount of the ampli ed product was calculated following the 2 −ΔΔCt method [46]. Stem samples were used as calibrator for the expression analysis of organ samples whereas the leaf samples were collected at 0 h after treatment was the calibrator for abiotic stress and hormone treatments [47]. Primers used for qRT-PCR based gene expression analysis were designed using xx software (Table S1).…”

Section: Rna Preparation Cdna Synthesis Rt-pcr and Qrt-pcr Analysesmentioning

confidence: 99%

Genome-wide identification, genomic organization, and expression profiling of the CONSTANS-like (COL) gene family in petunia under multiple stresses

Khatun

Debnath

Robin

et al. 2021

Preprint

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BackgroundCONSTANS-like (CO-like, COL) is a putative zinc-finger transcription factor family that plays a key role in the control of flowering time in photoperiod-sensitive plants. Besides, the COL family protein is also involved in plant development, responses to stresses. However, information on plant development and stress response related function has not been previously performed in any solanaceous crop. In this study, a genome-wide analysis of COL gene family was conducted in Petunia hybrida cv. Mirage Rose to elucidate their roles in organ development and stress response.ResultsA total of 15 COL genes were identified in petunia. Based on their amino acid sequence identity and domain composition they were phylogenetically classified into three groups those are conserved among the flowering plants. Similar gene structure and motif distribution were observed in the same group. Subcellular localization assays demonstrated that all PaCOL proteins were localized in nucleus. Furthermore, differential expression patterns of PaCOL genes were observed in various tissues. The expression patterns of PaCOL genes were observed under various abiotic and phytohormone treatment to explore their relatedness in different stresses. Moreover, several stress and light-responsive cis-elements were detected for different PaCOL genes.ConclusionThe COL genes of petunia genome, those were clustered into three distinct groups, are conserved among flowering plants, were expressed in different tissues and induced under multiple abiotic stress treatments indicating their involvement in plant growth and development and stress response mechanism. This work laid the significant foundation for functional characterization of PaCOL gene family to uncover their biological roles in plant growth, development and in stress response.

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Expression Profiling of the CSDP Transcription Factor Gene Family Points to Roles in Organ Development and Abiotic Stress Response in Tomato (Solanum lycopersicum L.)

Cited by 4 publications

References 28 publications

Genome-Wide Identification and Expression Profiling of the PDI Gene Family Reveals Their Probable Involvement in Abiotic Stress Tolerance in Tomato (Solanum lycopersicum L.)

Genome-Wide Identification and Expression Profiling of the PDI Gene Family Reveals Their Probable Involvement in Abiotic Stress Tolerance in Tomato (Solanum lycopersicum L.)

Genome-wide identification, genomic organization, and expression profiling of the CONSTANS-like (COL) gene family in petunia under multiple stresses

Genome-wide identification, genomic organization, and expression profiling of the CONSTANS-like (COL) gene family in petunia under multiple stresses

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