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The heat shock factor gene family in Salix suchowensis: a genome-wide survey and expression profiling during development and abiotic stresses.

Zhang J, Li Y, Jia HX, Li JB, Huang J, Lu MZ, Hu JJ - Front Plant Sci (2015)

Bottom Line: Promoter analysis indicated that the SsuHsfs promoters included various cis-acting elements related to hormone and/or stress responses.The results demonstrated that the SsuHsfs were involved in abiotic stress responses.Our results contribute to a better understanding of the complexity of the SsuHsf gene family, and will facilitate functional characterization in future studies.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the State Forestry Administration, Research Institute of Forestry, Chinese Academy of Forestry Beijing, China ; Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University Nanjing, China.

ABSTRACT
Heat shock transcription factors (Hsfs), which act as important transcriptional regulatory proteins, play crucial roles in plant developmental processes, and stress responses. Recently, the genome of the shrub willow Salix suchowensis was fully sequenced. In this study, a total of 27 non-redundant Hsf genes were identified from the S. suchowensis genome. Phylogenetic analysis revealed that the members of the SsuHsf family can be divided into three groups (class A, B, and C) based on their structural characteristics. Promoter analysis indicated that the SsuHsfs promoters included various cis-acting elements related to hormone and/or stress responses. Furthermore, the expression profiles of 27 SsuHsfs were analyzed in different tissues and under various stresses (heat, drought, salt, and ABA treatment) using RT-PCR. The results demonstrated that the SsuHsfs were involved in abiotic stress responses. Our results contribute to a better understanding of the complexity of the SsuHsf gene family, and will facilitate functional characterization in future studies.

No MeSH data available.


Related in: MedlinePlus

Various cis-acting elements in SsuHsf genes. (A) The number of SsuHsf genes containing various cis-acting elements. (B) The number of occurrences of each cis-acting elements in the promoter region of each of SsuHsf genes. The annotation of the cis-elements: HSE, cis-acting element involved in heat stress responsiveness; MBS, MYB binding site involved in drought-inducibility; LTR, involved in low-temperature responsiveness; C-repeat/DRE, involved in cold- and dehydration-responsiveness; ARE, essential for the anaerobic induction; GC-motif, enhancer-like element involved in anoxic specific inducibility; WUN-motif, wound-responsive element; TC-rich repeats, involved in defense and stress responsiveness; Box-W1 and Box-W3, fungal elicitor responsive element; AuxRR-core and TGA-element, auxin-responsive element; ABRE, involved in the abscisic acid responsiveness; TATC-box, GARE-motif and P-box, gibberellin-responsive element; ERE, ethylene-responsive element; TCA-element, involved in salicylic acid responsiveness; CGTCA-motif, involved in the MeJA-responsiveness; circadian, involved in circadian control; dOCT and CAT-box, related to meristem expression; CCGTCC-box, related to meristem specific activation; MSA-like, involved in cell cycle regulation; as-2-box, involved in shoot-specific expression and light responsiveness; HD-Zip1, involved in differentiation of the palisade mesophyll cells; HD-Zip2, involved in the control of leaf morphology development; as1, involved in the root-specific expression; RY-element, involved in seed-specific regulation.
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Figure 6: Various cis-acting elements in SsuHsf genes. (A) The number of SsuHsf genes containing various cis-acting elements. (B) The number of occurrences of each cis-acting elements in the promoter region of each of SsuHsf genes. The annotation of the cis-elements: HSE, cis-acting element involved in heat stress responsiveness; MBS, MYB binding site involved in drought-inducibility; LTR, involved in low-temperature responsiveness; C-repeat/DRE, involved in cold- and dehydration-responsiveness; ARE, essential for the anaerobic induction; GC-motif, enhancer-like element involved in anoxic specific inducibility; WUN-motif, wound-responsive element; TC-rich repeats, involved in defense and stress responsiveness; Box-W1 and Box-W3, fungal elicitor responsive element; AuxRR-core and TGA-element, auxin-responsive element; ABRE, involved in the abscisic acid responsiveness; TATC-box, GARE-motif and P-box, gibberellin-responsive element; ERE, ethylene-responsive element; TCA-element, involved in salicylic acid responsiveness; CGTCA-motif, involved in the MeJA-responsiveness; circadian, involved in circadian control; dOCT and CAT-box, related to meristem expression; CCGTCC-box, related to meristem specific activation; MSA-like, involved in cell cycle regulation; as-2-box, involved in shoot-specific expression and light responsiveness; HD-Zip1, involved in differentiation of the palisade mesophyll cells; HD-Zip2, involved in the control of leaf morphology development; as1, involved in the root-specific expression; RY-element, involved in seed-specific regulation.

Mentions: To identify the likely cis-elements of the SsuHsfs, the promoter regions (1.5 kb of genomic DNA sequence upstream of the translation start site) of the SsuHsf genes were used to search the PlantCARE database. A series of cis-elements involved in abiotic stress responses, phytohormone responses, and developmental processes were identified. As shown in Figure 6, the SA-responsive element (TCA-element), the MeJA-responsive element (CGTCA-motif), and the ABA-responsive element (ABRE) were found in the promoters of 20, 16, and 15 SsuHsf genes, respectively. All three were present in the promoter regions of seven genes. The HSE was found in the promoters of 20 SsuHsf genes. The anaerobic induction element (ARE), defense and stress responsive element (TC-rich), and MYB binding sites involved in drought-inducibility (MBS) were found in 24, 21, and 21 SsuHsf gene promoters, respectively. Additionally, the circadian control element (circadian) was found in the promoters of 20 SsuHsfs. Notably, two leaf development related cis-elements (HD-Zip1 and HD-Zip2) were found in the SsuHsf-A7a promoter. These results indicated that the SsuHsfs might be involved in the transcriptional control of hormone and stress responses and developmental processes.


The heat shock factor gene family in Salix suchowensis: a genome-wide survey and expression profiling during development and abiotic stresses.

Zhang J, Li Y, Jia HX, Li JB, Huang J, Lu MZ, Hu JJ - Front Plant Sci (2015)

Various cis-acting elements in SsuHsf genes. (A) The number of SsuHsf genes containing various cis-acting elements. (B) The number of occurrences of each cis-acting elements in the promoter region of each of SsuHsf genes. The annotation of the cis-elements: HSE, cis-acting element involved in heat stress responsiveness; MBS, MYB binding site involved in drought-inducibility; LTR, involved in low-temperature responsiveness; C-repeat/DRE, involved in cold- and dehydration-responsiveness; ARE, essential for the anaerobic induction; GC-motif, enhancer-like element involved in anoxic specific inducibility; WUN-motif, wound-responsive element; TC-rich repeats, involved in defense and stress responsiveness; Box-W1 and Box-W3, fungal elicitor responsive element; AuxRR-core and TGA-element, auxin-responsive element; ABRE, involved in the abscisic acid responsiveness; TATC-box, GARE-motif and P-box, gibberellin-responsive element; ERE, ethylene-responsive element; TCA-element, involved in salicylic acid responsiveness; CGTCA-motif, involved in the MeJA-responsiveness; circadian, involved in circadian control; dOCT and CAT-box, related to meristem expression; CCGTCC-box, related to meristem specific activation; MSA-like, involved in cell cycle regulation; as-2-box, involved in shoot-specific expression and light responsiveness; HD-Zip1, involved in differentiation of the palisade mesophyll cells; HD-Zip2, involved in the control of leaf morphology development; as1, involved in the root-specific expression; RY-element, involved in seed-specific regulation.
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Related In: Results  -  Collection

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Figure 6: Various cis-acting elements in SsuHsf genes. (A) The number of SsuHsf genes containing various cis-acting elements. (B) The number of occurrences of each cis-acting elements in the promoter region of each of SsuHsf genes. The annotation of the cis-elements: HSE, cis-acting element involved in heat stress responsiveness; MBS, MYB binding site involved in drought-inducibility; LTR, involved in low-temperature responsiveness; C-repeat/DRE, involved in cold- and dehydration-responsiveness; ARE, essential for the anaerobic induction; GC-motif, enhancer-like element involved in anoxic specific inducibility; WUN-motif, wound-responsive element; TC-rich repeats, involved in defense and stress responsiveness; Box-W1 and Box-W3, fungal elicitor responsive element; AuxRR-core and TGA-element, auxin-responsive element; ABRE, involved in the abscisic acid responsiveness; TATC-box, GARE-motif and P-box, gibberellin-responsive element; ERE, ethylene-responsive element; TCA-element, involved in salicylic acid responsiveness; CGTCA-motif, involved in the MeJA-responsiveness; circadian, involved in circadian control; dOCT and CAT-box, related to meristem expression; CCGTCC-box, related to meristem specific activation; MSA-like, involved in cell cycle regulation; as-2-box, involved in shoot-specific expression and light responsiveness; HD-Zip1, involved in differentiation of the palisade mesophyll cells; HD-Zip2, involved in the control of leaf morphology development; as1, involved in the root-specific expression; RY-element, involved in seed-specific regulation.
Mentions: To identify the likely cis-elements of the SsuHsfs, the promoter regions (1.5 kb of genomic DNA sequence upstream of the translation start site) of the SsuHsf genes were used to search the PlantCARE database. A series of cis-elements involved in abiotic stress responses, phytohormone responses, and developmental processes were identified. As shown in Figure 6, the SA-responsive element (TCA-element), the MeJA-responsive element (CGTCA-motif), and the ABA-responsive element (ABRE) were found in the promoters of 20, 16, and 15 SsuHsf genes, respectively. All three were present in the promoter regions of seven genes. The HSE was found in the promoters of 20 SsuHsf genes. The anaerobic induction element (ARE), defense and stress responsive element (TC-rich), and MYB binding sites involved in drought-inducibility (MBS) were found in 24, 21, and 21 SsuHsf gene promoters, respectively. Additionally, the circadian control element (circadian) was found in the promoters of 20 SsuHsfs. Notably, two leaf development related cis-elements (HD-Zip1 and HD-Zip2) were found in the SsuHsf-A7a promoter. These results indicated that the SsuHsfs might be involved in the transcriptional control of hormone and stress responses and developmental processes.

Bottom Line: Promoter analysis indicated that the SsuHsfs promoters included various cis-acting elements related to hormone and/or stress responses.The results demonstrated that the SsuHsfs were involved in abiotic stress responses.Our results contribute to a better understanding of the complexity of the SsuHsf gene family, and will facilitate functional characterization in future studies.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the State Forestry Administration, Research Institute of Forestry, Chinese Academy of Forestry Beijing, China ; Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University Nanjing, China.

ABSTRACT
Heat shock transcription factors (Hsfs), which act as important transcriptional regulatory proteins, play crucial roles in plant developmental processes, and stress responses. Recently, the genome of the shrub willow Salix suchowensis was fully sequenced. In this study, a total of 27 non-redundant Hsf genes were identified from the S. suchowensis genome. Phylogenetic analysis revealed that the members of the SsuHsf family can be divided into three groups (class A, B, and C) based on their structural characteristics. Promoter analysis indicated that the SsuHsfs promoters included various cis-acting elements related to hormone and/or stress responses. Furthermore, the expression profiles of 27 SsuHsfs were analyzed in different tissues and under various stresses (heat, drought, salt, and ABA treatment) using RT-PCR. The results demonstrated that the SsuHsfs were involved in abiotic stress responses. Our results contribute to a better understanding of the complexity of the SsuHsf gene family, and will facilitate functional characterization in future studies.

No MeSH data available.


Related in: MedlinePlus