Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.)
Abstract Background Abiotic stresses due to climate change pose a great threat to crop production. Heat shock transcription factors (HSFs) are vital regulators that play key roles in protecting plants against various abiotic stresses. Therefore, the identification and characterization of HSFs is imp...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2019-10-01
|
| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12864-019-6121-3 |
| _version_ | 1818228811965136896 |
|---|---|
| author | Mingjia Tang Liang Xu Yan Wang Wanwan Cheng Xiaobo Luo Yang Xie Lianxue Fan Liwang Liu |
| author_facet | Mingjia Tang Liang Xu Yan Wang Wanwan Cheng Xiaobo Luo Yang Xie Lianxue Fan Liwang Liu |
| author_sort | Mingjia Tang |
| collection | DOAJ |
| description | Abstract Background Abiotic stresses due to climate change pose a great threat to crop production. Heat shock transcription factors (HSFs) are vital regulators that play key roles in protecting plants against various abiotic stresses. Therefore, the identification and characterization of HSFs is imperative to dissect the mechanism responsible for plant stress responses. Although the HSF gene family has been extensively studied in several plant species, its characterization, evolutionary history and expression patterns in the radish (Raphanus sativus L.) remain limited. Results In this study, 33 RsHSF genes were obtained from the radish genome, which were classified into three main groups based on HSF protein domain structure. Chromosomal localization analysis revealed that 28 of 33 RsHSF genes were located on nine chromosomes, and 10 duplicated RsHSF genes were grouped into eight gene pairs by whole genome duplication (WGD). Moreover, there were 23 or 9 pairs of orthologous HSFs were identified between radish and Arabidopsis or rice, respectively. Comparative analysis revealed a close relationship among radish, Chinese cabbage and Arabidopsis. RNA-seq data showed that eight RsHSF genes including RsHSF-03, were highly expressed in the leaf, root, cortex, cambium and xylem, indicating that these genes might be involved in plant growth and development. Further, quantitative real-time polymerase chain reaction (RT-qPCR) indicated that the expression patterns of 12 RsHSF genes varied upon exposure to different abiotic stresses including heat, salt, and heavy metals. These results indicated that the RsHSFs may be involved in abiotic stress response. Conclusions These results could provide fundamental insights into the characteristics and evolution of the HSF family and facilitate further dissection of the molecular mechanism responsible for radish abiotic stress responses. |
| first_indexed | 2024-12-12T10:08:39Z |
| format | Article |
| id | doaj.art-850ad34a59e445b3b02d4aa57a9bfeb7 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-12T10:08:39Z |
| publishDate | 2019-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-850ad34a59e445b3b02d4aa57a9bfeb72022-12-22T00:27:52ZengBMCBMC Genomics1471-21642019-10-0120111310.1186/s12864-019-6121-3Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.)Mingjia Tang0Liang Xu1Yan Wang2Wanwan Cheng3Xiaobo Luo4Yang Xie5Lianxue Fan6Liwang Liu7National Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityNational Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Horticultural Crop Biology and Genetic Improvement (East China) of MOA, College of Horticulture, Nanjing Agricultural UniversityAbstract Background Abiotic stresses due to climate change pose a great threat to crop production. Heat shock transcription factors (HSFs) are vital regulators that play key roles in protecting plants against various abiotic stresses. Therefore, the identification and characterization of HSFs is imperative to dissect the mechanism responsible for plant stress responses. Although the HSF gene family has been extensively studied in several plant species, its characterization, evolutionary history and expression patterns in the radish (Raphanus sativus L.) remain limited. Results In this study, 33 RsHSF genes were obtained from the radish genome, which were classified into three main groups based on HSF protein domain structure. Chromosomal localization analysis revealed that 28 of 33 RsHSF genes were located on nine chromosomes, and 10 duplicated RsHSF genes were grouped into eight gene pairs by whole genome duplication (WGD). Moreover, there were 23 or 9 pairs of orthologous HSFs were identified between radish and Arabidopsis or rice, respectively. Comparative analysis revealed a close relationship among radish, Chinese cabbage and Arabidopsis. RNA-seq data showed that eight RsHSF genes including RsHSF-03, were highly expressed in the leaf, root, cortex, cambium and xylem, indicating that these genes might be involved in plant growth and development. Further, quantitative real-time polymerase chain reaction (RT-qPCR) indicated that the expression patterns of 12 RsHSF genes varied upon exposure to different abiotic stresses including heat, salt, and heavy metals. These results indicated that the RsHSFs may be involved in abiotic stress response. Conclusions These results could provide fundamental insights into the characteristics and evolution of the HSF family and facilitate further dissection of the molecular mechanism responsible for radish abiotic stress responses.http://link.springer.com/article/10.1186/s12864-019-6121-3Abiotic stressHeat shock transcription factors (HSFs)RadishReverse-transcription quantitative PCR (RT-qPCR) |
| spellingShingle | Mingjia Tang Liang Xu Yan Wang Wanwan Cheng Xiaobo Luo Yang Xie Lianxue Fan Liwang Liu Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) BMC Genomics Abiotic stress Heat shock transcription factors (HSFs) Radish Reverse-transcription quantitative PCR (RT-qPCR) |
| title | Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) |
| title_full | Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) |
| title_fullStr | Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) |
| title_full_unstemmed | Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) |
| title_short | Genome-wide characterization and evolutionary analysis of heat shock transcription factors (HSFs) to reveal their potential role under abiotic stresses in radish (Raphanus sativus L.) |
| title_sort | genome wide characterization and evolutionary analysis of heat shock transcription factors hsfs to reveal their potential role under abiotic stresses in radish raphanus sativus l |
| topic | Abiotic stress Heat shock transcription factors (HSFs) Radish Reverse-transcription quantitative PCR (RT-qPCR) |
| url | http://link.springer.com/article/10.1186/s12864-019-6121-3 |
| work_keys_str_mv | AT mingjiatang genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT liangxu genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT yanwang genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT wanwancheng genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT xiaoboluo genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT yangxie genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT lianxuefan genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl AT liwangliu genomewidecharacterizationandevolutionaryanalysisofheatshocktranscriptionfactorshsfstorevealtheirpotentialroleunderabioticstressesinradishraphanussativusl |