Genome-Wide Identification and Characterization of NAC Family in Hibiscus hamabo Sieb. et Zucc. under Various Abiotic Stresses
Abstract
:1. Introduction
2. Results
2.1. Identification and Analysis of HhNAC Genes in H. hamabo
2.2. Expression Patterns of HhNAC Genes in Different Abiotic Stresses
2.3. HhNAC54 Overexpression Increases Transgenic A. thaliana Salt Tolerance
3. Discussion
4. Materials and Methods
4.1. Plants Materials and Treatments
4.2. Identification and Analysis of NAC Genes in H. hamabo
4.3. Quantitative Real-Time PCR
4.4. Identification of Transgenic A. thaliana
4.5. Statistical Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
- Olsen, A.N.; Ernst, H.A.; Leggio, L.L.; Skriver, K. NAC transcription factors: Structurally distinct, functionally diverse. Trends Plant Sci. 2005, 10, 79–87. [Google Scholar] [CrossRef] [PubMed]
- Jian, W.; Zheng, Y.; Yu, T.; Cao, H.; Chen, Y.; Cui, Q.; Xu, C.; Li, Z. SlNAC6, a NAC transcription factor, is involved in drought stress response and reproductive process in tomato. J. Plant Physiol. 2021, 264, 153483. [Google Scholar] [CrossRef] [PubMed]
- Zhang, H.; Ma, F.; Wang, X.; Liu, S.; Chen, R. Molecular and functional characterization of CANAC035, an NAC transcription factor from pepper (Capsicum annuum L.). Front. Plant Sci. 2020, 11, 14. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Hou, X.M.; Zhang, H.F.; Liu, S.Y.; Wang, X.K.; Chen, R.G. The NAC transcription factor CANAC064 is a regulator of cold stress tolerance in peppers. Plant Sci. 2019, 291, 110346. [Google Scholar] [CrossRef] [PubMed]
- Ren, Y.; Huang, Z.; Jiang, H.; Wang, Z.; Wu, F.; Xiong, Y.; Yao, J. A heat stress responsive NAC transcription factor heterodimer plays key roles in rice grain filling. J. Exp. Bot. 2021, 72, 2947–2964. [Google Scholar] [CrossRef] [PubMed]
- Mao, C.; Lu, S.; Lv, B.; Zhang, B.; Shen, J.; He, J.; Luo, L.; Xi, D.; Chen, X.; Ming, F. A rice NAC transcription factor promotes leaf senescence via ABA biosynthesis. Plant Physiol. 2017, 174, 1747–1763. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Wang, B.; Wei, J.; Song, N.; Wang, N.; Zhao, J.; Kang, Z. A novel wheat NAC transcription factor, TANAC30, negatively regulates resistance of wheat to stripe rust. J. Integr. Plant Biol. 2018, 60, 432–443. [Google Scholar] [CrossRef]
- He, X.; Qu, B.; Li, W.; Zhao, X.; Teng, W.; Ma, W.; Ren, Y.; Li, B.; Li, Z.; Tong, Y. The nitrate-inducible NAC transcription factor TANAC2-5A controls nitrate response and increases wheat yield. Plant Physiol. 2015, 169, 1991–2005. [Google Scholar] [CrossRef] [Green Version]
- Guérin, C.; Roche, J.; Allard, V.; Ravel, C.; Mouzeyar, S.; Bouzidi, M.F. Genome-wide analysis, expansion and expression of the NAC family under drought and heat stresses in bread wheat (T. Aestivum L.). PLoS ONE 2019, 14, e0213390. [Google Scholar] [CrossRef] [Green Version]
- Liu, M.; Ma, Z.; Sun, W.; Huang, L.; Wu, Q.; Tang, Z.; Bu, T.; Li, C.; Chen, H. Genome-wide analysis of the NAC transcription factor family in tartary buckwheat (Fagopyrum tataricum). BMC Genom. 2019, 20, 1–16. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Chen, S.; Lin, X.; Zhang, D.; Li, Q.; Zhao, X.; Chen, S. Genome-wide analysis of NAC gene family in Betula pendula. Forests 2019, 10, 741. [Google Scholar] [CrossRef] [Green Version]
- Zhuo, X.; Zheng, T.; Zhang, Z.; Zhang, Y.; Jiang, L.; Ahmad, S.; Sun, L.; Wang, J.; Cheng, T.; Zhang, Q. Genome-wide analysis of the NAC transcription factor gene family reveals differential expression patterns and cold-stress responses in the woody plant Prunus mume. Genes (Basel) 2018, 9, 494. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Yan, H.; Zhang, A.; Ye, Y.; Xu, B.; Chen, J.; He, X.; Wang, C.; Zhou, S.; Zhang, X.; Peng, Y. Genome-wide survey of switchgrass NACs family provides new insights into motif and structure arrangements and reveals stress-related and tissue-specific nacs. Sci. Rep. 2017, 7, 3056. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Ni, L.; Wang, Z.; Liu, L.; Guo, J.; Li, H.; Gu, C. Selection and verification of candidate reference genes for gene expression by quantitative RT-PCR in Hibiscus hamabo sieb. Et zucc. Trees 2019, 33, 1591–1601. [Google Scholar] [CrossRef]
- Zhu, T.; Nevo, E.; Sun, D.; Peng, J. Phylogenetic analyses unravel the evolutionary history of NAC proteins in plants. Evol. Int. J. Org. Evol. 2012, 66, 1833–1848. [Google Scholar] [CrossRef] [PubMed]
- Ling, L.; Song, L.; Wang, Y.; Guo, C. Genome-wide analysis and expression patterns of the NAC transcription factor family in Medicago truncatula. Physiol. Mol. Biol. Plants 2017, 23, 343–356. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Wang, Y.; Bai, X. Bioinformatics analysis of NAC gene family in Glycine max L. Soybean Sci. 2014, 33, 325–333. [Google Scholar]
- Song, J.; Gao, Z.; Huo, X.; Sun, H.; Xu, Y.; Shi, T.; Ni, Z. Genome-wide identification of the auxin response factor (ARF) gene family and expression analysis of its role associated with pistil development in Japanese apricot (Prunus mume sieb. Et zucc). Acta Physiol. Plant. 2015, 37, 1–13. [Google Scholar] [CrossRef]
- Gong, S.; Ding, Y.; Hu, S.; Ding, L.; Chen, Z.; Zhu, C. The role of HD-ZIP class|transcription factors in plant response to abiotic stresses. Physiol. Plant. 2019, 167, 516–525. [Google Scholar] [CrossRef] [PubMed]
- Sahil; Keshan, R.; Rather, S.A. Transcription factors involved in plant responses to stress adaptation. In Frontiers in Plant-Soil Interaction; Academic Press: Cambridge, MA, USA, 2021. [Google Scholar]
- Zheng, X.; Bo, C.; Lu, G.; Han, B. Overexpression of a NAC transcription factor enhances rice drought and salt tolerance. Biochem. Biophys. Res. Commun. 2009, 379, 985–989. [Google Scholar] [CrossRef] [PubMed]
- Mei, F.; Chen, B.; Li, F.; Zhang, Y.; Mao, H. Overexpression of the wheat NAC transcription factor TASNAC4-3A gene confers drought tolerance in transgenic Arabidopsis. Plant Physiol. Biochem. 2021, 160, 37–50. [Google Scholar] [CrossRef] [PubMed]
- Eddy, S.R. Accelerated profile hmm searches. PLoS Comput. Biol. 2011, 7, e1002195. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- HMMER, version 3.1. Software for technical computation. Howard Hughes Medical Institute: Chevy Chase, MD, USA, 2015.
- Aiyar, A. The use of clustal w and clustal x for multiple sequence alignment. In Bioinformatics Methods and Protocols; Springer: Berlin/Heidelberg, Germany, 2000; pp. 221–241. [Google Scholar]
- ClustalW, version 2.1. Software for technical computation. Conway Institute UCD: Dublin, Ireland, 2010.
- Kumar, S.; Stecher, G.; Tamura, K. Mega7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 2016, 33, 1870–1874. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- MEGA, version 7. Software for technical computation. Temple University: Philadelphia, PA, USA, 2016.
- Guo, A.Y.; Zhu, Q.H.; Chen, X.; Luo, J.C. Gsds: A gene structure display server. Hereditas 2007, 29, 1023–1026. [Google Scholar] [CrossRef] [PubMed]
- Bailey, T.L.; Johnson, J.; Grant, C.E.; Noble, W.S. The meme suite. Nucleic Acids Res. 2015, 43, W39–W49. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Chen, C.; Chen, H.; Zhang, Y.; Thomas, H.R.; Frank, M.H.; He, Y.; Xia, R. Tbtools: An integrative toolkit developed for interactive analyses of big biological data. Mol. Plant 2020, 13, 1194–1202. [Google Scholar] [CrossRef] [PubMed]
- Wang, Y.; Tang, H.; DeBarry, J.D.; Tan, X.; Li, J.; Wang, X.; Lee, T.H.; Jin, H.; Marler, B.; Guo, H. Mcscanx: A toolkit for detection and evolutionary analysis of gene synteny and collinearity. Nucleic Acids Res. 2012, 40, e49. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- MCScanX, Software for technical computation; University of Georgia: Athens, GA, USA, 2012.
- Wang, D.; Zhang, Y.; Zhang, Z.; Zhu, J.; Yu, J. Kaks_calculator 2.0: A toolkit incorporating gamma-series methods and sliding window strategies. Genom. Proteom. Bioinform. 2010, 8, 77–80. [Google Scholar] [CrossRef] [Green Version]
- Ni, L.; Wang, Z.; Fu, Z.; Liu, D.; Yin, Y.; Li, H.; Gu, C. Genome-wide analysis of basic helix-loop-helix family genes and expression analysis in response to drought and salt stresses in Hibiscus hamabo sieb. Et zucc. Int. J. Mol. Sci. 2021, 22, 8748. [Google Scholar] [CrossRef] [PubMed]
- Gu, C.; Xu, S.; Wang, Z.; Liu, L.; Zhang, Y.; Deng, Y.; Huang, S. De novo sequencing, assembly, and analysis of Iris. Lactea var. Chinensis roots’ transcriptome in response to salt stress. Plant Physiol. Biochem. 2018, 125, 1–12. [Google Scholar] [PubMed]
- Gu, C.; Liu, L.; Song, A.; Liu, Z.; Zhang, Y.; Huang, S. Iris lactea var. Chinensis (fisch.) cysteine-rich gene LLCDT1 enhances cadmium tolerance in yeast cells and Arabidopsis thaliana. Ecotoxicol. Environ. Saf. 2018, 157, 67–72. [Google Scholar] [CrossRef] [PubMed]
- Gu, C.; Song, A.; Zhang, X.; Wang, H.; Li, T.; Chen, Y.; Jiang, J.; Chen, F.; Chen, S. Cloning of chrysanthemum high-affinity nitrate transporter family (cmnrt2) and characterization of cmnrt2.1. Sci. Rep. 2016, 6, 23462. [Google Scholar] [CrossRef] [PubMed] [Green Version]
Publisher’s Note: MDPI stays neutral with regard to jurisdictional claims in published maps and institutional affiliations. |
© 2022 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
Share and Cite
Wang, Z.; Ni, L.; Liu, D.; Fu, Z.; Hua, J.; Lu, Z.; Liu, L.; Yin, Y.; Li, H.; Gu, C. Genome-Wide Identification and Characterization of NAC Family in Hibiscus hamabo Sieb. et Zucc. under Various Abiotic Stresses. Int. J. Mol. Sci. 2022, 23, 3055. https://doi.org/10.3390/ijms23063055
Wang Z, Ni L, Liu D, Fu Z, Hua J, Lu Z, Liu L, Yin Y, Li H, Gu C. Genome-Wide Identification and Characterization of NAC Family in Hibiscus hamabo Sieb. et Zucc. under Various Abiotic Stresses. International Journal of Molecular Sciences. 2022; 23(6):3055. https://doi.org/10.3390/ijms23063055
Chicago/Turabian StyleWang, Zhiquan, Longjie Ni, Dina Liu, Zekai Fu, Jianfeng Hua, Zhiguo Lu, Liangqin Liu, Yunlong Yin, Huogen Li, and Chunsun Gu. 2022. "Genome-Wide Identification and Characterization of NAC Family in Hibiscus hamabo Sieb. et Zucc. under Various Abiotic Stresses" International Journal of Molecular Sciences 23, no. 6: 3055. https://doi.org/10.3390/ijms23063055