Identification of AP2/ERF gene family of Salicaceae and their response to salt stress, abscisic acid, and gibberellic acid in Populus euphratica seeds

Populus euphratica belongs to Salicaceae family and grows in extreme desert environments. At present, the identification of the AP2/ERF gene family of transcription factors in Salicaceae is rare, and the role of the AP2/ERF gene family in P. euphratica under salt stress and exogenous hormones has not been reported. In this study, 197, 210, 231, 192, and 147 AP2/ERF genes were identified in P. euphratica , Populus trichocarpa , Populus deltoides , Salix sinopurpurea , and Arabidopsis thaliana , respectively. The 197 AP2/ERF gene family members of P. euphratica were divided into five subfamilies, namely, AP2 (35), RAV (5), ERF (96), DREB (65), and Soloist (1), by sequence alignment and phylogenetic analysis. In addition, these genes were scattered across 19 chromosomes. The detection of 10 motifs in the P. euphratica AP2/ERF gene family revealed that motif-8 and motif-9 only appeared in the ERF subfamily and DREB subfamily, respectively. Transcriptome data showed that PeAP2/ERF genes had different expression patterns under salt stress, abscisic acid (ABA) and gibberellic acid (GA 3 ) treatments, suggesting that the genes PeERF002 , PeERF037 , PeERF082 , PeERF090 , and PeAP2-14 may play important roles under salt stress and exogenous hormone treatments. This study provides a reference for the functional study of the PeAP2/ERF gene, and it also lays a foundation for the breeding strategy to improve the salt tolerance of P. euphratica

[1]  You-ling Zeng,et al.  The Halophyte Halostachys caspica AP2/ERF Transcription Factor HcTOE3 Positively Regulates Freezing Tolerance in Arabidopsis , 2021, Frontiers in Plant Science.

[2]  Feiyi Guo,et al.  Complete chloroplast genome sequence of Salix sinopurpurea (Salicaceae) , 2021, Mitochondrial DNA. Part B, Resources.

[3]  G. Barcaccia,et al.  The AP2/ERF Gene Family in Triticum durum: Genome-Wide Identification and Expression Analysis under Drought and Salinity Stresses , 2020, Genes.

[4]  Muqing Zhang,et al.  Genome-wide identification and expression analysis of AP2/ERF transcription factors in sugarcane (Saccharum spontaneum L.) , 2020, BMC Genomics.

[5]  S. DiFazio,et al.  Improved genome assembly provides new insights into genome evolution in a desert poplar (Populus euphratica) , 2020, Molecular ecology resources.

[6]  Zhijun Li,et al.  Morphological, structural and physiological differences in heteromorphic leaves of Euphrates poplar during development stages and at crown scales , 2019, Plant biology.

[7]  Bowen Peng,et al.  CrERF5, an AP2/ERF Transcription Factor, Positively Regulates the Biosynthesis of Bisindole Alkaloids and Their Precursors in Catharanthus roseus , 2019, Front. Plant Sci..

[8]  Zhijun Li,et al.  Transcriptomic Analysis of Seed Germination Under Salt Stress in Two Desert Sister Species (Populus euphratica and P. pruinosa) , 2019, Front. Genet..

[9]  Trevor M. Nolan,et al.  AP2/ERF Transcription Factor Regulatory Networks in Hormone and Abiotic Stress Responses in Arabidopsis , 2019, Front. Plant Sci..

[10]  Chenglei Li,et al.  Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) , 2019, BMC Plant Biology.

[11]  Z. Gong,et al.  Genome-wide identification of the AP2/ERF transcription factor family in pepper (Capsicum annuum L.). , 2018, Genome.

[12]  Jun Wu,et al.  The mining and evolutionary investigation of AP2/ERF genes in pear (Pyrus) , 2018, BMC plant biology.

[13]  Hong Ma,et al.  Widespread Whole Genome Duplications Contribute to Genome Complexity and Species Diversity in Angiosperms. , 2018, Molecular plant.

[14]  Hui Li,et al.  Genome-Wide Identification of AP2/ERF Transcription Factors in Cauliflower and Expression Profiling of the ERF Family under Salt and Drought Stresses , 2017, Front. Plant Sci..

[15]  Jun He,et al.  ETHYLENE RESPONSE FACTOR 74 (ERF74) plays an essential role in controlling a respiratory burst oxidase homolog D (RbohD)-dependent mechanism in response to different stresses in Arabidopsis. , 2017, The New phytologist.

[16]  Chaoyin Chen,et al.  An AP2/ERF Family Transcription Factor PnERF1 Raised the Biosynthesis of Saponins in Panax notoginseng , 2017, Journal of Plant Growth Regulation.

[17]  Linhai Wang,et al.  Insight into the AP2/ERF transcription factor superfamily in sesame and expression profiling of DREB subfamily under drought stress , 2016, BMC Plant Biology.

[18]  R. Varshney,et al.  Genome‐wide dissection of AP2/ERF and HSP90 gene families in five legumes and expression profiles in chickpea and pigeonpea , 2016, Plant biotechnology journal.

[19]  P. Trivedi,et al.  Genome-wide analysis of the AP2/ERF family in Musa species reveals divergence and neofunctionalisation during evolution , 2016, Scientific Reports.

[20]  Huili Wu,et al.  Genome-Wide Analysis of the AP2/ERF Transcription Factors Family and the Expression Patterns of DREB Genes in Moso Bamboo (Phyllostachys edulis) , 2015, PloS one.

[21]  K. Nam,et al.  A subset of Arabidopsis RAV transcription factors modulates drought and salt stress responses independent of ABA. , 2014, Plant & cell physiology.

[22]  T. Zhao,et al.  The gene family of dehydration responsive element-binding transcription factors in grape (Vitis vinifera): genome-wide identification and analysis, expression profiles, and involvement in abiotic stress resistance , 2014, Molecular Biology Reports.

[23]  P. Hedden,et al.  The role of gibberellin signalling in plant responses to abiotic stress , 2014, Journal of Experimental Biology.

[24]  Y. Li,et al.  Genome-wide analysis of the AP2/ERF transcription factor superfamily in Chinese cabbage (Brassica rapa ssp. pekinensis) , 2013, BMC Genomics.

[25]  M. Schmid,et al.  The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element , 2012, Development.

[26]  Ling-Jian Wang,et al.  The jasmonate-responsive AP2/ERF transcription factors AaERF1 and AaERF2 positively regulate artemisinin biosynthesis in Artemisia annua L. , 2012, Molecular plant.

[27]  K. Shinozaki,et al.  AP2/ERF family transcription factors in plant abiotic stress responses. , 2012, Biochimica et biophysica acta.

[28]  G. He,et al.  AP2/ERF Transcription Factor in Rice: Genome-Wide Canvas and Syntenic Relationships between Monocots and Eudicots , 2012, Evolutionary bioinformatics online.

[29]  A. Daszkowska-Golec,et al.  Arabidopsis seed germination under abiotic stress as a concert of action of phytohormones. , 2011, Omics : a journal of integrative biology.

[30]  Sun-Young Lee,et al.  AtERF71/HRE2 transcription factor mediates osmotic stress response as well as hypoxia response in Arabidopsis. , 2011, Biochemical and biophysical research communications.

[31]  M. K. Reddy,et al.  Expression of OsDREB2A transcription factor confers enhanced dehydration and salt stress tolerance in rice (Oryza sativa L.) , 2011, Biotechnology Letters.

[32]  Sanjaya,et al.  Tomato RAV Transcription Factor Is a Pivotal Modulator Involved in the AP2/EREBP-Mediated Defense Pathway1[W][OA] , 2011, Plant Physiology.

[33]  P. Agarwal,et al.  Stress-inducible DREB2A transcription factor from Pennisetum glaucum is a phosphoprotein and its phosphorylation negatively regulates its DNA-binding activity , 2007, Molecular Genetics and Genomics.

[34]  M. Gribskov,et al.  The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray) , 2006, Science.

[35]  B. Hwang,et al.  Expression and functional roles of the pepper pathogen-induced transcription factor RAV1 in bacterial disease resistance, and drought and salt stress tolerance , 2006, Plant Molecular Biology.

[36]  T. Fujimura,et al.  Genome-Wide Analysis of the ERF Gene Family in Arabidopsis and Rice[W] , 2006, Plant Physiology.

[37]  Jian-Kang Zhu,et al.  Role of an Arabidopsis AP2/EREBP-Type Transcriptional Repressor in Abscisic Acid and Drought Stress Responses , 2005, The Plant Cell Online.

[38]  Sarah Hake,et al.  From Endonucleases to Transcription Factors: Evolution of the AP2 DNA Binding Domain in Plantsw⃞ , 2004, The Plant Cell Online.

[39]  Hajime Sakai,et al.  Regulation of Flowering Time and Floral Organ Identity by a MicroRNA and Its APETALA2-Like Target Genes Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.016238. , 2003, The Plant Cell Online.

[40]  K. Shinozaki,et al.  OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression. , 2003, The Plant journal : for cell and molecular biology.

[41]  Y. Dong,et al.  Systematic functional analysis of the Caenorhabditis elegans genome using RNAi , 2003, Nature.

[42]  G. Taylor,et al.  Populus: arabidopsis for forestry. Do we need a model tree? , 2002, Annals of botany.

[43]  K. Shinozaki,et al.  DNA-binding specificity of the ERF/AP2 domain of Arabidopsis DREBs, transcription factors involved in dehydration- and cold-inducible gene expression. , 2002, Biochemical and biophysical research communications.

[44]  L. van der Fits,et al.  ORCA3, a jasmonate-responsive transcriptional regulator of plant primary and secondary metabolism. , 2000, Science.

[45]  T. MacRae,et al.  Transcription factors and their genes in higher plants functional domains, evolution and regulation. , 1999, European journal of biochemistry.

[46]  E. Stockinger,et al.  Arabidopsis thaliana CBF1 encodes an AP2 domain-containing transcriptional activator that binds to the C-repeat/DRE, a cis-acting DNA regulatory element that stimulates transcription in response to low temperature and water deficit. , 1997, Proceedings of the National Academy of Sciences of the United States of America.

[47]  S. Moose,et al.  Glossy15, an APETALA2-like gene from maize that regulates leaf epidermal cell identity. , 1996, Genes & development.

[48]  Y. Uno,et al.  Functional characterization and expression profiling of a DREB2-type gene from lettuce (Lactuca sativa L.) , 2013, Plant Cell, Tissue and Organ Culture (PCTOC).

[49]  R. Aroca,et al.  Influence of Salinity on the In Vitro Development of Glomus intraradices and on the In Vivo Physiological and Molecular Responses of Mycorrhizal Lettuce Plants , 2007, Microbial Ecology.

[50]  Sun Xiaofang,et al.  Salinity injury to germination and growth of cotton (Gossypium hirsutum L.) at emergence and seedling stages , 2000 .