Table_2_Expansion and Molecular Characterization of AP2/ERF Gene Family in Wheat (Triticum aestivum L.).xlsx
The AP2/ERF is a large protein family of transcription factors, playing an important role in signal transduction, plant growth, development, and response to various stresses. AP2/ERF super-family is identified and functionalized in a different plant but no comprehensive and systematic analysis in wheat (Triticum aestivum L.) has been reported. However, a genome-wide and functional analysis was performed and identified 322 TaAP2/ERF putative genes from the wheat genome. According to the phylogenetic and structural analysis, TaAP2/ERF genes were divided into 12 subfamilies (Ia, Ib, Ic, IIa, IIb, IIc, IIIa, IIIb, IIIc, IVa, IVb, and IVc). Furthermore, conserved motifs and introns/exons analysis revealed may lead to functional divergence within clades. Cis-Acting analysis indicated that many elements were involved in stress-related and plant development. Chromosomal location showed that 320 AP2/ERF genes were distributed among 21 chromosomes and 2 genes were present in a scaffold. Interspecies microsynteny analysis revealed that maximum orthologous between Arabidopsis, rice followed by wheat. Segment duplication events have contributed to the expansion of the AP2/ERF family and made this family larger than rice and Arabidopsis. Additionally, AP2/ERF genes were differentially expressed in wheat seedlings under the stress treatments of heat, salt, and drought, and expression profiles were verified by qRT-PCR. Remarkably, the RNA-seq data exposed that AP2/ERF gene family might play a vital role in stress-related. Taken together, our findings provided useful and helpful information to understand the molecular mechanism and evolution of the AP2/ERF gene family in wheat.
History
References
- https://doi.org//10.1126/science.1086391
- https://doi.org//10.1126/science.aar7191
- https://doi.org//10.1105/tpc.016238
- https://doi.org//10.1093/pcp/pcu023
- https://doi.org//10.1093/nar/gkh686
- https://doi.org//10.1104/pp.15.01667
- https://doi.org//10.1007/s12033-012-9628-2
- https://doi.org//10.1038/srep21623
- https://doi.org//10.1186/s12864-016-2968-8
- https://doi.org//10.3389/fpls.2019.00017
- https://doi.org//10.1038/srep37379
- https://doi.org//10.1007/s11105-015-0851-4
- https://doi.org//10.3390/genes11121464
- https://doi.org//10.1073/pnas.242624899
- https://doi.org//10.3389/fpls.2015.01142
- https://doi.org//10.1105/tpc.12.3.393
- https://doi.org//10.1007/s10265-011-0412-3
- https://doi.org//10.1038/nature08258
- https://doi.org//10.1590/1678-4324-2019180715
- https://doi.org//10.1016/S0753-3322(02)00333-5
- https://doi.org//10.1007/s00425-004-1412-5
- https://doi.org//10.1093/bioinformatics/btu817
- https://doi.org//10.1038/sj.cr.7290197
- https://doi.org//10.1111/nph.12131
- https://doi.org//10.1093/pcp/pci230
- https://doi.org//10.1105/tpc.18.00304
- https://doi.org//10.1016/j.cj.2014.02.003
- https://doi.org//10.1073/pnas.0409893102
- https://doi.org//10.1186/1939-8433-6-1
- https://doi.org//10.1105/tpc.8.2.137
- https://doi.org//10.1038/srep18878
- https://doi.org//10.1093/bioinformatics/btm404
- https://doi.org//10.1371/journal.pone.0113092
- https://doi.org//10.1093/jxb/err210
- https://doi.org//10.1023/A:1022614001371
- https://doi.org//10.1111/j.1365-313X.2011.04804.x
- https://doi.org//10.1186/s12284-014-0031-4
- https://doi.org//10.1093/nar/30.1.325
- https://doi.org//10.1093/nar/gku949
- https://doi.org//10.1105/tpc.114.134338
- https://doi.org//10.1186/1471-2164-11-719
- https://doi.org//10.1111/nph.12291
- https://doi.org//10.1046/j.1432-1327.1999.00349.x
- https://doi.org//10.1371/journal.pgen.1003790
- https://doi.org//10.1186/s12870-015-0511-8
- https://doi.org//10.1006/meth.2001.1262
- https://doi.org//10.1104/pp.107.110379
- https://doi.org//10.1016/j.compbiolchem.2020.107346
- https://doi.org//10.1093/nar/gkw1129
- https://doi.org//10.1007/s13205-020-2120-y
- https://doi.org//10.1016/0959-437X(94)90066-3
- https://doi.org//10.1016/j.bbagrm.2011.08.004
- https://doi.org//10.1101/gad.10.23.3018
- https://doi.org//10.1104/pp.105.073783
- https://doi.org//10.1105/tpc.13.8.1959
- https://doi.org//10.1073/pnas.94.13.7076
- https://doi.org//10.1104/pp.010862
- https://doi.org//10.1186/s12870-015-0692-1
- https://doi.org//10.1111/j.1365-313X.2007.03034.x
- https://doi.org//10.1016/j.plantsci.2017.10.006
- https://doi.org//10.4137/EBO.S9369
- https://doi.org//10.1093/bib/6.2.118
- https://doi.org//10.1006/bbrc.2001.6299
- https://doi.org//10.1073/pnas.0605639103
- https://doi.org//10.1016/j.pbi.2017.10.002
- https://doi.org//10.1105/tpc.113.113068
- https://doi.org//10.1016/j.gene.2005.08.009
- https://doi.org//10.3389/fpls.2015.01247
- https://doi.org//10.1186/1471-2164-14-573
- https://doi.org//10.1073/pnas.0711034105
- https://doi.org//10.1093/molbev/mst197
- https://doi.org//10.1186/1471-2164-15-422
- https://doi.org//10.1093/jxb/erm224
- https://doi.org//10.1111/nph.15890
- https://doi.org//10.1631/jzus.B1600223
- https://doi.org//10.1186/s12864-016-2993-7
- https://doi.org//10.1007/s11103-008-9340-6
- https://doi.org//10.1016/j.tplants.2004.12.007
- https://doi.org//10.1093/jxb/erq206
- https://doi.org//10.3389/fbioe.2015.00101
- https://doi.org//10.3389/fpls.2017.01948
- https://doi.org//10.1007/s11033-020-05598-x
- https://doi.org//10.1186/1471-2164-14-785
- https://doi.org//10.1139/B08-041
- https://doi.org//10.1007/s11103-007-9237-9
- https://doi.org//10.4238/2013.May.13.1
- https://doi.org//10.1104/pp.111.172486
- https://doi.org//10.1002/prot
- https://doi.org//10.4238/2012.october.17.6
- https://doi.org//10.1093/jxb/ern248
- https://doi.org//10.1186/1471-2164-15-898
- https://doi.org//10.3389/fpls.2019.01286
- https://doi.org//10.1104/pp.113.229575
- https://doi.org//10.1016/j.bbrc.2008.04.087
Usage metrics
Read the peer-reviewed publication
Categories
- Gene and Molecular Therapy
- Biomarkers
- Genetics
- Genetically Modified Animals
- Developmental Genetics (incl. Sex Determination)
- Epigenetics (incl. Genome Methylation and Epigenomics)
- Gene Expression (incl. Microarray and other genome-wide approaches)
- Livestock Cloning
- Genome Structure and Regulation
- Genetic Engineering
- Genomics