Genome-wide characterization and identification of candidate ERF genes involved in various abiotic stress responses in sesame (Sesamum indicum L.).
Abiotic stress
ERF gene family
Gene expression
Sesamum indicum
Transcription factors
Journal
BMC plant biology
ISSN: 1471-2229
Titre abrégé: BMC Plant Biol
Pays: England
ID NLM: 100967807
Informations de publication
Date de publication:
24 May 2022
24 May 2022
Historique:
received:
09
11
2021
accepted:
05
05
2022
entrez:
23
5
2022
pubmed:
24
5
2022
medline:
26
5
2022
Statut:
epublish
Résumé
The adverse effects of climate change on crop production are constraining breeders to develop high-quality environmentally stable varieties. Hence, efforts are being made to identify key genes that could be targeted for enhancing crop tolerance to environmental stresses. ERF transcription factors play an important role in various abiotic stresses in plants. However, the roles of the ERF family in abiotic stresses tolerance are still largely unknown in sesame, the "queen" of oilseed crops. In total, 114 sesame ERF genes (SiERFs) were identified and characterized. 96.49% of the SiERFs were distributed unevenly on the 16 linkage groups of the sesame genome. The phylogenetic analysis with the Arabidopsis ERFs (AtERFs) subdivided SiERF subfamily proteins into 11 subgroups (Groups I to X; and VI-L). Genes in the same subgroup exhibited similar structure and conserved motifs. Evolutionary analysis showed that the expansion of ERF genes in sesame was mainly induced by whole-genome duplication events. Moreover, cis-acting elements analysis showed that SiERFs are mostly involved in environmental responses. Gene expression profiles analysis revealed that 59 and 26 SiERFs are highly stimulated under drought and waterlogging stress, respectively. In addition, qRT-PCR analyses indicated that most of SiERFs are also significantly up-regulated under osmotic, submerge, ABA, and ACC stresses. Among them, SiERF23 and SiERF54 were the most induced by both the abiotic stresses, suggesting their potential for targeted improvement of sesame response to multiple abiotic stresses. This study provides a comprehensive understanding of the structure, classification, evolution, and abiotic stresses response of ERF genes in sesame. Moreover, it offers valuable gene resources for functional characterization towards enhancing sesame tolerance to multiple abiotic stresses.
Sections du résumé
BACKGROUND
BACKGROUND
The adverse effects of climate change on crop production are constraining breeders to develop high-quality environmentally stable varieties. Hence, efforts are being made to identify key genes that could be targeted for enhancing crop tolerance to environmental stresses. ERF transcription factors play an important role in various abiotic stresses in plants. However, the roles of the ERF family in abiotic stresses tolerance are still largely unknown in sesame, the "queen" of oilseed crops.
RESULTS
RESULTS
In total, 114 sesame ERF genes (SiERFs) were identified and characterized. 96.49% of the SiERFs were distributed unevenly on the 16 linkage groups of the sesame genome. The phylogenetic analysis with the Arabidopsis ERFs (AtERFs) subdivided SiERF subfamily proteins into 11 subgroups (Groups I to X; and VI-L). Genes in the same subgroup exhibited similar structure and conserved motifs. Evolutionary analysis showed that the expansion of ERF genes in sesame was mainly induced by whole-genome duplication events. Moreover, cis-acting elements analysis showed that SiERFs are mostly involved in environmental responses. Gene expression profiles analysis revealed that 59 and 26 SiERFs are highly stimulated under drought and waterlogging stress, respectively. In addition, qRT-PCR analyses indicated that most of SiERFs are also significantly up-regulated under osmotic, submerge, ABA, and ACC stresses. Among them, SiERF23 and SiERF54 were the most induced by both the abiotic stresses, suggesting their potential for targeted improvement of sesame response to multiple abiotic stresses.
CONCLUSION
CONCLUSIONS
This study provides a comprehensive understanding of the structure, classification, evolution, and abiotic stresses response of ERF genes in sesame. Moreover, it offers valuable gene resources for functional characterization towards enhancing sesame tolerance to multiple abiotic stresses.
Identifiants
pubmed: 35606719
doi: 10.1186/s12870-022-03632-7
pii: 10.1186/s12870-022-03632-7
pmc: PMC9128266
doi:
Substances chimiques
Plant Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
256Subventions
Organisme : China Agriculture Research System
ID : CARS-14
Organisme : China Agriculture Research System
ID : CARS-14
Organisme : Agricultural Science and Technology Innovation Project of Chinese Academy of Agricultural Sciences
ID : CAAS-ASTIP-2016-OCRI
Organisme : Agricultural Science and Technology Innovation Project of Chinese Academy of Agricultural Sciences
ID : CAAS-ASTIP-2016-OCRI
Organisme : Jiangxi Agriculture Research System
ID : JXARS-18
Organisme : National Natural Science Foundation of China
ID : 32060438
Organisme : Jiangxi Provincial Science and Technology Plan projects
ID : GJJ190226
Commentaires et corrections
Type : ErratumIn
Informations de copyright
© 2022. The Author(s).
Références
Mol Biotechnol. 2019 Feb;61(2):153-172
pubmed: 30600447
Plant Physiol. 2013 Jul;162(3):1566-82
pubmed: 23719892
BMC Plant Biol. 2019 Nov 20;19(1):506
pubmed: 31747904
Pharmacogn Rev. 2014 Jul;8(16):147-55
pubmed: 25125886
Sci Rep. 2018 Mar 12;8(1):4331
pubmed: 29531231
Genes (Basel). 2020 Dec 07;11(12):
pubmed: 33297327
Nat Plants. 2020 Nov;6(11):1335-1344
pubmed: 33106638
Nucleic Acids Res. 1997 Dec 15;25(24):4876-82
pubmed: 9396791
Molecules. 2021 Feb 07;26(4):
pubmed: 33562414
Nat Commun. 2020 Aug 14;11(1):4082
pubmed: 32796832
BMC Genomics. 2019 Oct 16;20(1):748
pubmed: 31619177
Trends Plant Sci. 2021 Jan;26(1):23-32
pubmed: 32883605
Plant Cell Physiol. 2011 Feb;52(2):344-60
pubmed: 21169347
Plants (Basel). 2021 Jan 11;10(1):
pubmed: 33440756
Plant Cell. 2016 Jan;28(1):160-80
pubmed: 26668304
Arabidopsis Book. 2013 Nov 01;11:e0166
pubmed: 24273463
Nucleic Acids Res. 2021 Jan 8;49(D1):D458-D460
pubmed: 33104802
Plant Physiol. 2016 Sep;172(1):575-88
pubmed: 27382137
GM Crops Food. 2013 Jan-Mar;4(1):1-9
pubmed: 23160541
BMC Plant Biol. 2016 Jul 30;16(1):171
pubmed: 27475988
Biochem Biophys Res Commun. 2002 Jan 25;290(3):998-1009
pubmed: 11798174
Pharmacogn Mag. 2016 May;12(Suppl 2):S170-4
pubmed: 27279703
Protoplasma. 2017 Jul;254(4):1705-1714
pubmed: 27995331
Allergy. 2016 Oct;71(10):1405-13
pubmed: 27332789
Int J Mol Sci. 2018 May 31;19(6):
pubmed: 29857524
Bioinformatics. 2013 Oct 1;29(19):2487-9
pubmed: 23842809
Funct Integr Genomics. 2014 Sep;14(3):467-77
pubmed: 24902799
Physiol Mol Biol Plants. 2020 Jul;26(7):1463-1476
pubmed: 32647461
Int J Mol Sci. 2020 Sep 23;21(19):
pubmed: 32977426
Plant J. 2012 Jul;71(2):273-87
pubmed: 22417285
PLoS One. 2020 Mar 16;15(3):e0226055
pubmed: 32176699
Genes (Basel). 2019 Sep 26;10(10):
pubmed: 31561536
Mol Plant. 2020 Aug 3;13(8):1194-1202
pubmed: 32585190
J Exp Bot. 2012 Jun;63(10):3899-911
pubmed: 22442415
Plant Physiol. 2006 Feb;140(2):411-32
pubmed: 16407444
BMC Genomics. 2016 Aug 03;17:538
pubmed: 27488048
BMC Plant Biol. 2021 Sep 7;21(1):408
pubmed: 34493199
Front Plant Sci. 2014 Nov 11;5:640
pubmed: 25426135
Sci Rep. 2017 Aug 18;7(1):8755
pubmed: 28821876
Mol Biol Evol. 2011 Oct;28(10):2731-9
pubmed: 21546353
Sci Data. 2019 Oct 15;6(1):204
pubmed: 31615988
Front Plant Sci. 2020 Sep 04;11:566647
pubmed: 33013987
Genes (Basel). 2019 Sep 30;10(10):
pubmed: 31575043
Foods. 2020 Mar 30;9(4):
pubmed: 32235516
Hortic Res. 2019 Jul 1;6:83
pubmed: 31645944
J Exp Bot. 2009;60(13):3781-96
pubmed: 19602544
3 Biotech. 2020 Mar;10(3):139
pubmed: 32158635
Food Chem. 2019 Aug 15;289:360-368
pubmed: 30955624
Genom Data. 2017 Jan 27;11:122-124
pubmed: 28180087
Eur J Pharmacol. 2017 Nov 15;815:512-521
pubmed: 29032105
BMC Plant Biol. 2019 Feb 20;19(1):84
pubmed: 30786863
Nucleic Acids Res. 2021 Jan 8;49(D1):D412-D419
pubmed: 33125078
J Exp Bot. 2017 Jan 1;68(3):673-685
pubmed: 28204526
BMC Plant Biol. 2017 Sep 11;17(1):152
pubmed: 28893196
Int J Mol Sci. 2019 Aug 13;20(16):
pubmed: 31412539
Genes (Basel). 2017 Dec 12;8(12):
pubmed: 29231869
Biochem Biophys Res Commun. 2011 Oct 14;414(1):135-41
pubmed: 21946064
Methods. 2001 Dec;25(4):402-8
pubmed: 11846609
Genomics. 2021 Jan;113(1 Pt 1):276-290
pubmed: 33249174
PLoS One. 2016 Mar 02;11(3):e0149912
pubmed: 26934874
Ecotoxicology. 2017 Aug;26(6):841-854
pubmed: 28536792
Plant Physiol. 2015 Sep;169(1):23-31
pubmed: 25944828
J Exp Bot. 2008;59(15):4095-107
pubmed: 18832187
PLoS One. 2014 Jun 06;9(6):e99168
pubmed: 24905353
Crit Rev Food Sci Nutr. 2007;47(7):651-73
pubmed: 17943496
Mol Genet Genomics. 2010 Dec;284(6):455-75
pubmed: 20922546
Front Genet. 2021 Mar 31;12:632155
pubmed: 33868370
DNA Cell Biol. 2019 Oct;38(10):1056-1068
pubmed: 31403329
BMC Plant Biol. 2019 Jun 20;19(1):267
pubmed: 31221078
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W202-8
pubmed: 19458158
Plants (Basel). 2019 Jun 29;8(7):
pubmed: 31261970
Front Plant Sci. 2019 Jul 23;10:940
pubmed: 31396249