GmDREB1 Overexpression Affects the Expression of MicroRNAs in GM Wheat Seeds

Overview

Journal PLoS One

Specialties General Medicine
Science

Date 2017 May 2

PMID 28459812

Citations 6

Authors

Qiyan Jiang

Xianjun Sun

Fengjuan Niu

Zheng Hu

Rui Chen

Hui Zhang

Affiliations

Soon will be listed here.

Abstract

MicroRNAs (miRNAs) are small regulators of gene expression that act on many different molecular and biochemical processes in eukaryotes. To date, miRNAs have not been considered in the current evaluation system for GM crops. In this study, small RNAs from the dry seeds of a GM wheat line overexpressing GmDREB1 and non-GM wheat cultivars were investigated using deep sequencing technology and bioinformatic approaches. As a result, 23 differentially expressed miRNAs in dry seeds were identified and confirmed between GM wheat and a non-GM acceptor. Notably, more differentially expressed tae-miRNAs between non-GM wheat varieties were found, indicating that the degree of variance between non-GM cultivars was considerably higher than that induced by the transgenic event. Most of the target genes of these differentially expressed miRNAs between GM wheat and a non-GM acceptor were associated with abiotic stress, in accordance with the product concept of GM wheat in improving drought and salt tolerance. Our data provided useful information and insights into the evaluation of miRNA expression in edible GM crops.

Citing Articles

Integrated Analysis of Small RNA, Transcriptome, and Degradome Sequencing Reveals the Water-Deficit and Heat Stress Response Network in Durum Wheat.

Liu H, Able A, Able J Int J Mol Sci. 2020; 21(17).

PMID: 32825615 PMC: 7504575. DOI: 10.3390/ijms21176017.

Identification of small RNAs during cold acclimation in Arabidopsis thaliana.

Tiwari B, Habermann K, Arif M, Weil H, Garcia-Molina A, Kleine T BMC Plant Biol. 2020; 20(1):298.

PMID: 32600430 PMC: 7325139. DOI: 10.1186/s12870-020-02511-3.

Advances in the development and use of for improved abiotic stress tolerance in transgenic crop plants.

Sarkar T, Thankappan R, Mishra G, Nawade B Physiol Mol Biol Plants. 2019; 25(6):1323-1334.

PMID: 31736537 PMC: 6825097. DOI: 10.1007/s12298-019-00711-2.

Development of Drought-Tolerant Transgenic Wheat: Achievements and Limitations.

Khan S, Anwar S, Yu S, Sun M, Yang Z, Gao Z Int J Mol Sci. 2019; 20(13).

PMID: 31288392 PMC: 6651533. DOI: 10.3390/ijms20133350.

Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness.

Luo X, Cao D, Zhang J, Chen L, Xia X, Li H Sci Rep. 2018; 8(1):9292.

PMID: 29915181 PMC: 6006261. DOI: 10.1038/s41598-018-27664-y.

References

Liu H, Tian X, Li Y, Wu C, Zheng C . Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana. RNA. 2008; 14(5):836-43. PMC: 2327369. DOI: 10.1261/rna.895308. View

Addo-Quaye C, Miller W, Axtell M . CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets. Bioinformatics. 2008; 25(1):130-1. PMC: 3202307. DOI: 10.1093/bioinformatics/btn604. View

Kozomara A, Griffiths-Jones S . miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res. 2013; 42(Database issue):D68-73. PMC: 3965103. DOI: 10.1093/nar/gkt1181. View

Kinoshita N, Wang H, Kasahara H, Liu J, MacPherson C, Machida Y . IAA-Ala Resistant3, an evolutionarily conserved target of miR167, mediates Arabidopsis root architecture changes during high osmotic stress. Plant Cell. 2012; 24(9):3590-602. PMC: 3480289. DOI: 10.1105/tpc.112.097006. View

Love M, Huber W, Anders S . Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014; 15(12):550. PMC: 4302049. DOI: 10.1186/s13059-014-0550-8. View

Koch A, Kumar N, Weber L, Keller H, Imani J, Kogel K . Host-induced gene silencing of cytochrome P450 lanosterol C14α-demethylase-encoding genes confers strong resistance to Fusarium species. Proc Natl Acad Sci U S A. 2013; 110(48):19324-9. PMC: 3845197. DOI: 10.1073/pnas.1306373110. View

Schmittgen T, Livak K . Analyzing real-time PCR data by the comparative C(T) method. Nat Protoc. 2008; 3(6):1101-8. DOI: 10.1038/nprot.2008.73. View

Feng H, Huang X, Zhang Q, Wei G, Wang X, Kang Z . Selection of suitable inner reference genes for relative quantification expression of microRNA in wheat. Plant Physiol Biochem. 2011; 51:116-22. DOI: 10.1016/j.plaphy.2011.10.010. View

Cao D, Li Y, Wang J, Nan H, Wang Y, Lu S . GmmiR156b overexpression delays flowering time in soybean. Plant Mol Biol. 2015; 89(4-5):353-63. DOI: 10.1007/s11103-015-0371-5. View

10.

Chen R, Jiang N, Jiang Q, Sun X, Wang Y, Zhang H . Exploring microRNA-like small RNAs in the filamentous fungus Fusarium oxysporum. PLoS One. 2014; 9(8):e104956. PMC: 4139310. DOI: 10.1371/journal.pone.0104956. View

11.

Xie Z, Khanna K, Ruan S . Expression of microRNAs and its regulation in plants. Semin Cell Dev Biol. 2010; 21(8):790-7. PMC: 2939293. DOI: 10.1016/j.semcdb.2010.03.012. View

12.

Zhang Y, Wiggins B, Lawrence C, Petrick J, Ivashuta S, Heck G . Analysis of plant-derived miRNAs in animal small RNA datasets. BMC Genomics. 2012; 13:381. PMC: 3462722. DOI: 10.1186/1471-2164-13-381. View

13.

Wu G, Park M, Conway S, Wang J, Weigel D, Poethig R . The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis. Cell. 2009; 138(4):750-9. PMC: 2732587. DOI: 10.1016/j.cell.2009.06.031. View

14.

Wu L, Zhang Q, Zhou H, Ni F, Wu X, Qi Y . Rice MicroRNA effector complexes and targets. Plant Cell. 2009; 21(11):3421-35. PMC: 2798332. DOI: 10.1105/tpc.109.070938. View

15.

Unver T, Namuth-Covert D, Budak H . Review of current methodological approaches for characterizing microRNAs in plants. Int J Plant Genomics. 2009; 2009:262463. PMC: 2760397. DOI: 10.1155/2009/262463. View

16.

Nag A, King S, Jack T . miR319a targeting of TCP4 is critical for petal growth and development in Arabidopsis. Proc Natl Acad Sci U S A. 2009; 106(52):22534-9. PMC: 2799693. DOI: 10.1073/pnas.0908718106. View

17.

Witwer K, McAlexander M, Queen S, Adams R . Real-time quantitative PCR and droplet digital PCR for plant miRNAs in mammalian blood provide little evidence for general uptake of dietary miRNAs: limited evidence for general uptake of dietary plant xenomiRs. RNA Biol. 2013; 10(7):1080-6. PMC: 3849155. DOI: 10.4161/rna.25246. View

18.

Ewen S, Pusztai A . Effect of diets containing genetically modified potatoes expressing Galanthus nivalis lectin on rat small intestine. Lancet. 1999; 354(9187):1353-4. DOI: 10.1016/S0140-6736(98)05860-7. View

19.

Borsani O, Zhu J, Verslues P, Sunkar R, Zhu J . Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell. 2005; 123(7):1279-91. PMC: 3137516. DOI: 10.1016/j.cell.2005.11.035. View

20.

Nowara D, Gay A, Lacomme C, Shaw J, Ridout C, Douchkov D . HIGS: host-induced gene silencing in the obligate biotrophic fungal pathogen Blumeria graminis. Plant Cell. 2010; 22(9):3130-41. PMC: 2965548. DOI: 10.1105/tpc.110.077040. View