Allelic variants of OsSUB1A cause differential expression of transcription factor genes in response to submergence in rice
| Autor: | Bernd Mueller-Roeber, Niharika Sharma, Sigrid Heuer, Slobodan Ruzicic, Namrata Singh, Trang T. M. Dang, Ute Baumann |
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| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
0106 biological sciences
0301 basic medicine SUB1A Soil Science Locus (genetics) Single-nucleotide polymorphism Plant Science Biology lcsh:Plant culture 01 natural sciences 03 medical and health sciences chemistry.chemical_compound ddc:570 Gene expression Transcription factors ddc:630 MYB lcsh:SB1-1110 Allele Gene Institut für Biochemie und Biologie Genetics Jasmonic acid food and beverages 030104 developmental biology chemistry Submergence tolerance Original Article ddc:640 Rice Mathematisch-Naturwissenschaftliche Fakultät Transcription Factor Gene Agronomy and Crop Science 010606 plant biology & botany |
| Zdroj: | Rice, Vol 11, Iss 1, Pp 1-19 (2018) Rice |
| Popis: | Background: Flooding during seasonal monsoons affects millions of hectares of rice-cultivated areas across Asia. Submerged rice plants die within a week due to lack of oxygen, light and excessive elongation growth to escape the water. Submergence tolerance was first reported in an aus-type rice landrace, FR13A, and the ethylene-responsive transcription factor (TF) gene SUB1A-1 was identified as the major tolerance gene. Intolerant rice varieties generally lack the SUB1A gene but some intermediate tolerant varieties, such as IR64, carry the allelic variant SUB1A-2. Differential effects of the two alleles have so far not been addressed. As a first step, we have therefore quantified and compared the expression of nearly 2500 rice TF genes between IR64 and its derived tolerant near isogenic line IR64-Sub1, which carries the SUB1A-1 allele. Gene expression was studied in internodes, where the main difference in expression between the two alleles was previously shown. Results: Nineteen and twenty-six TF genes were identified that responded to submergence in IR64 and IR64-Sub1, respectively. Only one gene was found to be submergence-responsive in both, suggesting different regulatory pathways under submergence in the two genotypes. These differentially expressed genes (DEGs) mainly included MYB, NAC, TIFY and Zn-finger TFs, and most genes were downregulated upon submergence. In IR64, but not in IR64-Sub1, SUB1B and SUB1C, which are also present in the Sub1 locus, were identified as submergence responsive. Four TFs were not submergence responsive but exhibited constitutive, genotype-specific differential expression. Most of the identified submergence responsive DEGs are associated with regulatory hormonal pathways, i.e. gibberellins (GA), abscisic acid (ABA), and jasmonic acid (JA), apart from ethylene. An in-silico promoter analysis of the two genotypes revealed the presence of allele-specific single nucleotide polymorphisms, giving rise to ABRE, DRE/CRT, CARE and Site II cis-elements, which can partly explain the observed differential TF gene expression. Conclusion: This study identified new gene targets with the potential to further enhance submergence tolerance in rice and provides insights into novel aspects of SUB1A-mediated tolerance. Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe, 619 |
| Databáze: | OpenAIRE |
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