Comparative transcriptome analysis highlights the crucial roles of photosynthetic system in drought stress adaptation in upland rice

Scientific Reports
Zheng-Feng ZhangBen-Ze Xiao

Abstract

Drought stress is one of the major adverse environmental factors reducing plant growth. With the aim to elucidate the underlying molecular basis of rice response to drought stress, comparative transcriptome analysis was conducted between drought susceptible rice cultivar Zhenshan97 and tolerant cultivar IRAT109 at the seedling stage. 436 genes showed differential expression and mainly enriched in the Gene Ontology (GO) terms of stress defence. A large number of variations exist between these two genotypes including 2564 high-quality insertion and deletions (INDELs) and 70,264 single nucleotide polymorphism (SNPs). 1041 orthologous gene pairs show the ratio of nonsynonymous nucleotide substitution rate to synonymous nucleotide substitutions rate (Ka/Ks) larger than 1.5, indicating the rapid adaptation to different environments during domestication. GO and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis of positive selection genes suggested that photosynthesis represents the most significant category. The collocation of positively selected genes with the QTLs of photosynthesis and the different photosynthesis performance of these two cultivars further illuminate the crucial function of photosynthesis in rice ad...Continue Reading

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Citations

Mar 29, 2019·Scientific Reports·Amol S PhulePolumetla A Kumar
Nov 22, 2016·Frontiers in Plant Science·Muthusamy MuthusamyArumugam Chandrasekar
Aug 14, 2019·Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology·Yan-Fei CaiShi-Bao Zhang
Apr 20, 2019·Scientific Reports·Stephen P Cohen, Jan E Leach
Sep 5, 2021·Plant Physiology and Biochemistry : PPB·Tingting SunBeibei Zhou
Sep 17, 2021·Frontiers in Plant Science·Concetta BurgarellaDavid Pot

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Datasets Mentioned

BETA
IRAT109

Methods Mentioned

BETA
reverse transcription-PCR
electrophoresis
PCR
RNA seq
genotyping
Illumina sequencing

Software Mentioned

BLASTN
PAL2NAL
_ Calculator
in
TopHat
house Perl script
R scripts
Samtool
BCFtools
BLASTX

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