Diel O2 Dynamics in Partially and Completely Submerged Deepwater Rice: Leaf Gas Films Enhance Internodal O2 Status, Influence Gene Expression and Accelerate Stem Elongation for ‘Snorkelling’ during Submergence

Rice growth is greatly affected by temperature. To examine how temperature influences gene expression in rice on a genome-wide basis, we utilised recently compiled next-generation sequencing datasets and characterised a number of RNA-sequence transcriptome samples in rice seedling leaf blades at 25°C and 30°C. Our analysis indicated that 50.4% of all genes in the rice genome (28,296/56,143) were expressed in rice samples grown at 25°C, whereas slightly fewer genes (50.2%; 28,189/56,143) were expressed in rice leaf blades grown at 30°C. Among the genes that were expressed, approximately 3% were highly expressed, whereas approximately 65% had low levels of expression. Further examination demonstrated that 821 genes had a twofold or higher increase in expression and that 553 genes had a twofold or greater decrease in expression at 25°C. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses suggested that the ribosome pathway and multiple metabolic pathways were upregulated at 25°C. Based on these results, we deduced that gene expression at both transcriptional and translational levels was stimulated at 25°C, perhaps in response to a suboptimal temperature condition. Finally, we observed that temperature markedly regulates several super-families of transcription factors, including bZIP, MYB, and WRKY.

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Nucleotides upstream of the Kozak sequence strongly influence gene expression in the yeast S. cerevisiae

Journal of Biological Engineering ◽

10.1186/s13036-017-0068-1 ◽

2017 ◽

Vol 11 (1) ◽

Cited By ~ 10

Author(s):

Jing Li ◽

Qiang Liang ◽

Wenjiang Song ◽

Mario Andrea Marchisio

Keyword(s):

Gene Expression ◽

Kozak Sequence ◽

Influence Gene Expression

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Plant origin and ploidy influence gene expression and life cycle characteristics in an invasive weed

BMC Plant Biology ◽

10.1186/1471-2229-9-33 ◽

2009 ◽

Vol 9 (1) ◽

pp. 33 ◽

Cited By ~ 22

Author(s):

Amanda K Broz ◽

Daniel K Manter ◽

Gillianne Bowman ◽

Heinz Müller-Schärer ◽

Jorge M Vivanco

Keyword(s):

Gene Expression ◽

Life Cycle ◽

Plant Origin ◽

Invasive Weed ◽

Influence Gene Expression

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Prostaglandins A1 and E1 influence gene expression in an established insect cell line (BCIRL-HzAM1 cells)

Insect Biochemistry and Molecular Biology ◽

10.1016/j.ibmb.2007.11.004 ◽

2008 ◽

Vol 38 (3) ◽

pp. 275-284 ◽

Cited By ~ 34

Author(s):

D STANLEY ◽

C GOODMAN ◽

S AN ◽

A MCINTOSH ◽

Q SONG

Keyword(s):

Gene Expression ◽

Cell Line ◽

Insect Cell ◽

Insect Cell Line ◽

Influence Gene Expression

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Whole genome expression as a quantitative trait

Biochemical Society Transactions ◽

10.1042/bst0371276 ◽

2009 ◽

Vol 37 (6) ◽

pp. 1276-1277 ◽

Cited By ~ 7

Author(s):

John Hardy ◽

Danyah Trabzuni ◽

Mina Ryten

Keyword(s):

Gene Expression ◽

Genetic Variability ◽

Disease Risk ◽

Neurological Diseases ◽

Whole Genome ◽

Genome Expression ◽

Genome Analyses ◽

Whole Genome Expression ◽

Influence Gene Expression ◽

Gene Expression Levels

Surprisingly, whole genome analyses of complex human neurological and psychiatric disorders have revealed that many genetic risk factors are likely to influence gene expression rather than alter protein sequences. Previous analyses of neurological diseases have shown that genetic variability in gene expression levels of deposited proteins influence disease risk. With this background, we have embarked on a comprehensive project to determine the effects of common genetic variability on whole genome gene expression.

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