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Article
Open AccessRice protein-binding microarrays: a tool to detect cis-acting elements near promoter regions in rice
The present study showed that a rice (Oryza sativa)-specific protein-binding microarray (RPBM) can be applied to analyze DNA-binding motifs with a TF where binding is evaluated in extended natural promoter region...
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Article
Silencing of class I small heat shock proteins affects seed-related attributes and thermotolerance in rice seedlings
Silencing of CI-sHsps by RNAi negatively affected the seed germination process and heat stress response of rice seedlings. Seed size of RNAiCI-sHsp was reduced as compared to wild-type plants.
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Article
Open AccessDevelopment of Tos17 insertion mutants from Korean cultivars ‘Ilmibyeo’ and ‘Baeg**ju1ho’ (Oryza sativa L.)
Rice is one of the most important crops globally and a model plant for genomic studies of monocots. With the release of complete genome sequences, the next challenge is to develop various resources based on fu...
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Article
Gene Expression Profiling Provides Insight into the Escape Behavior of Deepwater Rice During Submergence
Submergence harms plants by limiting gas exchange and decreasing incoming light. Upon prolonged flooding, deepwater rice (Oryza sativa) escapes complete submergence by rapid stem growth, but the mechanism of stem...
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Article
Intergenic transformation of AtMYB44 confers drought stress tolerance in rice seedlings
We transformed rice (Oryza sativa L. Japonica cv. Ilmi) calli with the Arabidopsis transcription factor gene AtMYB44 using Agrobacterium-mediated transformation. The T-DNA construct to be transformed contained tf...
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Article
Open AccessGenome-wide identification of grain filling genes regulated by the OsSMF1 transcription factor in rice
Spatial- and temporal-specific expression patterns are primarily regulated at the transcriptional level by gene promoters. Therefore, it is important to identify the binding motifs of transcription factors to ...
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Article
Enhanced resistance of PsbS-deficient rice (Oryza sativa L.) to fungal and bacterial pathogens
The 22-kDa PsbS protein of Photosystem II is involved in nonphotochemical quenching (NPQ) of chlorophyll fluorescence. Genome-wide analysis of the expression pattern in PsbS knockout (KO) rice plants showed that ...
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Article
Analysis of representative organ-specific genes and promoters of rice using a 3’ ORF-oriented long oligomer microarray
Organ-specific transcription factors and promoters are likely to be useful for testing the effects of changes in expression of regulatory genes related to agronomical traits in rice. Here, we analyze the trans...
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Article
Determination of the consensus sequence for FUS3-specific binding by protein binding microarray analysis
A protein binding microarray (PBM) analysis was performed to determine the nucleotide sequence responsible for the specific binding of FUS3, a transcription factor in Arabidopsis that is considered to be a master...
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Article
Open AccessGenome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species
Doil Choi and colleagues report the genome sequence of the hot pepper, Capsicum annuum, as well as the resequencing of two cultivated peppers and a wild species, Capsicum chinense. Comparative genomic analysis ac...
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Article
Coexpression network analysis associated with call of rice seedlings for encountering heat stress
Coexpression network analysis is useful tool for identification of functional association of coexpressed genes. We developed a coexpression network of rice from heat stress transcriptome data. Global transcrip...
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Article
Open AccessTranscriptome analysis of leaf and root of rice seedling to acute dehydration
Water deficiency is one of the most serious worldwide problems for agriculture. Recently, it has become more serious and outspread, which urgently requires the production of drought-tolerant plants. Microarray...
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Article
A transcriptional repressor of the ERF family confers drought tolerance to rice and regulates genes preferentially located on chromosome 11
Plant-specific ethylene response factors (ERFs) play important roles in abiotic and biotic stress responses in plants. Using a transgenic approach, we identified two rice ERF genes, OsERF4a and OsERF10a, which co...
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Article
Rice ASR1 has function in abiotic stress tolerance during early growth stages of rice
OsASR1 expression was induced through Abscisic acid (ABA) and stress treatments in leaves. The constitutive overexpression of OsASR1 in rice reduced ABA sensitivity, and increased high salinity a...
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Article
Abiotic stress responsive rice ASR1 and ASR3 exhibit different tissue-dependent sugar and hormone-sensitivities
The expression of the six rice ASR genes is differentially regulated in a tissue-dependent manner according to environmental conditions and reproductive stages. OsASR1 and OsASR3 are the most abundant and are fou...
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Article
Proteasome down-regulation is partly mediated by Slug/Snail2 in hepatocarcinoma cells
Snail family proteins (Snail1 and Slug/Snail2) are transcription factors that regulate transcription of molecules during epithelial-mesenchymal transition (EMT). Snail1/2 is known to bind to the E-box motif (C...
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Article
Quadruple 9-mer-based protein binding microarray analysis of the arabidopsis transcription factor AtMYB77
Binding sequence specificity of the Arabidopsis transcription factor AtMYB77 was determined by the quadruple 9-mer-based protein binding microarray (Q9-PBM) analysis. The position weight matrix and Wilcoxon-Ma...
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Article
Quadruple 9-mer-based protein binding microarray analysis confirms AACnG as the consensus nucleotide sequence sufficient for the specific binding of AtMYB44
AtMYB44 is a member of the R2R3 MYB subgroup 22 transcription factors and regulates diverse cellular responses in Arabidopsis thaliana. We performed quadruple 9-merbased protein binding microarray (PBM) analysis,...
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Article
Structural and expression analysis of prolamin genes in Oryza sativa L.
Rice is a staple crop with a small genome of 389 Mb. Rice grain is a source of carbohydrates and proteins and has a relatively low protein content compared to other legume seeds. Glutelin and prolamin are the ...
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Article
Open AccessFSTVAL: a new web tool to validate bulk flanking sequence tags
Information about a transgene locus is one of the major concerns in transgenic research because expression of the transgene or a gene interrupted by the integration event could be affected. Thus, the flanking ...
