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Transcription profiling of wild type Basmati 370 and its T-DNA insertional mutant OsAPC6.

ABSTRACT: The aim of this study was to look for the changes at the transcriptome level caused by the insertion of a T-DNA in mutant of Basmati 370 with dwarf phenotype. The comparative analysis of differentially expressed genes was conducted individually and collectively for both.

ORGANISM(S): Oryza sativa Oryza sativa Indica Group

PROVIDER: GSE31200 | GEO | 2013/12/31

SECONDARY ACCESSION(S): PRJNA144741

REPOSITORIES: GEO

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Transcription profiling of wild type Basmati 370 and its T-DNA insertional mutant OsAPC6.

Project description:The aim of this study was to look for the changes at the transcriptome level caused by the insertion of a T-DNA in mutant of Basmati 370 with dwarf phenotype. The comparative analysis of differentially expressed genes was conducted individually and collectively for both. RNA from wild type Basmati 370 and its mutant OsAPC6 grown under optimal conditions were analyzed in two different biological replications (A and B) making total four samples.

2013-12-31 | E-GEOD-31200 | biostudies-arrayexpress

Transcription profiling of Basmati T-DNA insertional mutant lines

2013-12-31 | GSE31248 | GEO

Transcription profiling of Basmati T-DNA insertional mutant lines

Project description:The aim of this study was to look for the changes at the transcriptome level caused by the same T-DNA cassette in three mutants of Basmati 370 with different phenotypes. The comparative analysis of differentially expressed genes was conducted individually and collectively for all three mutants. RNA from Basmati mutants OsPE, Osoc and Ossl grown under optimal conditions were analyzed in two different biological replications (A and B) making total six samples.

2013-12-31 | E-GEOD-31248 | biostudies-arrayexpress

Oryza sativa cultivar:Basmati 370

Project description:Basmati 370 Genome Sequencing

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Comparing genome-wide H3K36me3 levels in WT vs. dKDM4A mutant

Project description:dKDM4A is a Drosophila H3 K9/K36 me2/me3 demethylase, which has been disrupted here by P-element insertion. We compare whole-genome ChIP-chip in mutant and WT to look for target genes of dKDM4A.

2012-07-10 | GSE37016 | GEO

Comparing genome-wide H3K36me3 levels in WT vs. dKDM4A mutant

2012-07-09 | E-GEOD-37016 | biostudies-arrayexpress

Ulva insertional mutant analysis

Project description:Ulva insertional mutant analysis

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Tn-Seq Survival Profiling

Project description:A Tn5 transposon insertion library generated in a thyA- strain was selected in thymidine-free media and insertions were mapped and sequenced at different time points to look for changes in survival caused by gene disruptions

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Identification of changes in gene expression in seedlings of the ashh2/sdg8 Arabidopsis mutant

Project description:Mutation of the ASHH2 gene has pleiotropic developmental effects. The aim of the study was to identify changes in gene expression in seedlings of the ashh2-1/sdg8-1 mutant (SALK_065480, insertion in the gene At1g77300, SDG8/EFS/ASHH2) and look for correlation wth changes in methylation marks on histone tails. Wild type Arabidopsis thaliana (ecotype Colombia) seedlings were used as reference. For low-expresssed tissue-specific genes there was a correlation between reduced H3K36me3 levels and reduction in expression. Although some highly expressed genes with low tissue-specificity show reduced H3K36me3 levels in the mutant, expression levels were, however, not affeccted.

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Whole genome transcriptome profiling of Pusa 1266 and Pusa Basmati 1 in panicle primordia stage

Project description:The aim of this study was to identify candidate genes responsible for grain number per panicle between a pair of rice varieties (Pusa 1266 and Pusa Basmati 1) by combining QTL analysis with expression analysis. Microarray analysis of RNA extracted from the panicle primordia showed 2741 differentially expressed genes. The differentially expressed genes were shortened to 18 on the basis of their occurance in the QTL region (responsible for grain number regulation) detected in RIL population derived from Pusa 1266 and Pusa Basmati 1. RNA from the stage '0' panicle primordia of Pusa 1266 and Pusa Basmati 1 were analysed in two different biological replications (A and B) making total four samples

2010-04-28 | E-GEOD-15912 | biostudies-arrayexpress

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