Unknown,Transcriptomics,Genomics,Proteomics

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Comparison of class-B GATA overexpression transcriptomes

ABSTRACT: We have used Agilent whole genome arrays (v4) to compare the gene expression changes between 10-day-old Arabidopsis wild type seedlings and AtGNLox (AT4G26150), AtGNCox (AT5G56860), AtGATA17ox (AT3G16870), BdGATA6ox (BRADI3G08240) as well as the C-terminal mutation constructs AtGNL_LLM/AAAox and AtGNC_LLM/AAAox. Three independent biological samples were prepared for each genotype. Three replicate measurements of three biological samples were prepared for each genotype (1-3 or A-C). The experiment was performed in two batches; samples with replicate numbers 1-3 and A-C were prepared and hybridzed in the same respective batch.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Claus Schwechheimer

PROVIDER: E-GEOD-55442 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Functional diversification within the family of B-GATA transcription factors through the leucine-leucine-methionine domain.

Behringer Carina C Bastakis Emmanouil E Ranftl Quirin L QL Mayer Klaus F X KF Schwechheimer Claus C

Plant physiology 20140730 1

The transcription of the Arabidopsis (Arabidopsis thaliana) GATA transcription factors GATA, NITRATE-INDUCIBLE, CARBON METABOLISM-INVOLVED (GNC) and GNC-LIKE (GNL)/CYTOKININ-RESPONSIVE GATA FACTOR1 is controlled by several growth regulatory signals including light and the phytohormones auxin, cytokinin, and gibberellin. To date, GNC and GNL have been attributed functions in the control of germination, greening, flowering time, floral development, senescence, and floral organ abscission. GNC and ...[more]

PMID: 25077795

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Project description:Transcriptomic changes following recent natural hybridization and allopolyploidy in the salt marsh species Spartina x townsendii and Spartina anglica (Poaceae) Allopolyploidy results from two events: the merger of divergent genomes and genome duplication. Both events have important functional consequences for the evolution and adaption of newly formed allopolyploid species. In spite of significant progress made the last years, a few studies have decoupled the effects of hybridization from genome duplication in the observed patterns of expression changes accompanying allopolyploidy in natural conditions. We used Agilent Rice oligo-microarrays to explore gene expression changes following allopolyploidy in Spartina that includes a classical example of recent allopolyploid speciation, S. anglica formed during the 19th century following genome duplication of the hybrid S. x townsendii. Our data indicate important, thought different effects of hybridization and genome duplication in the expression patterns of the hybrid and allopolyploid. Deviation from parental additivity was most important following hybridization and was accompanied by maternal expression dominance, although transgressively expressed genes were also encountered. Maternal dominance is attenuated following genome duplication in S. anglica while this species exhibits an increased number of transgressively over expressed genes. These results reflect the decoupled effects of the “genomic shock” following hybridization and genome redundancy, on the genetic, epigenetic and regulatory mechanisms characterizing transcriptomic evolution in allopolyploids. We used Agilent Rice oligo-microarrays to explore gene expression changes among Spartina species, following interspesific hybridization and genome duplication (allopolyploidy). The analysed species included the parents S. maritima & S.alterniflora, the hybrid F1 S x. towensendii and the allopolyploid S.anglica. A total of 20 slides (five replicates per species) were hybridized on a 44 K Rice Agilent array using a one color desgin.