Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Analysis of the effect of constitutive expression of AtGLK1 and AtGLK2 on the transcriptome of tomato fruits

ABSTRACT: Comparison of gene expression, in immature green fruit (15dpa), between transgenic tomato (S. lycopersicum cv. '.T63') lines expressing constitutively the transcription factors AtGLK1 (At2g20570) or AtGLK2 (At5g44190) regulated by the CaMV35S (p35S) to 'T63' lines expressing only the CaMV35S promoter construct (TControl) with no AtGLK sequences. The goal is to describe the effect on fruit transcriptome imposed by the presence of the transgens and relate defined transcriptome changes to the biochemical and morphological phenotypes observed in transgenic fruits

ORGANISM(S): Lycopersicon esculentum

SUBMITTER: Clara Pons

PROVIDER: E-MEXP-3652 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Uniform ripening encodes a Golden 2-like transcription factor regulating tomato fruit chloroplast development.

Powell Ann L T AL Nguyen Cuong V CV Hill Theresa T Cheng Kalai Lam KL Figueroa-Balderas Rosa R Aktas Hakan H Ashrafi Hamid H Pons Clara C Fernández-Muñoz Rafael R Vicente Ariel A Lopez-Baltazar Javier J Barry Cornelius S CS Liu Yongsheng Y Chetelat Roger R Granell Antonio A Van Deynze Allen A Giovannoni James J JJ Bennett Alan B AB

Science (New York, N.Y.) 20120601 6089

Modern tomato (Solanum lycopersicum) varieties are bred for uniform ripening (u) light green fruit phenotypes to facilitate harvests of evenly ripened fruit. U encodes a Golden 2-like (GLK) transcription factor, SlGLK2, which determines chlorophyll accumulation and distribution in developing fruit. In tomato, two GLKs--SlGLK1 and SlGLK2--are expressed in leaves, but only SlGLK2 is expressed in fruit. Expressing GLKs increased the chlorophyll content of fruit, whereas SlGLK2 suppression recapitul ...[more]

PMID: 22745430

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Project description:BACKGROUND: Evaluation of the airway transcriptome may reveal patterns of gene expression that are associated with clinical phenotypes of asthma. To define transcriptomic endotypes of asthma (TEA) we analyzed gene expression in induced sputum that correlate with phenotypes of disease. METHODS: Gene expression was measured in sputum of subjects with asthma using Affymetrix HuGene ST 1.0 microarrays. Unsupervised clustering analysis of genes in pathways selected from the Kyoto Encyclopedia of Genes and Genomes (KEGG) identified TEA clusters. Clinical characteristics were compared and logistic regression analysis of matched blood samples defined an expression profile to determine the TEA cluster assignment in a cohort of children with asthma for validation. RESULTS: Three TEA clusters were identified. TEA cluster 1 had the most subjects with a history of intubation (P = 0.05), a lower pre-bronchodilator FEV1 (P = 0.006), a higher bronchodilator response (P = 0.03), and higher exhaled nitric oxide levels (P = 0.04), compared to the other TEA clusters. TEA cluster 2, the smallest cluster had the most subjects that were hospitalized for asthma (P = 0.04). Subjects in TEA cluster 3, the largest cluster, had normal lung function, low exhaled nitric oxide levels, and lower inhaled steroid requirements. Evaluation of TEA clusters in children confirmed that TEA clusters 1 and 2 are associated with a history of intubation (P = 5.58 x 10-06) and hospitalization (P = 0.01), respectively. CONCLUSIONS: Patterns of gene expression in the sputum and blood reveal TEA clusters that are associated with severe asthma phenotypes in children and adults. Gene expression was measured in sputum of subjects with asthma using Affymetrix HuGene ST 1.0 microarrays. Unsupervised clustering analysis of genes in pathways selected from the Kyoto Encyclopedia of Genes and Genomes (KEGG) identified TEA clusters. Clinical characteristics were compared and logistic regression analysis of matched blood samples defined an expression profile to determine the TEA cluster assignment in a cohort of children with asthma for validation.

Dataset Information

Analysis of the effect of constitutive expression of AtGLK1 and AtGLK2 on the transcriptome of tomato fruits

Publications

Uniform ripening encodes a Golden 2-like transcription factor regulating tomato fruit chloroplast development.

Similar Datasets

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