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RNAseq experiment to identify differentially expressed genes in dvl/rtfl mutants and DVL overexpresion lines in inflorescence apices of Arabidopsis thaliana

ABSTRACT: The lack of visible phenotypes of multiple dvl/rtfl mutants prompted us to compare the transcriptomic signatures of inflorescence apices of wildtype and mutant combinations (specifically dvl1 dvl8 dvl11 rtfl11 dvl19 and dvl8 dvl11 rtfl9 rtfl11 dvl19), as well as dvl1-D mutant, where DVL1 is overexpressed, and 35Spro:DVL8 line. Significant changes in gene expression were caused by the mutation of DVL genes in both quintuple mutant and overexpression backgrounds.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE243205 | GEO | 2023/09/19

REPOSITORIES: GEO

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Project description:The timing of reproductive development determines spike architecture and thus yield in temperate grasses such as barley (Hordeum vulgare L.). Reproductive development in barley is controlled by the photoperiod response gene Ppd-H1 which accelerates flowering time under long-day (LD) conditions. A natural mutation in Ppd-H1 prevalent in spring barley causes a reduced photoperiod response, and thus, late flowering under LD. However, it is not very well understood how LD and Ppd-H1 control pre-anthesis development, and thus spike architecture and yield in barley. We performed a detailed morphological analysis of the pre-anthesis development in the spring barley cultivar Scarlett and its wild barley derived introgression line S42-IL107, carrying the photoperiod responsive Ppd-H1 allele. Characterization of shoot apex development in these genotypes indicated that floral transition and initiation of floral primordia occurred under LD (16h light/ 8h dark) and short day (SD, 8h light/ 16h dark) conditions, while inflorescence and seed development strictly required LDs. Additionally, a fast photoperiod response in the presence of the dominant Ppd-H1 allele promoted floret fertility under LDs. To characterize the effects of the photoperiod and allelic variation at Ppd-H1 on gene expression during pre-anthesis development we performed RNA sequencing of leaves and developing main shoot apices during the vegetative phase and early stages of inflorescence development in Scarlett and S42-IL107 grown under SD and LD conditions. Main shoot apices of both genotypes were sampled at defined developmental stages, i.e. Waddington stage W0.5, W1.0, W2.0 and W3.5, respectively. Leaf samples were harvested from plants before (W1.0) and after floral transition (W2.0). We identified genes that were specifically regulated at floral transition independent of day-length and Ppd-H1 and thus may serve as markers for the staging of floral transition. Furthermore, we identified transcripts differentially expressed between photoperiods and between genotypes in leaves and in shoot apices. This set of transcripts might act as candidates downstream of Ppd-H1 and are correlated with the promotion of shoot apex development and higher floret fertility under LD and in the presence of the photoperiod responsive Ppd-H1 allele.

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RNAseq experiment to identify differentially expressed genes in dvl/rtfl mutants and DVL overexpresion lines in inflorescence apices of Arabidopsis thaliana

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