Project description:Carotenoids have been demonstrated to be indispensable plant secondary metabolites that are involved in photosynthesis, antioxidation, and phytohormone biosynthesis. Carotenoids are likely involved in other biological functions that have yet to be discovered. In this study, we utilized genomic expression investigation to gain a deep insight into the carotenoid-related biological processes in the citrus calli overexpressing CrtB. Abortive ovule embryogenic calli from four citrus genotypes were used in this study. They were derived from Star Ruby grapefruit (C. paradise Macf.), Marsh grapefruit (C. paradise Macf.), and Sunburst mandarin [Citrus reticulata Blanco M-CM-^W (C. paradisi Macf. M-CM-^W C. reticulata)], designated as RB, M, and SBT, respectively. Engineered cell models (ECMs) were established by over-expressing 35S::CrtB (tpM-bM-^@M-^SrbcSM-bM-^@M-^SCrtB) [CrtB protein, phytoene synthase from Erwinia herbicola (now known as Pantoea agglomerans), containing a Pea rbcS transit peptide] in citrus embryogenic calli. Twenty-day-old calli were harvested and used for RNA extraction and hybridization on Affymetrix microarrays.
Project description:Carotenoids have been demonstrated to be indispensable plant secondary metabolites that are involved in photosynthesis, antioxidation, and phytohormone biosynthesis. Carotenoids are likely involved in other biological functions that have yet to be discovered. In this study, we utilized genomic expression investigation to gain a deep insight into the carotenoid-related biological processes in the citrus calli overexpressing CrtB.
Project description:Somatic embryogenesis (SE) is the development of embryo-like structures from somatic plant tissues. Recently, weve shown that transcription factor MtWOX9-1 belonging to WOX family is able to stimulate SE in the callus culture in Medicago truncatula. In this research, transcriptomic analysis of highly embryogenic calli with MtWOX9-1 overexpression was performed in comparison with wildtype calli. It was shown that MtWOX9-1 overexpression leads to the activation of several groups of genes, including genes related with cell division and tissue differentiation, and also with seed development. Enriched GO pathways included several groups related with histone methyltransferase activity as well as DNA methylation and chromatin binding, suggesting major epigenetic changes occuring in MtWOX9-1 overexpressing calli.
Project description:RNA-seq was used to assess gene expression variation in transgenic calli lines expressing Vitis vinifera chardonnay VvSWEET10 gene.
Project description:Genome-wide histone H3Ac maps of WT and hag1 calli were generated by chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP seq) to understand the role of HAG1 in the reprogramming of the epigenome during callus formation.
Project description:To investigate the global gene expression change caused by csi-miR156a overexpression which enhanced soamtic embryogenesis in citrus, we cpmpared gene expression profiles of trangenic and wild type callus prior to and at the stage of soamtic embryos presence (40 and 60 days after somatic embryos induction, referref to 40 and 60 DAI, respectively). A total of 3020 and 1452 differentially expressed genes were found between trangenic and wild type at 40 and 60 DAI, respectively. Our result indicated that csi-miR156a overexpression could cause large-scale gene expression alteration.
Project description:Fruit ripening in Citrus is not well understood at the molecular level. Knowledge of the regulatory mechanism of citrus fruit ripening at the post-transcriptional level in particular is lacking. Here, we comparatively analyzed the miRNAs and their targeted genes in a spontaneous late-ripening mutant, ?Fengwan? sweet orange (MT) (Citrus sinensis L. Osbeck), and its wild-type counterpart ('Fengjie 72-1', WT). Using high-throughput sequencing of small RNAs and RNA degradome tags, we identified 107 known and 21 novel miRNAs, as well as 225 target genes. A total of 24 miRNAs (16 known miRNAs and 8 novel miRNAs) were shown to be differentially expressed between MT and WT. The expression pattern of several key miRNAs and their target genes during citrus fruit development and ripening stages was examined. Csi-miR156k, csi-miR159 and csi-miR166d suppressed specific transcription factors (GAMYBs, SPLs and ATHBs) that are supposed to be important regulators involved in citrus fruit development and ripening. In the present study, miRNA-mediated silencing of target genes was found under complicated and sensitive regulation in citrus fruit. The identification of miRNAs and their target genes provide new clues for future investigation of mechanisms that regulate citrus fruit ripening.