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An evolutionarily conserved transcription factor controlling leaf vein growth in flowering plants (VDof1 ChIP-seq)

ABSTRACT: An evolutionarily conserved transcription factor controlling leaf vein growth in flowering plants (VDof1 ChIP-seq)

PROVIDER: PRJNA895076 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22070267_1.fastq.gz	Fastqsanger.gz
	SRR22070267_2.fastq.gz	Fastqsanger.gz
	SRR22070268_1.fastq.gz	Fastqsanger.gz
	SRR22070268_2.fastq.gz	Fastqsanger.gz

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An evolutionarily conserved transcription factor controlling leaf vein growth in flowering plants (VDof1 ChIP-seq)

Project description:The veins of leaves are a highly evolved vascular network that allows plants to grow large and complex. The patterning process leading to their formation involves the integration of several internal and external signals, such as plant hormone auxin. Here, we show that an evolutionarily conserved transcription factor controlling leaf vein growth in flowering plants VDOF1 is dependent on autophagy for its activity in Arabidopsis thaliana leaf, suggesting that this pathway might be required for proper vascular system development in leaf. Taken together, our data forms that during leaf vein patterning there is presents a network in which a module that links VDOF1-ATG8-ANT1-SCR-SHR factors integrates Space-time dimension to provide more vein density, which establish a precondition for C4 photosynthesis transition.

2023-07-01 | GSE216739 | GEO

Genome-wide identification of evolutionarily conserved alternative splicing events in flowering plants.

Project description:Alternative splicing (AS) plays important roles in many plant functions, but its conservation across the plant kingdom is not known. We describe a methodology to identify AS events and identify conserved AS events across large phylogenetic distances using RNA-Seq datasets. We applied this methodology to transcriptome data from nine angiosperms including Amborella, the single sister species to all other extant flowering plants. AS events within 40-70% of the expressed multi-exonic genes per species were found, 27,120 of which are conserved among two or more of the taxa studied. While many events are species specific, many others are shared across long evolutionary distances suggesting they have functional significance. Conservation of AS event data provides an estimate of the number of ancestral AS events present at each node of the tree representing the nine species studied. Furthermore, the presence or absence of AS isoforms between species with different whole genome duplication (WGD) histories provides the opportunity to examine the impact of WDG on AS potential. Examining AS in gene families identifies those with high rates of AS, and conservation can distinguish ancient events vs. recent or species specific adaptations. The MADS-box and SR protein families are found to represent families with low and high occurrences of AS, respectively, yet their AS events were likely present in the MRCA of angiosperms.

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Single-cell analysis of human retina identifies evolutionarily conserved and species-specific mechanisms controlling development

Project description:Single-cell analysis of human retina identifies evolutionarily conserved and species-specific mechanisms controlling development

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Role of bHLH93 in controlling flowering time in Arabidopsis

Project description:Flowering in plants is a very dynamic and synchronized process where various cues including age, day-length, temperature and endogenous hormones fine-tune the timing of flowering for reproductive success. Arabidopsis thaliana is a facultative long day plant where long-day (LD) photoperiod promotes flowering. Arabidopsis still flowers under short-day (SD) conditions, albeit much later than LD conditions. Although, factors regulating the photoperiodic LD pathway have been extensively investigated, the SD pathway is much less understood. Here we identified a critical transcription factor called bHLH93 (basic Helix-Loop-Helix 93) that is essential to induce flowering specifically under SD conditions in Arabidopsis. bhlh93 mutants do not flower from primary meristem under SD conditions, but flowers similar to wild type under LD conditions. The late flowering phenotype is rescued by exogenous application of GA, suggesting that bHLH93 acts upstream of GA pathway to promote flowering. Double mutant studies showed that bhlh93 is epistatic to phyB and soc1 genes under SD conditions. bHLH93 is expressed at the meristematic regions and its expression peaks at 8 hours after dawn under SD conditions. As expected, the bHLH93 is localized in the nucleus. Taken together, these data suggest that bHLH93 is a key transcription factor necessary for Arabidopsis thaliana to evolve as a facultative plant. Stratified Col-0 and bhlh93-1 mutants seeds in cold for 4 days. Transferred to Short Day (8h light and 16h dark) chamber and harvested samples after 10days. Tissue was harvested 0 and 4 hour after light was turned on.

2011-12-31 | E-GEOD-29786 | biostudies-arrayexpress

Role of bHLH93 in controlling flowering time in Arabidopsis

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An evolutionarily conserved DOF-CONSTANS module controls photoperiodic signaling in plants

Project description:An evolutionarily conserved DOF-CONSTANS module controls photoperiodic signaling in plants

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