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The transcriptomic response to a short day to long day shift in the reference legume Medicago truncatula

ABSTRACT: The transcriptomic response to a short day to long day shift in the reference legume Medicago truncatula

PROVIDER: PRJNA487169 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7738220_1.fastq.gz	Fastqsanger.gz
	SRR7738220_2.fastq.gz	Fastqsanger.gz
	SRR7738211_1.fastq.gz	Fastqsanger.gz
	SRR7738211_2.fastq.gz	Fastqsanger.gz
	SRR7738221_1.fastq.gz	Fastqsanger.gz

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Similar Datasets

The transcriptomic response to a short day to long day shift in the reference legume Medicago truncatula

Project description:Photoperiod regulated flowering is a well understood developmental pathway in the intensively studied Brassicaceae species Arabidopsis thaliana and in the monocot rice, but less so in other angiosperm groups. One such group, the temperate legumes in the Fabaceae family which are important both agriculturally and ecologically, accelerate their flowering in response to long-day photoperiods (LD), but lack functional homologues of key regulatory genes present in A. thaliana such as CO. Curiously previous work in the reference legume Medicago truncatula has shown that floral activator MtFTa1, which is upregulated by LD and vernalisation, does not exhibit a peak in expression at dusk like its homologue in A. thaliana FLOWERING LOCUS T, instead MtFTa1 maintains a near constant pattern of expression. In addition legumes possess for other FT-like genes such as the MtFTb genes expressed in LD which may also act in the regulation of flowering time. This study utilises RNA-Seq to identify genes which may regulate or be co-expressed with these FT-like genes in Medicago truncatula. Following a shift from short-day photoperiods to inductive long-days genes which alter their pattern of expression are distinguished from those which just alter their magnitude of expression (and those that do neither). Specifically this study focuses on the first few hours of the day in the young leaves which coincides with the first diurnal peak of the FTb genes. It goes on to categorise these genes into groups with similar patterns of expression using c-means clustering. In the process this study identifies a number of potential candidate genes for future studies to consider.

2018-08-23 | GSE118893 | GEO

The transcriptomic response to a short day to long day shift in leaves of the reference legume <i>Medicago truncatula</i>.

Project description:Photoperiodic flowering aligns plant reproduction to favourable seasons of the year to maximise successful production of seeds and grains. However understanding of this process in the temperate legumes of the Fabaceae family, which are important both agriculturally and ecologically, is incomplete. Previous work in the reference legume Medicago truncatula has shown that the FT-like gene MtFTa1 is a potent floral activator. While MtFTa1 is upregulated by long-day photoperiods (LD) and vernalisation, the molecular basis of this is unknown as functional homologues of key regulatory genes present in other species, notably CONSTANS in A. thaliana, have not been identified. In LD MtFTa1 maintains a near constant diurnal pattern of expression unlike its homologue FT in A. thaliana, which has a notable peak in expression at dusk. This suggests a different manner of regulation. Furthermore, M. truncatula possesses other FT-like genes such as two LD induced MtFTb genes which may also act in the regulation of flowering time. MtFTb genes have a diurnal pattern of expression with peaks at both four and sixteen hours after dawn. This study utilises RNA-Seq to analyse the transcriptome of M. truncatula leaves to identify genes which may regulate or be co-expressed with these FT-like genes following a shift from short-day photoperiods to inductive long-days. Specifically this study focuses on the first four hours of the day in the young leaves, which coincides with the first diurnal peak of the FTb genes. Following differential expression analysis at each timepoint, genes which alter their pattern of expression are distinguished from those which just alter their magnitude of expression (and those that do neither). It goes on to categorise these genes into groups with similar patterns of expression using c-means clustering and identifies a number of potential candidate photoperiod flowering time genes for future studies to consider.

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High-throughput pyrosequencing of miRNAs from Medicago truncatula nodules and roots

Project description:We have used deep sequencing of small RNAs from nodules and root apexes of the model legume Medicago truncatula, to identify 113 novel candidate miRNAs. These miRNAs (legume or Mt-specific) are encoded by 278 putative hairpin precursors in the M. truncatula genome. Several miRNAs are differentially expressed in nodules and root tips and large variety of targets could be predicted for these genes. Specific miRNA isoforms showed contrasting expression patterns in these tissues Keywords: Transcriptome analysis

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Transcription profiling of Medicago trunculata leaf tissue over-expressing Legume Anthocyanin Production

Project description:Transcription profiling of leaf tissue from Medicago truncatula over-expressing Legume Anthocyanin Production.

2009-10-13 | E-MEXP-1854 | biostudies-arrayexpress

Medicago truncatula seed development under greenhouse conditions

Project description:Transcriptional profiling of seeds of Medicago truncatula during maturation. To identify genes that are regulated during seed maturation in the model legume Medicago truncatula, plants at flowering stage were grown at variable light and temperature conditions under greenhouse environment (period March-June). Seeds were then collected at different stages of development. Using the Medicago NimbleGen chip, a transcriptomic analysis was performed to follow the differential expression of genes during seed maturation.

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Medicago truncatula roots infected (or not) with the oomycete Aphanomyces euteiches

Project description:The objective of this study was to evaluate the effect of the oomycete Aphanomyces euteiches (strain ATCC201684) on the legume model Medicago truncatula (F83005-5 line) transcritpome.

2018-03-15 | GSE109500 | GEO

Two Legume Fatty Acid Amide Hydrolase Isoforms with Distinct Preferences for Microbial- and Plant-Derived Acylamides

Project description:We combined computational and biochemical approaches to compare the structural and enzymatic properties of two FAAH isoforms in the legume Medicago truncatula designated MtFAAH1 and MtFAAH2a.

2023-04-27 | PXD038494 | Pride

The proteome of Medicago truncatula in response to ammonium and urea nutrition

Project description:comprehensive and quantitative proteomic study of the roots of the NH4+-tolerant legume Medicago truncatula grown with nitrate, NH4+ or urea as sole N source using the iTRAQ method.

2019-06-03 | PXD011074 | Pride

Medicago truncatula seed development at 21-19°C

Project description:Transcriptional profiling of seeds of Medicago truncatula during maturation. To identify genes that are regulated during seed maturation in the model legume Medicago truncatula, plants at flowering stage were grown at controlled temperature of 21-19°C, 16h light. Seeds were then collected at different stages of development. Using the Medicago NimbleGen chip, a transcriptomic analysis was performed to follow the differential expression of genes during seed maturation.

2013-07-31 | GSE49350 | GEO

Medicago truncatula seed development at under greenhouse conditions

2013-12-05 | GSE52833 | GEO