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Transcriptomic changes in Medicago truncatula and Lotus japonicus root nodules during drought stress

ABSTRACT: Transcriptomic changes in Medicago truncatula and Lotus japonicus root nodules during drought stress

PROVIDER: PRJNA524006 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8617280.fastq.gz	Fastqsanger.gz
	SRR8617290.fastq.gz	Fastqsanger.gz
	SRR8617300.fastq.gz	Fastqsanger.gz
	SRR8617310.fastq.gz	Fastqsanger.gz
	SRR8617320.fastq.gz	Fastqsanger.gz

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Transcriptomic changes in Medicago truncatula and Lotus japonicus root nodules during drought stress

Project description:Drought is one of the major environmental factors limiting biomass and seed yield production in agriculture. In this research we focused on plants from Fabaceae family, which have a unique ability for establishment of symbiosis with nitrogen-fixing bacteria, and are relatively susceptible to water limitation. We present the changes in nitrogenase activity and global gene expression occurring in Medicago truncatula and Lotus japonicus root nodules during water deficit. Our results prove a decrease in the efficiency of nitrogen fixation as well as extensive changes in plant and bacterial transcriptomes shortly after watering cessation. We show for the first time that not only symbiotic plant component, but also Sinorhizobium meliloti and Mesorhizobium loti bacteria residing in the root nodules of M. truncatula and L. japonicus, respectively, adjust their gene expression in response to water shortage. Although our results demonstrate that both M. truncatula and L. japonicus root nodules are susceptible to water deprivation, they indicate significant differences in plant and bacterial response to drought between tested species, which may be related to various type of root nodules formed by these species.

2019-02-26 | GSE126986 | GEO

Cell-type specific transcriptome analysis in nodules of Lotus japonicus

Project description:Legume plants can establish symbiotic nitrogen fixation (SNF) with rhizobia mostly in root nodules, where rhizobia-infected cells are accompanied with uninfected cells in a mosaic pattern. Inside the mature nodules of legume, carbon and nitrogen nutrients between host plant cells and their resident bacteria are actively exchanged. To elucidate the metabolite dynamics relevant for SNF in nodules, three cell-types from nodule tissues of a model legume, Lotus japonicus, were isolated using laser microdissesction, and transcriptome analysis was done by an oligoarray with 60-mer length representing 21,495 genes. In our cell-type-specific profiling, many genes were identified as being expressed in nodules with spatial-specific manners. Among them, genes coding for metabolic enzymes were classified according to their function, and detailed data analysis figured out that secondary metabolic pathway was highly activated in nodule cortex. In particular, a number of metabolic genes for phenyl propanoid pathway were found as highly expressed genes accompanied with those encoding putative transporters of secondary metabolites. These data suggest the involvement of novel physiological function of phenylpropanoids in SNF. Gene expression in three different cell-types of Lotus japonicus nodule was measured. Three independent experiments were performed at each cell-types.

2011-12-29 | E-GEOD-34753 | biostudies-arrayexpress

Tissue-specific transcriptome analysis in nodules of Lotus japonicus

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A time-course transcriptomic study for investigating the genome-wide effects of nitrate on gene expression in mature nodules of Lotus japonicus.

Project description:A time-course transcriptomic study was performed on mature nodules of Lotus japonicus MG-20 at 4 weeks post-inoculation (wpi) with Mesorhizobium loti MAFF303099. Plants were exposed to 10 mM KNO3 for six days and then nitrate was removed for five more days.

2023-03-23 | GSE197362 | GEO

Methylome of Lotus japonicus accession 'Gifu'

Project description:Whole genome DNA methylation data for the the Lotus japonicus accession 'Gifu'

2016-12-01 | GSE73069 | GEO

Cell- and tissue-specific transcriptome analyses of Medicago truncatula root nodules

Project description:We used laser-capture microdissection (LCM) to isolate specific cells from the Medicago truncatula nodule meristem (M), the distal infection (DIZ), the proximal infection zone (PIZ), infected cells (IC) and uninfected cells (UIC) from the fixation zone. Based on Medicago GeneChips, we identified the cell- and tissue-specific programm of gene expression in Medicago truncatula root nodules.

2013-05-29 | GSE43354 | GEO

Constitutive over-expression of LjMyb14 in Lotus japonicus.

Project description:To identify the regulatory targets of the R2R3-Myb transcription factor, LjMyb14, the gene was constitutively over-expressed in Lotus japonicus under the Lotus ubiquitin promoter. The gene expression levels of three biological replicates of the Lotus japonicus (MG20) were averaged and compared to the the gene expression levels of three independent lines of Lotus japonicus japonicus constituitively over expressing LjMyb14 using the Lotus ubiquitin promoter.

2011-09-15 | E-GEOD-31739 | biostudies-arrayexpress

Constitutive over-expression of LjMyb14 in Lotus japonicus.

2011-09-16 | GSE31739 | GEO

Natural DNA methylation variation in Lotus japonicus

Project description:Natural DNA methylation variation was examined in a population of wild Lotus japonicus accessions from Japan

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Lotus japonicus-Alkaline

Project description:Lotus japonicus is a model legume broadly used to study transcriptome regulation under different stress conditions and microorganism interaction. Understanding how this model plant respond gainst alkaline stress will certainly help to develop more tolerant cultivars in economically important Lotus species as well as in other legumes. In order to uncover the most important response mechanisms activated during alkaline stress, we explored by microarray analysis the transcriptome regulation occurring in the phenotypically contrasting ecotypes MG-20 and Gifu B-129 of L. japonicus after 21 days of alkaline stress.

2014-03-25 | E-MTAB-2418 | biostudies-arrayexpress

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