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QhPanBico

ABSTRACT: Pandarus bicolor ((a Pandarid Copepod))

PROVIDER: PRJEB77348 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR13362620.fastq.gz	Fastqsanger.gz
	ERR13350341_1.fastq.gz	Fastqsanger.gz
	ERR13350341_2.fastq.gz	Fastqsanger.gz
	ERR14379127_1.fastq.gz	Fastqsanger.gz
	ERR14379127_2.fastq.gz	Fastqsanger.gz

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Bidirectional feedforward regulatory loop of Dicer-like 4 and flavonoids causes floral bicolor patterning in petunia and dahlia

Project description:Floral bicolor pigmentation is caused by naturally occurring RNA interference (RNAi) in some cultivars of petunia and dahlia. In both plants, the chalcone synthase gene is highly expressed only in the pigmented region of bicolor petals. However, it remains unknown why RNAi is induced only in the unpigmented region. To elucidate the mechanism of this bicolor pattern formation, we examined the dicing activity of Dicer-like 4 (DCL4), which produces small interfering RNAs essential for RNAi. We showed that the crude extract in the pigmented region inhibits DCL4 activity, but not when flavonoids were depleted from the extract. Moreover, we showed the inhibitory activity was associated with flavonoid aglycons. The in vivo dicing activities were detected in the intact protoplasts prepared from the unpigmented region but not from the pigmented region. These results suggest that in the unpigmented region, flavonoids that inhibit DCL4 are not synthesized, and RNAi is maintained, whereas in the pigmented region, DCL4 (RNAi) is inhibited by flavonoids and anthocyanin biosynthesis is maintained. The results of small RNA-seq analyses of bicolor petals and exogenous flavonoid application experiments support this conclusion. Therefore, a clear bicolor pattern is generated by the bidirectional feedforward mechanism of antagonizing DCL4 and flavonoids.

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Gene expression of Laccaria bicolor S238N free-living mycelium grown on different media

2012-03-01 | GSE35556 | GEO

qhPanBico

Project description:Pandarus bicolor ((a Pandarid Copepod)), genomic and transcriptomic data

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Project description:Copepod phylogenomics

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Gene expression of Laccaria bicolor S238N free-living mycelium grown on different media

Project description:Transcript profiles of Laccaria bicolor S238N mycelium on various media were analyzed. The array probes were designed from gene models taken from the Joint Genome Institute (JGI, department of energy) Laccaria bicolor genome sequence version 1. One goal was to evaluate the effect of nutrient deprivation on the transcriptome of Laccaria bicolor. We performed 15 hybridizations (Roche-NimbleGen) with samples derived from Laccaria bicolor free-living mycelium grown on MMN medium, on MMN with a 10 times reduction in all major macro-elements, on MMN with a 10 times reduction in the quantity of glucose or onto agar medium supplemented with the same nutrients used to fertilize our mycorrhization experiments.

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Sorghum bicolor and Setaria viridis PARE-seq

Project description:Parallel Analysis of RNA Ends (PARE) sequencing reads were generated to validate putative microRNAs and identify cleavage sites in Sorghum bicolor and Setaria viridis.

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Laccaria-Douglas fir: A Timecourse of Mycorrhizal Root Tip Development

Project description:This study characterizes the transcriptomic alterations of Laccaria bicolor S238N during interaction with Pseudotsuga menziesii. Three time-points were analyzed, two weeks, four weeks and six weeks after inoculation and compared to the transcriptome of free-living mycelium from Laccaria bicolor S238N.

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Laccaria-Poplar: A Timecourse of Mycorrhizal Root Tip Development

Project description:This study characterizes the transcriptomic alterations of Laccaria bicolor S238N during interaction with P. trichocarpa. Four time-points were analyzed, two weeks, four weeks , six weeks and twelve weeks after inoculation and compared to the transcriptome of free-living mycelium from Laccaria bicolor S238N

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Dual transcriptomic analysis of the interaction between the ectomycorrhizal fungus Laccaria bicolor S238N and soil Pseudomonas fluorescens Pf29Arp

Project description:In order to get insights into the ability of ectomycorrhizal fungi to perceive their biotic environment as well as into the mechanisms of the interactions between ectomycorrhizal fungi and soil bacteria, we analysed the transcriptomic response of the ectomycorrhizal fungus L. bicolor and the strain Pseudomonas fluorescens Pf29Arp during their interactions in vitro. We performed six hybridizations (shotgun DNA microarray) with samples derived from Pseudomonas fluorescens Pf29Arp cultivated alone or with Laccaria bicolor S238N in vitro (3 control biological replicates and 3 biological replicates with L. bicolor)

2014-10-01 | E-GEOD-55147 | biostudies-arrayexpress

Dual transcriptomic analysis of the interaction between the ectomycorrhizal fungus Laccaria bicolor S238N and soil Collimonas fungivorans Ter331

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