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Nicotiana attenuata

ABSTRACT: Transcriptome analysis of wild tobacco Nicotiana attenuata after Alternaria alternata infection

PROVIDER: PRJNA261513 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1581603_1.fastq.gz	Fastqsanger.gz
	SRR1581603_2.fastq.gz	Fastqsanger.gz
	SRR1581604_1.fastq.gz	Fastqsanger.gz
	SRR1581604_2.fastq.gz	Fastqsanger.gz

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Similar Datasets

Transcriptome analysis of wild tobacco Nicotiana attenuata after Alternaria alternata infection

Project description:To understand the transcriptome changes of source-sink transition leaves after infection of Alternaria alternata at 1 dpi

2014-12-01 | GSE61574 | GEO

SuperSAGE analysis of the Nicotiana attenuata transcriptome after wounding

Project description:Fatty acid-amino acid conjugates (FACs) in the oral secretion (OS) of the Manduca sexta larvae are necessary and sufficient to elicit the herbivory-specific responses in Nicotiana attenuata, an annual wild tobacco species. We used SuperSAGE combined with 454 sequencing to quantify the early transcriptional changes elicited by the FAC N-linolenoyl-glutamic acid (18:3-Glu) in N. attenuata. The second fully expanded leaf of rosette stage plants were wounded by rolling a fabric pattern wheel three times on each side of the midvein and the wounds were immediately supplied with either 20 uL of 0.02% (v/v) Tween-20/water (solvent control) or 10 uL of synthetic N-linolenoyl-glutamic acid (18:3-Glu; 0.03 nmol/ÂµL in 0.02% (v/v) Tween-20/water). Tissue was collected after 30 min of the treatments and frozen in liquid nitrogen. Total RNA was extracted by the phenol/chloroform-LiCl method and poly(A)+-RNA was purified from total RNA. Subsequent steps for the construction of the SuperSAGE libraries and 454 sequencing were performed as previously described using double NlaIII digestions (Molina et al., 2008, BMC Genomics, 9:553). Two SuperSAGE libraries were generated after wounding and FAC elicitation of Nicotiana attenuata leaves. Leaves were harvested after 30 min of the treatments, total RNA extracted, polyA+ mRNA isolated and used for cDNA synthesis and SuperSAGE analysis as described my Matsumura et al (2003).

2010-10-05 | E-GEOD-18595 | biostudies-arrayexpress

Characterization of Nicotiana attenuata plants with reduced expression of HSPRO (ir-hspro plants).

Project description:Identification of transcripts that change expression in roots of Nicotiana attenuata plants with reduced expression of HSPRO and in association with Piriformospora indica. Gene expression in roots of Nicotiana attenuata wild type and ir-hspro seedlings was measured at 14 days after inoculation with Piriformospora indica. Three independent experiments were performed with wild type plants and three independent experiments were performed with ir-hspro plants.

2012-11-06 | E-GEOD-35086 | biostudies-arrayexpress

Single-cell transcriptome of Nicotiana attenuata corolla cells.

Project description:High-throughput single-cell RNA sequencing (scRNA-seq) identifies distinct cell populations based on cell-to-cell heterogeneity in gene expression. By examining the distribution of the density of gene expression profiles, we can observe the metabolic features of each cell population. Here, we employ the scRNA-seq technique to reveal the entire biosynthetic pathway of a flower volatile. The corolla of the wild tobacco Nicotiana attenuata emits a bouquet of scents that are composed mainly of benzylacetone (BA). Protoplasts from the N. attenuata corolla limbs and throat cups were isolated at three different time points, and the transcript levels of >16,000 genes were analyzed in 3,756 single cells. We performed unsupervised clustering analysis to determine which cell clusters were involved in BA biosynthesis. The biosynthetic pathway of BA was uncovered by analyzing gene co-expression in scRNA-seq datasets and by silencing candidate genes in the corolla. In conclusion, the high-resolution spatiotemporal atlas of gene expression provided by scRNA-seq reveals the molecular features underlying cell-type-specific metabolism in a plant.

2022-02-08 | GSE193464 | GEO

Nicotiana attenuata

Project description:Nicotiana attenuata overview

| PRJNA135343 | ENA

Characterization of Nicotiana attenuata plants with reduced expression of HD-Zip HD20 (ir-hd20 plants).

Project description:Identification of transcripts that change expression in corollas of Nicotiana attenuata plants with reduced expression of the transcription factor HD20. Gene expression in opening corollas of Nicotiana attenuata wild type and ir-hd20 plants was measured from isolated corollas collected at 12 pm. Three independent experiments were performed with wild type plants and three independent experiments were performed with ir-hd20 plants. A total of 274 genes were identified as differentially regulated in ir-hd20 plants compared to wild type plants.

2013-12-24 | E-GEOD-33682 | biostudies-arrayexpress

Characterization of Nicotiana attenuata plants with reduced expression of lectin receptor kinase 1 (ir-lecRK1 plants).

Project description:Identification of transcripts that change expression in Nicotiana attenuata plants with reduced expression of lectin receptor kinase 1 after elicitation with oral secretions of Manduca sexta larvae. Gene expression in leaves of Nicotiana attenuata wild type and ir-lecRK1 plants was measured at 1 hour after elicitation with oral secretions of Manduca sexta larvae. Three independent experiments were performed with wild type plants and three independent experiments were performed with ir-lecRK1 plants. A total of 148 genes were identified as differentially regulated in ir-lecRK1 plants compared to wild type plants.

2011-11-23 | E-GEOD-29905 | biostudies-arrayexpress

NaJAZh regulates a subset of defense responses against herbivores and counteracts developmental necrosis in Nicotiana attenuata plants

Project description:Identification of transcripts that change expression in Nicotiana attenuata plants with reduced expression of JAZh after elicitation with oral secretions of Manduca sexta larvae. Gene expression in leaves of Nicotiana attenuata wild type and irJAZh plants was measured at 2 hour after elicitation with oral secretions of Manduca sexta larvae. Three independent experiments were performed with wild type plants and three independent experiments were performed with irJAZh plants. A total of 480 genes were identified as more the 2 fold differentially regulated in irJAZh plants compared to wild type plants.

2012-07-11 | E-GEOD-33681 | biostudies-arrayexpress

SuperSAGE analysis of the Nicotiana attenuata transcriptome after wounding

Project description:Fatty acid-amino acid conjugates (FACs) in the oral secretion (OS) of the Manduca sexta larvae are necessary and sufficient to elicit the herbivory-specific responses in Nicotiana attenuata, an annual wild tobacco species. We used SuperSAGE combined with 454 sequencing to quantify the early transcriptional changes elicited by the FAC N-linolenoyl-glutamic acid (18:3-Glu) in N. attenuata. The second fully expanded leaf of rosette stage plants were wounded by rolling a fabric pattern wheel three times on each side of the midvein and the wounds were immediately supplied with either 20 uL of 0.02% (v/v) Tween-20/water (solvent control) or 10 uL of synthetic N-linolenoyl-glutamic acid (18:3-Glu; 0.03 nmol/µL in 0.02% (v/v) Tween-20/water). Tissue was collected after 30 min of the treatments and frozen in liquid nitrogen. Total RNA was extracted by the phenol/chloroform-LiCl method and poly(A)+-RNA was purified from total RNA. Subsequent steps for the construction of the SuperSAGE libraries and 454 sequencing were performed as previously described using double NlaIII digestions (Molina et al., 2008, BMC Genomics, 9:553).

2010-10-06 | GSE18595 | GEO

Nicotiana attenuata

Project description:Nicotiana attenuata Raw sequence reads

| PRJNA942061 | ENA