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SRX1427413: Nicotiana_attenuata Water 1
1 ILLUMINA (Illumina HiSeq 2000) run: 24.3M spots, 2.5G bases, 1.4Gb downloads

Design: Total RNA was extracted from ~100 mg aliquots of homogenized leaves that were used for phy-tohormone analysis using Trizol (Life Technologies) according to the manufacturer's protocol. All RNA samples were subsequently treated with RNase-free DNase-I (Fermentas) to remove all genomic DNA contamination. The mRNA was enriched using mRNA-seq sample preparation kit (Illumina), and ~ 200bp insertion size libraries were constructed using Illumina whole transcriptome analysis Kit following the manufacturer’s standard protocol (Illumina, HiSeq system). All libraries were then sequenced on the Illumina HiSeq 2000 at the sequencing core facility at Max Planck Institute for Molecular Genetics, Berlin. Manduca sexta and Spodoptera littoralis oral secretions (OS) were collected on ice from larvae reared on N. attenuata plants until the 3rd-5th instar as previously described. To simulate herbivore attack, one leaf of each plant was wounded with a pattern wheel and 20 μL of 1:5 diluted OSMs, OSSl or FAC (138 ng μL-1 C18:3-Glu) or water was added to the puncture wounds. All leaves were collected 30 minutes after elicitation, their middle veins rapidly excised, flash frozen in liquid nitrogen and stored at -80°C until analysed.
Submitted by: Max Planck Institute for Chemical Ecology
Study: Evolution of the herbivore associated elicitor induced early defence signalling networks in Nicotiana
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Background: Herbivore-induced defences are widespread in plants and can increase plant fitness when attacked. During herbivore attack, plant-perceived herbivore-associated elicitors (HAE) elicit a sophisticated suite of defenses that are mediated by the rapid activation of HAE-induced early defence signalling (EDS) that includes the transient accumulation of jasmonic acid (JA) and its derivatives. Although several genes are known to be involved in HAE-induced defence signalling, the complete HAE-induced EDS network and its evolution remains unstudied.Results: We used a comparative transcriptomic approach to analyse 60 HAE-induced leaf transcriptomic early defence responses among six closely related Nicotiana species, each of which have evolved highly specific and divergent HAE-induced defence responses. Using co-expression gene network analysis, we characterised a key co-expression gene network (M4 module), which is largely independent of HAE-induced JA accumulations but co-activated with the HAE-induced defence responses within and among the Nicotiana species. The functional significance of the M4 module in HAE-induced EDS is supported by: 1) functional evidence based on previously characterised genes and, 2) silencing three newly identified candidate genes from the M4 module by virus-induced gene silencing and demonstrating their influence on HAE-induced JA accumulation and metabolism. Using a phylogenomics approach, we provide evidence that gene retention after a genome-wide triplication event in Solanaceae contributed to the evolution of this HAE-induced EDS network.Conclusions: We present the first HAE-induced EDS co-expression network and provide new insights into the molecular mechanisms and evolution of herbivore induced defences.
Sample: Nicotiana_attenuata Water
SAMN04260032 • SRS1158926 • All experiments • All runs
Library:
Name: Natt_WW01
Instrument: Illumina HiSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: PCR
Layout: PAIRED
Spot descriptor:
forward51  reverse

Runs: 1 run, 24.3M spots, 2.5G bases, 1.4Gb
Run# of Spots# of BasesSizePublished
SRR291302624,307,3892.5G1.4Gb2016-08-24

ID:
2020026

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