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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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The genome of Tetranychus urticae reveals herbivorous pest adaptations

ABSTRACT: This SuperSeries is composed of the following subset Series: GSE31525: Spider mite preliminary feeding experiment with mites reared on bean and two Arabidopsis thaliana accessions GSE31527: Developmental stage-specific gene expression in the two-spotted spider mite (Tetranychus urticae) GSE32005: Developmental stage-specific small RNA composition in the two-spotted spider mite (Tetranychus urticae) GSE32009: Transcriptional responses of the two-spotted spider mite (Tetranychus urticae) after transfer to different plant hosts Refer to individual Series

ORGANISM(S): Tetranychus urticae

SUBMITTER: Richard Clark

PROVIDER: E-GEOD-32342 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Developmental stage-specific gene expression in the two-spotted spider mite (Tetranychus urticae)

Project description:We generated 77-bp Illumina reads from single messenger RNA libraries from four diverse developmental stages of the two-spotted spider mite to maximally capture the complement of transcribed sequences across development. Adult, nymphal, larvae and embryonic stages were separated using sieves of various pore sizes, and mites of various developmental stages were carefully selected for transcriptome library preparation. Samples were a mix of males and females to capture male and female patterns of transcription, and were reared on beans (Phaseolus vulgaris cv California Red Kidney). The RNA-Seq data was used for validation of gene models predicted by EuGene, and to study patterns of gene expression across development. Gene expression for spider mites from adult, nymph, larvae and embryonic developmental stages was examined (technical replicates were generated).

2011-11-23 | E-GEOD-31527 | biostudies-arrayexpress

Developmental stage-specific small RNA composition in the two-spotted spider mite (Tetranychus urticae)

Project description:We generated 38-bp Illumina reads from single messenger RNA libraries from three diverse developmental stages of the two-spotted spider mite to capture small RNA diversity across development. Adult, nymphal+larvae and embryonic stages were separated using sieves of various pore sizes, and mites of various developmental stages were carefully selected for small RNA library preparation. Samples were a mix of males and females to capture male and female patterns of small RNA composition and were reared on beans (Phaseolus vulgaris cv California Red Kidney). Small RNA reads were used for miRNA prediction, piRNA discovery, and for quantitation of small RNA-generating loci (i.e. expression across development). Examination of small RNA from spider mites of adult, embryonic and pooled larval/nymphal developmental stages.

2011-11-23 | E-GEOD-32005 | biostudies-arrayexpress

Spider mite preliminary feeding experiment with mites reared on bean and two Arabidopsis thaliana accessions

Project description:We sequenced messenger RNA from mixed stages of the two-spotted spider mite (Tetranychus urticae) reared on bean (Phaseolus vulgaris cv California Red Kidney; the laboratory host plant for mites) and two Arabidopsis thaliana accessions which were considered to either be susceptible (Kondara) or resistant (Bla-2) to mite feeding. This pilot experiment was conducted to assess gene expression differences of mites grown on sensitive versus resistant Arabidopsis accessions, as well as differences in mites feeding on different host species. The expression data was used for gene model validation of genes predicted by EuGene in the spider mite genome and to assess gene expression levels. Examination of gene expression of spider mites reared on beans and two Arabidopsis accessions (Kondara and Bla-2).

2011-11-23 | E-GEOD-31525 | biostudies-arrayexpress

Transcriptional responses of the two-spotted spider mite (Tetranychus urticae) after transfer to different plant hosts

Project description:We generated 38-bp Illumina reads from messenger RNA libraries from mites transferred from their preferred laboratory host, bean (Phaseolus vulgaris cv. California Red Kidney), to one of three hosts: bean, Arabidopsis thaliana (Bla-2 accession) and the tomato (Solanum lycopersicum; genotype Heinz 1706). Larvae were carefully collected from bean plants and transferred to the treatment plant. Mites were reared on these plants for ~24 hours, after which mites were collected for mRNA library preparation. Samples were a mix of males and females. The goal of the study was to identify genes that may underlie the ability of mites to be herbivores on different host plants. Mites were transferred from host bean plants to two non-preferred hosts (Arabidopsis thaliana and tomato). RNA was then collected, and RNA-seq was performed on the Illumina platform. For each of three host plants, three biological replicates were generated.

2011-11-23 | E-GEOD-32009 | biostudies-arrayexpress

Host plant shift and acaricide resistance effects on gene expression in the two-spotted spider mite, T. urticae

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2012-12-04 | E-GEOD-39869 | biostudies-arrayexpress

Spirodiclofen resistance in the spider mite Tetranychus urticae

Project description:The goal of our microarray experiments was to compare the gene expression profile of two spirodiclofen resistant spider mite strains (SR-VP and SR-TK) with that of a susceptible spider mite strain (LS-VL) 5 samples were analyzed: 3 biological replicates for SR-VP, 2 biological replicates for SR-TK

2013-06-26 | E-GEOD-43538 | biostudies-arrayexpress

RNA-seq of barley lines after dehydration, spider mite or combined stress.

Project description:Drought and herbivores are main threats to crop production. Barley plants were subjected to dehydration, spider mite attack or to a combination of both stresses. RNA-seq analyses were done to know how individual and double abiotic-biotic stresses promote changes in the transcriptome.

2018-04-30 | E-MTAB-6565 | biostudies-arrayexpress

Peptidomics analysis of saliva of the two-spotted spider mite Tetranychus urticae

Project description:Recently, we elucidated T. urticae’s repertoire of secreted salivary proteins, revealing several members of expanded protein families with unknown functions [PMID: 27703040]. In this study, mite salivary secretions were additionally examined using a peptidomics approach.

2017-09-14 | PXD006385 | Pride

Tetranychus urticae secretome - The Salivary Protein Repertoire of the Polyphagous Spider Mite Tetranychus urticae: A Quest for Effectors

Project description:The two-spotted spider mite Tetranychus urticae is an extreme polyphaguous crop pest. Next to an increased detoxification potential of plant secondary metabolites, it has recently been shown that spider mites manipulate plant defences. Salivary constituents are proposed to play an important role during the interaction with its many hosts. The proteomic composition of saliva delivered into artificial diet by spider mites adapted to various hosts - bean, soy, maize, tomato -was determined using Orbitrap mass spectrometry. Over 200 different proteins were identified, many of unknown function and in numerous cases belonging to multi-membered gene families. A selection of these putative salivary proteins was validated using whole-mount in situ hybridizations and expression was shown to be localized in the anterior and dorsal podocephalic glands of the spider mite. Host-plant dependent expression was evident from the proteomics dataset and was further studied in detail by micro-array based genome wide gene expression profiling of mites maintained on the host plants under study. Previously obtained gene-expression datasets were further used to get more insight in the expression profile over different life stages and physiological states. To conclude, for the first time the T. urticae salivary proteome repertoire was characterized using a custom feeding hemisphere-based enrichment technique. This knowledge will assist in unraveling the molecular interactions between phytophagous mites and their host plants. This may ultimately facilitate the development of mite-resistant crops.

2017-01-17 | PXD003022 | Pride

Spider mite responses to feeding on Col-0, myb28 myb29 cyp79b2 cyp79b3, and atr1D Arabidopsis plants

Project description:Our goal was to investigate the transcriptional response of T. urticae to different Arabidopsis plants with varying levels of indole glucosinolates. Bean is the ancestral host plant for the T. urticae strain used in this study. Adult female spider mites were transferred to the three Arabidopsis lines (Col-0, qKo, atr1D) or bean, and after 24 hours, the gene expression levels were analyzed. 12 samples were investigated; 4 biological replicates for three comparisons: QKO (qKo vs. Col-0), ATR1D (atr1D vs. Col-0), and COL-0 (Col-0 vs. bean).

2013-11-25 | E-GEOD-48771 | biostudies-arrayexpress

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