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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Genome scale analysis of host-virus mRNA differential expression in Helicoverpa zea insect cells infected by H. armigera baculovirus from early till late infection

ABSTRACT: A custom microarray, based on deep transcriptome sequencing ((GEO accession number: GSE34418), was used to simultaneously investigate expression of over 24,000 Helicoverpa zea insect transcripts and 134 H. armigera nucleopolyhedrovirus (HearNPV) genes throughout the infection process at 0, 12, 24 and 48 hours post infection A cutom 8x60,000 SurePrint Agilent expression slide (Agilent, Santa Clara, CA) was used to analyzed eight samples, including biological replicates of HaSNPV-infected cultures at 0, 12, 24 and 48 hpi.The microarray probes included probes for 27,400 H. zea sequences that were validated previously (Nguyen et al., 2012. PLOS ONE, 7(5), e36324) and all 134 H. armigera single-capsid nucleopolyhedrovirus (HearNPV) genes (Accession: NC_002654).

ORGANISM(S): Helicoverpa zea

SUBMITTER: Quan Nguyen

PROVIDER: E-GEOD-44184 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genome scale analysis of host-virus mRNA differential expression in Helicoverpa zea insect cells infected by H. armigera baculovirus from early till late infection

Project description:A custom microarray, based on deep transcriptome sequencing ((GEO accession number: GSE34418), was used to simultaneously investigate expression of over 24,000 Helicoverpa zea insect transcripts and 134 H. armigera nucleopolyhedrovirus (HearNPV) genes throughout the infection process at 0, 12, 24 and 48 hours post infection

2013-03-01 | GSE44184 | GEO

Transcriptome sequencing of and microarray development for a Helicoverpa zea cell line to investigate in vitro insect cell-baculovirus interactions

Project description:The Helicoverpa armigera single-capsid nucleopolyhedrovirus (HaSNPV) can be propagated using H. zea insect cell cultures, for use as a biopesticide against Heliothine agricultural pests.This study sequenced, assembled and functionally annotated 29,586 transcript sequences from cultured H. zea cells using Illumina 100 bps and paired-end transcriptome sequencing (RNA-seq). From these sequences, a genome-scale microarray platform was constructed and validated for effective expression analysis of H. zea genes. This array also included probes for all HaSNPV genes, thereby allowing virus and host gene changes to be monitored simultaneously. A 4x180,000 SurePrint Agilent expression array (Agilent, Santa Clara, CA) was employed so that a high number of probes can be included to test all 29,586 assembled H. zea sequences and to eventually select a best probe for each transcript. Two biological replicates for uninfected H. zea cells and two other biological replicates for infected samples at 18 hours post infection were analyzed. Six Agilent 60-mer oligonucleotide probes were designed by eArray (Agilent) for each transcript, in which each orientation had three probes randomly distributed across the sequences. Probes that had potential cross-hybridization (Xhyb) were removed. The final probe set for H. zea sequences included 153,583 probes. In addition, probes for all 135 H.armigera single-capsid nucleopolyhedrovirus (HaSNPV) genes were added to investigate host-virus interaction in culture.

2012-03-01 | E-GEOD-34418 | biostudies-arrayexpress

Helicoverpa armigera armigera

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Histone deacetylase 3: A potential target fight against Helicoverpa armigera

Project description:Insect development requires genes to be expressed in strict spatiotemporal order. The degree of histone acetylation regulates insect development, via histone acetyltransferases (HATs) and histone deacetylases (HDACs). Although HDAC3 is required for early embryonic development, its functions in Helicoverpa armigera remain unclear. We treated H. armigera with HDAC3 siRNA and RGFP966, a specific inhibitor, examining how HDAC3 loss-of-function affects growth and development. HDAC3 siRNA and RGFP966 treatment increased mortality at each growth-stage and altered metamorphosis, hampering pupation and causing abnormal wing development, reduced egg production, and reduced hatching rate. RNA-seq analysis identified 2,788 differentially expressed genes (≥ two-fold change; P ≤ 0.05) between siHDAC3- and siNC-treated larvae. Kr-h1, were differentially expressed in HDAC3 knockdown larvae. Pathway enrichment analysis revealed significant enrichment of genes involved in the Hippo, MAPK, and Wnt signaling pathways following HDAC3 knockdown. Histone H3K9 acetylation was increased in H. armigera after siHDAC3 treatment. In conclusion, HDAC3-knockdown dysregulated 20-hydroxyecdysone hormone-related and apoptosis-related genes in H. armigera, affecting many basic processes, including cell cycle regulation, metabolism, and signal transduction. The Result showed that HDAC3 gene can serve as a potential target for fighting against Helicoverpa armigera.

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Helicoverpa armigera gene expression on gossypol suppelemented diet, larval gut and rest of body

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Project description:Helicoverpa armigera armigera （a susceptible strain and six diferent resistant strains ）Raw sequence reads

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Project description:Helicoverpa armigera Transcriptome

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Helicoverpa armigera

Project description:Helicoverpa armigera overview

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Helicoverpa armigera

Project description:Helicoverpa armigera midgut transcriptome

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Helicoverpa armigera gene expression on gossypol suppelemented diet, larval gut and rest of body

Project description:The transcriptional response of H. armigera larvae was analyzed after feeding on gossypol supplemented diet, a toxic secondary metabolite produced in cotton plants, to detect potential detoxification enzymes possibly involved in detoxification of gossypol by H. armigera. A one-color microarray-based gene expression analysis was performed with Cy3 labeled cRNA of gut and rest of the body of H. armigera larvae that fed on 0.016%, 0.16% gossypol and control diet. For each treatment and tissue four biological replicates were used.

2016-02-06 | E-GEOD-77619 | biostudies-arrayexpress

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