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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Expression profile of cuticular genes of silkworm, Bombyx mori

ABSTRACT: Insect cuticle plays essential roles in multiple physiological functions. During molting and metamorphosis, tremendous changes occur in silkworm cuticles. Silkworm is a model of Lepidoptera insects; however, little is known about the stage expression profiles of genes in cuticles of silkworm. In the present study, we selected 16 developmental stages, ranging from day 1 of the first instar larvae to day 8 of pupae, to perform microarray-based expression profiles. The data told us that various functions and physiological pathways were activated in the cuticle. Moreover, the expression profiles of cuticular protein genes, as the important components of cuticle, were investigated. The current study provides important insights for the functional study of insect cuticle and the regulation of insect cuticular protein genes. Transcription profiling experiments, 16 developmental stages (samples) were analyzed. Dual-channel experiments, with test samples labeled by Cy5 and common reference samples labeled by Cy3. Common reference sample was used for data normalization. One biological replicate. No dye-swaps.

ORGANISM(S): Bombyx mori

SUBMITTER: Ningjia He

PROVIDER: E-GEOD-18878 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Microarray-based gene expression profiles of silkworm brains

Project description:Molecular genetic studies of Bombyx mori have led to profound advances in understanding the regulation of development. Bombyx mori brain, as a main endocrine organ, plays important regulatory roles in various biological processes. The microarray technology will allow the genome-wide analysis of gene expression patterns in silkworm brains. We reported microarray-based gene expression profiles in silkworm brains at four stages including V7, P1, P2 and P3. A total of 4,550 genes were transcribed in at least one selected stage. Of these, clustering algorithms separated the expressed genes into stable expressed genes and variable expressed genes. The results of the gene ontology (GO) and kyoto encyclopedia of genes and genomes (KEGG) analysis of stable expressed genes showed that the ribosomal and oxidative phosphorylation pathways were principal pathways. Secondly, four clusters of genes with significantly different expression patterns were observed in the 1,175 variable expressed genes. Thirdly, thirty-two neuropeptide hormones genes, nine neuropeptide-like precursor genes, and 117 cuticular protein genes were expressed in selected developmental stages. The present study deﬁned major characteristics of the transcriptional profiles in the brains of Bombyx mori at the specific development stages. Our data will provide abundant information that will be useful in future research. Transcription profiling experiments, 4 developmental stages (samples) were analyzed. Dual-channel experiments, with test samples labeled by Cy5 and common reference samples labeled by Cy3. Common reference sample was used for data normalization. One Biological replicate. No dye-swaps.

2010-11-16 | E-GEOD-25342 | biostudies-arrayexpress

Differentially expressed genes following injection with miR-1 mimics of the silkworm, Bombyx mori, during pupation

Project description:The molting of insects is a complex biological progress which requires varies of genes to participate in the event. MicroRNAs are considered to be one of the key roles involved in development in many organisms. Microarray technology was employed to examine the expression profile of multiple genes after extrinsical up-regulation of miR-1 level by injection of miR-1 mimics in silkworm (Bombyx mori.L), which caused altered expression profile of numerous genes, especially those which involved in the processes of cuticle renewing and development. 814 genes were up-regulated and 636 were down-regulated after treated with miR-1 mimics, the rest 2961 detectable genes were considered to have no significant changes in expression level. Transcription profiling experiments, 3 pairs of samples (miR-1 injected and negative control) were analyzed. Dual-channel experiments, with control samples labeled by Cy5 and miR-1 injected samples labeled by Cy3. Fold change was calculated via comparing signal intensity of Cy3 vs Cy5. 3 biological replicates were performed.

2012-02-25 | E-GEOD-36034 | biostudies-arrayexpress

Host reponse of silkworm, Control vs. Nb infected

Project description:Microsporidia have attracted much attention because they infect a variety of species ranging from protists to mammals, including immunocompromised patients with AIDS or cancer. Aside from the study on Nosema ceranae, few works have focused on elucidating the mechanism in host response to microsporidia infection. Nosema bombycis is a pathogen of silkworm pM-CM-)brine that causes great economic losses to the silkworm industry. Detailed understanding of the host (Bombyx mori) response to infection by N. bombycis is helpful for prevention of this disease. The 23 K silkworm genome array was used to investigate host responses (i.e., Bombyx mori) occurring at 2, 4, 6 and 8 d post-infection by Nosema bombycis.We focused on elucidating the mechanism of the host response to microsporidia infection, especially for the investigation of host immune response . The third instar molted silkworm larvae were in oral infected by Nosema bombycis. In order to known the silkworm host response to Nosema bombycis infection at different time points, samples of infected larvae (i.e., the treatment set) and uninfected larvae (i.e., the control set) were collected at 2, 4, 6 and 8 dpi for RNA extraction and array hybridization. The obtained data were usd to investigate on the interplay of the genome-wide expression profile of hosts.

2013-09-27 | E-GEOD-51247 | biostudies-arrayexpress

Knockdown of BmSoxE gene in silkworm BmN4-SID1 cells

Project description:Transcriptional profiling of silkworm BmN4-SID1 cells comparing the test of BmSoxE knockdown with the control of EGFP Knockdown. Two-condition experiment, BmSoxE knockdown vs EGFP Knockdown. Biological replicates: 3. One replicate per array.

2014-06-28 | E-GEOD-53240 | biostudies-arrayexpress

Genome-wide Identification of Polycomb Target Genes Reveals a Functional Association of Pho with Scm in Bombyx mori

Project description:Polycomb group (PcG) proteins are involved in chromatin modifications for maintaining gene repression that play important roles in the regulation of gene expression, tumorigenesis, chromosome X-inactivation, and genomic imprinting in Drosophila melanogaster, mammals, and even plants. PcG proteins act together in three multimeric complexes, Polycomb repressive complex 1 (PRC1), Polycomb repressive complex 2 (PRC2), and Pleiohomeotic repressive complex (PhoRC), to repress transcription of the target genes. Here, we identified Polycomb target genes in Bombyx mori using genome-wide expression screening based on the knockdown of the BmSCE, BmESC, BmPHO, or BmSCM gene, which represent the distinct complexes. As a result, most genes were up-regulated after knocking down these four PcG genes, which indicated a potential epigenetic mechanism on the regulation of these genes expression by the PcG system. The further analysis of our data will provide some important information for the regulation mediated by PcG proteins in Bombyx mori. Transcription profiling experiments, knockdowns of four Polycomb genes (four samples) in silkworm BmN4-SID1 cells, were analyzed. Dual-channel experiments, with test samples labeled by Cy5 and common reference samples labeled by Cy3. The common reference sample, knockdown of the EGFP gene in BmN4-SID1 cells, was used for data normalization. One biological replicate. No dye-swaps.

2012-04-17 | E-GEOD-34246 | biostudies-arrayexpress

Juvenile hormone (JH) response in integuments of silkworm larvae

Project description:Expression changes in silkworm integuments after JH analogue (JHA) methoprene treatment. Two-condition experiments, namely JH analogue (JHA) methoprene treatment (Test) and acetone treatment (Control). Time course: 12 hours after treatment (Hat), 24 Hat, 36 Hat, and 48 Hat.

2014-06-29 | E-GEOD-53374 | biostudies-arrayexpress

Expression profile of cuticular genes of silkworm, Bombyx mori

Project description:Insect cuticle plays essential roles in multiple physiological functions. During molting and metamorphosis, tremendous changes occur in silkworm cuticles. Silkworm is a model of Lepidoptera insects; however, little is known about the stage expression profiles of genes in cuticles of silkworm. In the present study, we selected 16 developmental stages, ranging from day 1 of the first instar larvae to day 8 of pupae, to perform microarray-based expression profiles. The data told us that various functions and physiological pathways were activated in the cuticle. Moreover, the expression profiles of cuticular protein genes, as the important components of cuticle, were investigated. The current study provides important insights for the functional study of insect cuticle and the regulation of insect cuticular protein genes.

2009-11-05 | GSE18878 | GEO

The midgut of domestic silkworm: Control vs. phoxim treated

Project description:Transcriptional characteristics of genes in the midgut of domestic silkworms after 24 h exposure to phoxim through whole-genome oligonucleotide microarray. Transcription profiling experiments, phoxim-treated midgut (samples) were analyzed. Dual-channel experiments, with test samples labeled by Cy5 and control samples labeled by Cy3. Three Biological replicate. No dye-swaps.

2012-10-13 | E-GEOD-41550 | biostudies-arrayexpress

Differentially expressed genes at molting and metamorphosis stages in Bombyx fat body

Project description:In the silkworm, Bombyx mori, juvenile hormone (JH) and 20-hydroxyecdysone (20E) levels are high during the final larval molt (4M) but both absent during the feeding stage of 5th instar (5F), while JH level is low and 20E level is high during the prepupal stage (PP). Fat body is the important organs in insect, we want to find out differentially expressed genes which are respectively regulated by the two hormones. Total RNA from 4th molting,5th feeding and prepupa stages Bombyx fat body were used to generate target cDNA, and then hybridized to 48k Bombyx genome Array Genechips, representing about 23000 characterized genes

2010-08-04 | E-GEOD-23424 | biostudies-arrayexpress

Gene expression profiling of the fat body of Bombyx mori exposed to phoxim insecticide

Project description:Transcriptional characteristics of genes in the fat body of domestic silkworms after 24 h exposure to phoxim through whole-genome oligonucleotide microarray. Transcriptional profiling of fat body in the domestic silkworms comparing control untreated fat body with phoxim-treated fat body Transcription profiling experiments, phoxim-treated fat body (samples) were analyzed. Dual-channel experiments, with test samples labeled by Cy5 and control samples labeled by Cy3. Three Biological replicate. No dye-swaps.

2016-07-03 | E-GEOD-60877 | biostudies-arrayexpress

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