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| Status |
Public on Jan 09, 2018 |
| Title |
Transcriptomic and proteomic analyses of Anopheles gambiae (Ag55) cells: a potential model to study mosquito-pathogen interaction |
| Organism |
Anopheles gambiae |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The goal of this study is to analyze the gene expression profile of Anopheles gambiae Ag55 cells and compare it with gene expression profile of blood fed female Anopheles gambiae adult to establish Ag55 cells as a potential model to study mosquito-pathogen interactions
Methods: The transcript profiles of Ag55 cells were generated by RNA-sequencing, in triplicate, using Illumina HiSeq 2000 v3 platform. The 7 samples (paired-end reads, including replicates ( 3 samples from Ag55 cells and 4 samples from blood-fed female adults downloaded from NCBI GEO (Series GSE55453, SRA id : SRP039058))) were independently mapped on to A. gambiae genome (Anopheles-gambiae-PEST_CHROMOSOMES_AgamP4.fa.gz) downloaded from vectorbase by using TopHat followed by Cufflinks to estimate the expression values of the transcripts in FPKM (Fragments Per Kilobase per Million mapped reads) with the cuffdiff2 default geometric normalization. Differentially expressed genes (FDR<0.05 after Benjamini-Hochberg correction for multiple-testing) were identified for Ag55 cells relative to Blood fed female adults
Results: We provide detailed gene expression and proteome profiles of Ag55 cells. We further compare the gene expression profiles of Ag55 cells and blood fed female adults. Gene Ontology enrichment analysis of our transcriptomic data suggested that Ag55 cells have phagocytic properties, a hypothesis which we confirmed using confocal imaging. Transcriptomic data further backed by proteomic data suggest that Ag55 cells express hemocyte like properties, and are immune competent.
Conclusion: As Ag55 cells are immune competent and express hemocyte like properties they can be used as a model to study vector-pathogen immune response. Furthermore, the availability of transcriptomic and proteomic data of Ag55 cells will help researchers use and engineer the Ag55 cell line in an efficient way, for example by developing strategies to make it more suitable for studies of interactions with Plasmodium and other microbes.
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| Overall design |
Gene expression profile of Ag55 cell line was generated by RNA sequencing, in triplicate, using Illumina HiSeq 2000 v3 platform
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| Contributor(s) |
Mishra R, Bridger RL, Bagal U, Hua G, Wells L, Champagne DE, Adang MJ |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Aug 15, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ruchir Mishra |
| E-mail(s) |
ruchirjd@gmail.com
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| Organization name |
University of Georgia
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| Department |
Entomology
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| Street address |
103 college station road, B108
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| City |
Athens |
| State/province |
Georgia |
| ZIP/Postal code |
30605 |
| Country |
USA |
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| Platforms (1) |
| GPL17644 |
Illumina HiSeq 2000 (Anopheles gambiae) |
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| Samples (3) |
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| Relations |
| BioProject |
PRJNA338993 |
| SRA |
SRP082173 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE85643_gene_exp.diff.txt.gz |
584.7 Kb |
(ftp)(http) |
TXT |
| GSE85643_isoform_exp.diff.txt.gz |
900.0 Kb |
(ftp)(http) |
TXT |
| GSE85643_isoforms.count_tracking.txt.gz |
655.3 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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