NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE120076 Query DataSets for GSE120076
Status Public on Jan 08, 2019
Title Chromatin changes induced by a Plasmodium falciparum infection in Anopheles gambiae
Organism Anopheles gambiae
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Background: Infection by the human malaria parasite leads to important changes in mosquito phenotypic traits related to vector competence. However, we still lack a clear understanding of the underlying mechanisms and, in particular, of the epigenetic basis for these changes. We have examined genome-wide distribution maps of H3K27ac, H3K9ac, H3K9me3 and H3K4me3 by ChIP-seq and the transcriptome by RNA-seq, of midguts from Anopheles gambiae mosquitoes blood-fed uninfected and infected with natural isolates of the human malaria parasite Plasmodium falciparum in Burkina Faso.

Results: We report 15,916 regions containing differential histone modification enrichment between infected and uninfected, of which 8339 locate at promoters and/or intersect with genes. The functional annotation of these regions allowed us to identify infection-responsive genes showing differential enrichment in various histone modifications, such as CLIP proteases, antimicrobial peptides-encoding genes, and genes related to melanization responses and the complement system. Further, the motif analysis of regions differentially enriched in various histone modifications predicts binding sites that might be involved in the cis-regulation of these regions, such as Deaf1, Pangolin and Dorsal transcription factors (TFs). Some of these TFs are known to regulate immunity gene expression in Drosophila and are involved in the Notch and JAK/STAT signaling pathways.

Conclusions: The analysis of malaria infection-induced chromatin changes in mosquitoes is important not only to identify regulatory elements and genes underlying mosquito responses to P. falciparum infection, but also for possible applications to the genetic manipulation of mosquitoes and to other mosquito-borne systems.
 
Overall design Genome-wide profiling of histone modifications enrichment (ChIP-seq) in mosquito tissues infected and non-infected by P.falciparum coupled with transcriptome profiling (RNA-seq)
 
Contributor(s) Ruiz JL, Yerbanga RS, Lefèvre T, Ouedraogo JB, Corces VG, Gómez-Díaz E
Citation(s) 30616642
Submission date Sep 17, 2018
Last update date Jan 12, 2019
Contact name Jose Luis Ruiz Rodriguez
Organization name IPBLN-CSIC
Street address Avda. del Conocimiento 17. P. T. Ciencias de la Salud
City Granada
State/province Granada
ZIP/Postal code 18016
Country Spain
 
Platforms (1)
GPL17644 Illumina HiSeq 2000 (Anopheles gambiae)
Samples (14)
GSM3392962 Infection_RNAseq_replicate1
GSM3392963 Infection_RNAseq_replicate2
GSM3392964 Control_RNAseq_replicate1
Relations
BioProject PRJNA491506
SRA SRP161940

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE120076_Agambiae_genes_and_promoters_ChIP_rpkm_counts.txt.gz 4.1 Mb (ftp)(http) TXT
GSE120076_Control_RNAseq_coverage.bw 8.7 Mb (ftp)(http) BW
GSE120076_Infection_RNAseq_coverage.bw 9.4 Mb (ftp)(http) BW
GSE120076_RAW.tar 475.6 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap