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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
A De Novo expression profiling of Anopheles funestus, malaria vector in Africa, using 454 pyrosequencing
PLoS ONE, Volume 6, No. 2, Article e17418, Year 2011
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Description
Background: Anopheles funestus is one of the major malaria vectors in Africa and yet there are few genomic tools available for this species compared to An. gambiae. To start to close this knowledge gap, we sequenced the An. funestus transcriptome using cDNA libraries developed from a pyrethroid resistant laboratory strain and a pyrethroid susceptible field strain from Mali. Results: Using a pool of life stages (pupae, larvae, adults: females and males) for each strain, 454 sequencing generated 375,619 reads (average length of 182 bp). De novo assembly generated 18,103 contigs with average length of 253 bp. The average depth of coverage of these contigs was 8.3. In total 20.8% of all reads were novel when compared to reference databases. The sequencing of the field strain generated 204,758 reads compared to 170,861 from the insecticide resistant laboratory strain. The contigs most differentially represented in the resistant strain belong to the P450 gene family and cuticular genes which correlates with previous studies implicating both of these gene families in pyrethroid resistance. qPCR carried out on six contigs indicates that these ESTs could be suitable for gene expression studies such as microarray. 31,000 sites were estimated to contain Single Nucleotide Polymorphisms (SNPs) and analysis of SNPs from 20 contigs suggested that most of these SNPs are likely to be true SNPs. Gene conservation analysis confirmed the close phylogenetic relationship between An. funestus and An. gambiae. Conclusion: This study represents a significant advance for the genetics and genomics of An. funestus since it provides an extensive set of both Expressed Sequence Tags (ESTs) and SNPs which can be readily adopted for the design of new genomic tools such as microarray or SNP platforms. © 2011 Gregory et al.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC3045460/bin/pone.0017418.s001.pdf
https://efashare.b-cdn.net/share/pmc/articles/PMC3045460/bin/pone.0017418.s002.xls
Authors & Co-Authors
Gregory, Richard
United Kingdom, Liverpool
University of Liverpool
Darby, Alistair Charles
United Kingdom, Liverpool
University of Liverpool
Irving, Helen
United Kingdom, Liverpool
Liverpool School of Tropical Medicine
Coulibaly, Mamadou B.
Mali, Bamako
Malaria Research and Training Center
Hughes, Margaret A.
United Kingdom, Liverpool
University of Liverpool
Koekemoer, Lizette Leonie
South Africa, Johannesburg
National Institute for Communicable Diseases
Coetzee, Maureen
South Africa, Johannesburg
National Institute for Communicable Diseases
Ranson, Hilary A.
United Kingdom, Liverpool
Liverpool School of Tropical Medicine
Hemingway, Janet
United Kingdom, Liverpool
Liverpool School of Tropical Medicine
Hall, Neil
United Kingdom, Liverpool
University of Liverpool
Wondji, Charles Sinclair
United Kingdom, Liverpool
Liverpool School of Tropical Medicine
Statistics
Citations: 61
Authors: 11
Affiliations: 4
Identifiers
Doi:
10.1371/journal.pone.0017418
e-ISSN:
19326203
Research Areas
Cancer
Genetics And Genomics
Health System And Policy
Infectious Diseases
Study Locations
Mali
Participants Gender
Female