Assembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmission

Handle URI:
http://hdl.handle.net/10754/325279
Title:
Assembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmission
Authors:
Juneja, Punita; Osei-Poku, Jewelna; Ho, Yung S.; Ariani, Cristina V.; Palmer, William J.; Pain, Arnab ( 0000-0002-1755-2819 ) ; Jiggins, Francis M.
Abstract:
The mosquito Aedes aegypti transmits some of the most important human arboviruses, including dengue, yellow fever and chikungunya viruses. It has a large genome containing many repetitive sequences, which has resulted in the genome being poorly assembled - there are 4,758 scaffolds, few of which have been assigned to a chromosome. To allow the mapping of genes affecting disease transmission, we have improved the genome assembly by scoring a large number of SNPs in recombinant progeny from a cross between two strains of Ae. aegypti, and used these to generate a genetic map. This revealed a high rate of misassemblies in the current genome, where, for example, sequences from different chromosomes were found on the same scaffold. Once these were corrected, we were able to assign 60% of the genome sequence to chromosomes and approximately order the scaffolds along the chromosome. We found that there are very large regions of suppressed recombination around the centromeres, which can extend to as much as 47% of the chromosome. To illustrate the utility of this new genome assembly, we mapped a gene that makes Ae. aegypti resistant to the human parasite Brugia malayi, and generated a list of candidate genes that could be affecting the trait. © 2014 Juneja et al.
KAUST Department:
Computational Bioscience Research Center (CBRC)
Citation:
Juneja P, Osei-Poku J, Ho YS, Ariani CV, Palmer WJ, et al. (2014) Assembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmission. PLoS Negl Trop Dis 8: e2652. doi:10.1371/journal.pntd.0002652.
Publisher:
Public Library of Science (PLoS)
Journal:
PLoS Neglected Tropical Diseases
Issue Date:
30-Jan-2014
DOI:
10.1371/journal.pntd.0002652
PubMed ID:
24498447
PubMed Central ID:
PMC3907309
Type:
Article
ISSN:
19352727
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorJuneja, Punitaen
dc.contributor.authorOsei-Poku, Jewelnaen
dc.contributor.authorHo, Yung S.en
dc.contributor.authorAriani, Cristina V.en
dc.contributor.authorPalmer, William J.en
dc.contributor.authorPain, Arnaben
dc.contributor.authorJiggins, Francis M.en
dc.date.accessioned2014-08-27T09:44:37Zen
dc.date.available2014-08-27T09:44:37Zen
dc.date.issued2014-01-30en
dc.identifier.citationJuneja P, Osei-Poku J, Ho YS, Ariani CV, Palmer WJ, et al. (2014) Assembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmission. PLoS Negl Trop Dis 8: e2652. doi:10.1371/journal.pntd.0002652.en
dc.identifier.issn19352727en
dc.identifier.pmid24498447en
dc.identifier.doi10.1371/journal.pntd.0002652en
dc.identifier.urihttp://hdl.handle.net/10754/325279en
dc.description.abstractThe mosquito Aedes aegypti transmits some of the most important human arboviruses, including dengue, yellow fever and chikungunya viruses. It has a large genome containing many repetitive sequences, which has resulted in the genome being poorly assembled - there are 4,758 scaffolds, few of which have been assigned to a chromosome. To allow the mapping of genes affecting disease transmission, we have improved the genome assembly by scoring a large number of SNPs in recombinant progeny from a cross between two strains of Ae. aegypti, and used these to generate a genetic map. This revealed a high rate of misassemblies in the current genome, where, for example, sequences from different chromosomes were found on the same scaffold. Once these were corrected, we were able to assign 60% of the genome sequence to chromosomes and approximately order the scaffolds along the chromosome. We found that there are very large regions of suppressed recombination around the centromeres, which can extend to as much as 47% of the chromosome. To illustrate the utility of this new genome assembly, we mapped a gene that makes Ae. aegypti resistant to the human parasite Brugia malayi, and generated a list of candidate genes that could be affecting the trait. © 2014 Juneja et al.en
dc.language.isoenen
dc.publisherPublic Library of Science (PLoS)en
dc.rightsThis is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) ., which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.en
dc.titleAssembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmissionen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.identifier.journalPLoS Neglected Tropical Diseasesen
dc.identifier.pmcidPMC3907309en
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionDepartment of Genetics, University of Cambridge, Cambridge, United Kingdomen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorPain, Arnaben
kaust.authorHo, Yungshwenen

Related articles on PubMed

All Items in KAUST are protected by copyright, with all rights reserved, unless otherwise indicated.