ArticleBMC genomics2016
Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
30 citing papers in PubMed.
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- Genome Sequence of the Asian Honeybee in Pakistan Sheds Light on Its Phylogenetic Relationship with Other Honeybees.Insects · 2021Article
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- Genus-Wide Characterization of Bumblebee Genomes Provides Insights into Their Evolution and Variation in Ecological and Behavioral Traits.Molecular biology and evolution · 2021Article
- Assembly of whole-chromosome pseudomolecules for polyploid plant genomes using outbred mapping populations.Nature genetics · 2020Article
- The Genome of the Cauliflower Coral Pocillopora verrucosa.Genome biology and evolution · 2020Article
- Sequencing smart: De novo sequencing and assembly approaches for a non-model mammal.GigaScience · 2020Article
- What animals can teach us about evolution, the human genome, and human disease.Upsala journal of medical sciences · 2020Review
- Genomic architecture and introgression shape a butterfly radiation.Science (New York, N.Y.) · 2019Article
- De Novo Assembly Discovered Novel Structures in Genome of Plastids and Revealed Divergent Inverted Repeats inPlants (Basel, Switzerland) · 2019Article
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Authors and funding
5 authors.
Funding
Abstract
backgroundDe novo reference assemblies that are affordable, practical to produce, and of sufficient quality for most downstream applications, remain an unattained goal for many taxa. Insects, which may yield too little DNA from individual specimens for long-read sequencing library construction and often have highly heterozygous genomes, can be particularly hard to assemble using inexpensive short-read sequencing data. The large number of insect species with medical or economic importance makes this a critical problem to address.
resultsUsing the assembler DISCOVAR de novo, we assembled the genome of the African malaria mosquito Anopheles arabiensis using 250 bp reads from a single library. The resulting assembly had a contig N50 of 22,433 bp, and recovered the gene set nearly as well as the ALLPATHS-LG AaraD1 An. arabiensis assembly produced with reads from three sequencing libraries and much greater resources. DISCOVAR de novo appeared to perform better than ALLPATHS-LG in regions of low complexity.
conclusionsDISCOVAR de novo performed well assembling the genome of an insect of medical importance, using simpler sequencing input than previous anopheline assemblies. We have shown that this program is a viable tool for cost-effective assembly of a modestly-sized insect genome.
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