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De novo assembly of Aedes aegypti using Hi-C yields chromosome-length scaffolds

ABSTRACT: De novo assembly of Aedes aegypti using Hi-C yields chromosome-length scaffolds

PROVIDER: PRJNA378420 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR5319280_1.fastq.gz	Fastqsanger.gz
	SRR5319280_2.fastq.gz	Fastqsanger.gz
	SRR5319290_1.fastq.gz	Fastqsanger.gz
	SRR5319290_2.fastq.gz	Fastqsanger.gz
	SRR5319300_1.fastq.gz	Fastqsanger.gz

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De novo assembly of Aedes aegypti using Hi-C yields chromosome-length scaffolds

Project description:The Zika outbreak, spread by the Aedes aegypti mosquito, highlights the need to create high-quality assemblies of large genomes in a rapid and cost-effective fashion. Here, we combine Hi-C data with existing draft assemblies to generate chromosome-length scaffolds. We validate this method by assembling a human genome, de novo, from short reads alone (67X coverage, Sample GSM1551550). We then combine our method with draft sequences to create genome assemblies of the mosquito disease vectors Aedes aegypti and Culex quinquefasciatus, each consisting of three scaffolds corresponding to the three chromosomes in each species. These assemblies indicate that virtually all genomic rearrangements among these species occur within, rather than between, chromosome arms. The genome assembly procedure we describe is fast, inexpensive, accurate, and can be applied to many species.

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Project description:The Zika outbreak, spread by the Aedes aegypti mosquito, highlights the need to create high-quality assemblies of large genomes in a rapid and cost-effective way. Here we combine Hi-C data with existing draft assemblies to generate chromosome-length scaffolds. We validate this method by assembling a human genome, de novo, from short reads alone (67× coverage). We then combine our method with draft sequences to create genome assemblies of the mosquito disease vectors Aeaegypti and Culex quinquefasciatus, each consisting of three scaffolds corresponding to the three chromosomes in each species. These assemblies indicate that almost all genomic rearrangements among these species occur within, rather than between, chromosome arms. The genome assembly procedure we describe is fast, inexpensive, and accurate, and can be applied to many species.

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