De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries

Berner, Daniel; Roesti, Marius; Bilobram, Steven; Chan, Simon K.; Kirk, Heather; Pandoh, Pawan; Taylor, Gregory A.; Zhao, Yongjun; Jones, Steven J. M.; DeFaveri, Jacquelin

doi:10.3390/genes10060426

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De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries

^1,*

^2,3,

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and

Jacquelin DeFaveri

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Department of Environmental Sciences, Zoology, University of Basel, Vesalgasse 1, CH-4051 Basel, Switzerland

Biodiversity Research Centre and Zoology Department, University of British Columbia, Vancouver, BC V6T 1Z4, Canada

Institute of Ecology and Evolution, University of Bern, Baltzerstrasse 6, CH-3012 Bern, Switzerland

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Canada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, Canada

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Department of Medical Genetics, University of British Columbia, Vancouver, BC V6T 1Z3, Canada

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Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC V5A 1S6, Canada

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Faculty of Biological & Environmental Sciences, University of Helsinki, Viikinkaari 1, FI-00014 Helsinki, Finland

Author to whom correspondence should be addressed.

Genes 2019, 10(6), 426; https://doi.org/10.3390/genes10060426

Received: 13 March 2019 / Revised: 24 May 2019 / Accepted: 27 May 2019 / Published: 3 June 2019

(This article belongs to the Section Technologies and Resources for Genetics)

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Abstract

The threespine stickleback is a geographically widespread and ecologically highly diverse fish that has emerged as a powerful model system for evolutionary genomics and developmental biology. Investigations in this species currently rely on a single high-quality reference genome, but would benefit from the availability of additional, independently sequenced and assembled genomes. We present here the assembly of four new stickleback genomes, based on the sequencing of microfluidic partitioned DNA libraries. The base pair lengths of the four genomes reach 92–101% of the standard reference genome length. Together with their de novo gene annotation, these assemblies offer a resource enhancing genomic investigations in stickleback. The genomes and their annotations are available from the Dryad Digital Repository (https://doi.org/10.5061/dryad.113j3h7). View Full-Text

Keywords: Gasterosteus aculeatus; genome assembly

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Berner, D.; Roesti, M.; Bilobram, S.; Chan, S.K.; Kirk, H.; Pandoh, P.; Taylor, G.A.; Zhao, Y.; Jones, S.J.M.; DeFaveri, J. De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries. Genes 2019, 10, 426. https://doi.org/10.3390/genes10060426

AMA Style

Berner D, Roesti M, Bilobram S, Chan SK, Kirk H, Pandoh P, Taylor GA, Zhao Y, Jones SJM, DeFaveri J. De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries. Genes. 2019; 10(6):426. https://doi.org/10.3390/genes10060426

Chicago/Turabian Style

Berner, Daniel, Marius Roesti, Steven Bilobram, Simon K. Chan, Heather Kirk, Pawan Pandoh, Gregory A. Taylor, Yongjun Zhao, Steven J.M. Jones, and Jacquelin DeFaveri. 2019. "De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries" Genes 10, no. 6: 426. https://doi.org/10.3390/genes10060426

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De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries

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