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

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

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 f...

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Main Authors: Daniel Berner, Marius Roesti, Steven Bilobram, Simon K. Chan, Heather Kirk, Pawan Pandoh, Gregory A. Taylor, Yongjun Zhao, Steven J. M. Jones, Jacquelin DeFaveri
Format: Article
Language:English
Published: MDPI AG 2019-06-01
Series:Genes
Subjects:
<i>Gasterosteus aculeatus</i>
genome assembly
Online Access:https://www.mdpi.com/2073-4425/10/6/426
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spelling doaj-5f147651869f4cf49581735f4e46e5c02020-11-25T00:16:04ZengMDPI AGGenes2073-44252019-06-0110642610.3390/genes10060426genes10060426<i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA LibrariesDaniel Berner0Marius Roesti1Steven Bilobram2Simon K. Chan3Heather Kirk4Pawan Pandoh5Gregory A. Taylor6Yongjun Zhao7Steven J. M. Jones8Jacquelin DeFaveri9Department of Environmental Sciences, Zoology, University of Basel, Vesalgasse 1, CH-4051 Basel, SwitzerlandBiodiversity Research Centre and Zoology Department, University of British Columbia, Vancouver, BC V6T 1Z4, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaCanada’s Michael Smith Genome Sciences Centre at BC Cancer, Vancouver, BC V5Z 4S6, CanadaFaculty of Biological &amp; Environmental Sciences, University of Helsinki, Viikinkaari 1, FI-00014 Helsinki, FinlandThe 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&#8722;101% of the standard reference genome length. Together with their <i>de novo</i> 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).https://www.mdpi.com/2073-4425/10/6/426<i>Gasterosteus aculeatus</i>genome assembly
collection DOAJ
language English
format Article
sources DOAJ
author Daniel Berner
Marius Roesti
Steven Bilobram
Simon K. Chan
Heather Kirk
Pawan Pandoh
Gregory A. Taylor
Yongjun Zhao
Steven J. M. Jones
Jacquelin DeFaveri
spellingShingle Daniel Berner
Marius Roesti
Steven Bilobram
Simon K. Chan
Heather Kirk
Pawan Pandoh
Gregory A. Taylor
Yongjun Zhao
Steven J. M. Jones
Jacquelin DeFaveri
<i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
Genes
<i>Gasterosteus aculeatus</i>
genome assembly
author_facet Daniel Berner
Marius Roesti
Steven Bilobram
Simon K. Chan
Heather Kirk
Pawan Pandoh
Gregory A. Taylor
Yongjun Zhao
Steven J. M. Jones
Jacquelin DeFaveri
author_sort Daniel Berner
title <i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
title_short <i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
title_full <i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
title_fullStr <i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
title_full_unstemmed <i>De Novo</i> Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries
title_sort <i>de novo</i> sequencing, assembly, and annotation of four threespine stickleback genomes based on microfluidic partitioned dna libraries
publisher MDPI AG
series Genes
issn 2073-4425
publishDate 2019-06-01
description 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&#8722;101% of the standard reference genome length. Together with their <i>de novo</i> 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).
topic <i>Gasterosteus aculeatus</i>
genome assembly
url https://www.mdpi.com/2073-4425/10/6/426
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