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The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis

The grizzly bear (Ursus arctos ssp. horribilis) represents the largest population of brown bears in North America. Its genome was sequenced using a microfluidic partitioning library construction technique, and these data were supplemented with sequencing from a nanopore-based long read platform. The...

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Autores principales: Taylor, Gregory A., Kirk, Heather, Coombe, Lauren, Jackman, Shaun D., Chu, Justin, Tse, Kane, Cheng, Dean, Chuah, Eric, Pandoh, Pawan, Carlsen, Rebecca, Zhao, Yongjun, Mungall, Andrew J., Moore, Richard, Birol, Inanc, Franke, Maria, Marra, Marco A., Dutton, Christopher, Jones, Steven J. M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6315469/
https://www.ncbi.nlm.nih.gov/pubmed/30513700
http://dx.doi.org/10.3390/genes9120598
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author Taylor, Gregory A.
Kirk, Heather
Coombe, Lauren
Jackman, Shaun D.
Chu, Justin
Tse, Kane
Cheng, Dean
Chuah, Eric
Pandoh, Pawan
Carlsen, Rebecca
Zhao, Yongjun
Mungall, Andrew J.
Moore, Richard
Birol, Inanc
Franke, Maria
Marra, Marco A.
Dutton, Christopher
Jones, Steven J. M.
author_facet Taylor, Gregory A.
Kirk, Heather
Coombe, Lauren
Jackman, Shaun D.
Chu, Justin
Tse, Kane
Cheng, Dean
Chuah, Eric
Pandoh, Pawan
Carlsen, Rebecca
Zhao, Yongjun
Mungall, Andrew J.
Moore, Richard
Birol, Inanc
Franke, Maria
Marra, Marco A.
Dutton, Christopher
Jones, Steven J. M.
author_sort Taylor, Gregory A.
collection PubMed
description The grizzly bear (Ursus arctos ssp. horribilis) represents the largest population of brown bears in North America. Its genome was sequenced using a microfluidic partitioning library construction technique, and these data were supplemented with sequencing from a nanopore-based long read platform. The final assembly was 2.33 Gb with a scaffold N50 of 36.7 Mb, and the genome is of comparable size to that of its close relative the polar bear (2.30 Gb). An analysis using 4104 highly conserved mammalian genes indicated that 96.1% were found to be complete within the assembly. An automated annotation of the genome identified 19,848 protein coding genes. Our study shows that the combination of the two sequencing modalities that we used is sufficient for the construction of highly contiguous reference quality mammalian genomes. The assembled genome sequence and the supporting raw sequence reads are available from the NCBI (National Center for Biotechnology Information) under the bioproject identifier PRJNA493656, and the assembly described in this paper is version QXTK01000000.
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spelling pubmed-63154692019-01-09 The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis Taylor, Gregory A. Kirk, Heather Coombe, Lauren Jackman, Shaun D. Chu, Justin Tse, Kane Cheng, Dean Chuah, Eric Pandoh, Pawan Carlsen, Rebecca Zhao, Yongjun Mungall, Andrew J. Moore, Richard Birol, Inanc Franke, Maria Marra, Marco A. Dutton, Christopher Jones, Steven J. M. Genes (Basel) Article The grizzly bear (Ursus arctos ssp. horribilis) represents the largest population of brown bears in North America. Its genome was sequenced using a microfluidic partitioning library construction technique, and these data were supplemented with sequencing from a nanopore-based long read platform. The final assembly was 2.33 Gb with a scaffold N50 of 36.7 Mb, and the genome is of comparable size to that of its close relative the polar bear (2.30 Gb). An analysis using 4104 highly conserved mammalian genes indicated that 96.1% were found to be complete within the assembly. An automated annotation of the genome identified 19,848 protein coding genes. Our study shows that the combination of the two sequencing modalities that we used is sufficient for the construction of highly contiguous reference quality mammalian genomes. The assembled genome sequence and the supporting raw sequence reads are available from the NCBI (National Center for Biotechnology Information) under the bioproject identifier PRJNA493656, and the assembly described in this paper is version QXTK01000000. MDPI 2018-11-30 /pmc/articles/PMC6315469/ /pubmed/30513700 http://dx.doi.org/10.3390/genes9120598 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Taylor, Gregory A.
Kirk, Heather
Coombe, Lauren
Jackman, Shaun D.
Chu, Justin
Tse, Kane
Cheng, Dean
Chuah, Eric
Pandoh, Pawan
Carlsen, Rebecca
Zhao, Yongjun
Mungall, Andrew J.
Moore, Richard
Birol, Inanc
Franke, Maria
Marra, Marco A.
Dutton, Christopher
Jones, Steven J. M.
The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title_full The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title_fullStr The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title_full_unstemmed The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title_short The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis
title_sort genome of the north american brown bear or grizzly: ursus arctos ssp. horribilis
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6315469/
https://www.ncbi.nlm.nih.gov/pubmed/30513700
http://dx.doi.org/10.3390/genes9120598
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