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Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing
The 22-gigabase genome of loblolly pine (Pinus taeda) is one of the largest ever sequenced. The draft assembly published in 2014 was built entirely from short Illumina reads, with lengths ranging from 100 to 250 base pairs (bp). The assembly was quite fragmented, containing over 11 million contigs w...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5632297/ https://www.ncbi.nlm.nih.gov/pubmed/29020755 http://dx.doi.org/10.1093/gigascience/gix072 |
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author | Zimin, Aleksey V. Stevens, Kristian A. Crepeau, Marc W. Puiu, Daniela Wegrzyn, Jill L. Yorke, James A. Langley, Charles H. Neale, David B. Salzberg, Steven L. |
author_facet | Zimin, Aleksey V. Stevens, Kristian A. Crepeau, Marc W. Puiu, Daniela Wegrzyn, Jill L. Yorke, James A. Langley, Charles H. Neale, David B. Salzberg, Steven L. |
author_sort | Zimin, Aleksey V. |
collection | PubMed |
description | The 22-gigabase genome of loblolly pine (Pinus taeda) is one of the largest ever sequenced. The draft assembly published in 2014 was built entirely from short Illumina reads, with lengths ranging from 100 to 250 base pairs (bp). The assembly was quite fragmented, containing over 11 million contigs whose weighted average (N50) size was 8206 bp. To improve this result, we generated approximately 12-fold coverage in long reads using the Single Molecule Real Time sequencing technology developed at Pacific Biosciences. We assembled the long and short reads together using the MaSuRCA mega-reads assembly algorithm, which produced a substantially better assembly, P. taeda version 2.0. The new assembly has an N50 contig size of 25 361, more than three times as large as achieved in the original assembly, and an N50 scaffold size of 107 821, 61% larger than the previous assembly. |
format | Online Article Text |
id | pubmed-5632297 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-56322972017-10-12 Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing Zimin, Aleksey V. Stevens, Kristian A. Crepeau, Marc W. Puiu, Daniela Wegrzyn, Jill L. Yorke, James A. Langley, Charles H. Neale, David B. Salzberg, Steven L. Gigascience Erratum The 22-gigabase genome of loblolly pine (Pinus taeda) is one of the largest ever sequenced. The draft assembly published in 2014 was built entirely from short Illumina reads, with lengths ranging from 100 to 250 base pairs (bp). The assembly was quite fragmented, containing over 11 million contigs whose weighted average (N50) size was 8206 bp. To improve this result, we generated approximately 12-fold coverage in long reads using the Single Molecule Real Time sequencing technology developed at Pacific Biosciences. We assembled the long and short reads together using the MaSuRCA mega-reads assembly algorithm, which produced a substantially better assembly, P. taeda version 2.0. The new assembly has an N50 contig size of 25 361, more than three times as large as achieved in the original assembly, and an N50 scaffold size of 107 821, 61% larger than the previous assembly. Oxford University Press 2017-10-06 /pmc/articles/PMC5632297/ /pubmed/29020755 http://dx.doi.org/10.1093/gigascience/gix072 Text en © The Authors 2017. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Erratum Zimin, Aleksey V. Stevens, Kristian A. Crepeau, Marc W. Puiu, Daniela Wegrzyn, Jill L. Yorke, James A. Langley, Charles H. Neale, David B. Salzberg, Steven L. Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title | Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title_full | Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title_fullStr | Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title_full_unstemmed | Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title_short | Erratum to: An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
title_sort | erratum to: an improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing |
topic | Erratum |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5632297/ https://www.ncbi.nlm.nih.gov/pubmed/29020755 http://dx.doi.org/10.1093/gigascience/gix072 |
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