Cargando…

Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies

During the past decade, DNA sequencing output has been mostly dominated by the second generation sequencing platforms which are characterized by low cost, high throughput and shorter read lengths for example, Illumina. The emergence and development of so called third generation sequencing platforms...

Descripción completa

Detalles Bibliográficos
Autores principales: Utturkar, Sagar M, Klingeman, Dawn M, Bruno-Barcena, José M, Chinn, Mari S, Grunden, Amy M, Köpke, Michael, Brown, Steven D
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4409012/
https://www.ncbi.nlm.nih.gov/pubmed/25977818
http://dx.doi.org/10.1038/sdata.2015.14
_version_ 1782368137395568640
author Utturkar, Sagar M
Klingeman, Dawn M
Bruno-Barcena, José M
Chinn, Mari S
Grunden, Amy M
Köpke, Michael
Brown, Steven D
author_facet Utturkar, Sagar M
Klingeman, Dawn M
Bruno-Barcena, José M
Chinn, Mari S
Grunden, Amy M
Köpke, Michael
Brown, Steven D
author_sort Utturkar, Sagar M
collection PubMed
description During the past decade, DNA sequencing output has been mostly dominated by the second generation sequencing platforms which are characterized by low cost, high throughput and shorter read lengths for example, Illumina. The emergence and development of so called third generation sequencing platforms such as PacBio has permitted exceptionally long reads (over 20 kb) to be generated. Due to read length increases, algorithm improvements and hybrid assembly approaches, the concept of one chromosome, one contig and automated finishing of microbial genomes is now a realistic and achievable task for many microbial laboratories. In this paper, we describe high quality sequence datasets which span three generations of sequencing technologies, containing six types of data from four NGS platforms and originating from a single microorganism, Clostridium autoethanogenum. The dataset reported here will be useful for the scientific community to evaluate upcoming NGS platforms, enabling comparison of existing and novel bioinformatics approaches and will encourage interest in the development of innovative experimental and computational methods for NGS data.
format Online
Article
Text
id pubmed-4409012
institution National Center for Biotechnology Information
language English
publishDate 2015
publisher Nature Publishing Group
record_format MEDLINE/PubMed
spelling pubmed-44090122015-05-14 Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies Utturkar, Sagar M Klingeman, Dawn M Bruno-Barcena, José M Chinn, Mari S Grunden, Amy M Köpke, Michael Brown, Steven D Sci Data Data Descriptor During the past decade, DNA sequencing output has been mostly dominated by the second generation sequencing platforms which are characterized by low cost, high throughput and shorter read lengths for example, Illumina. The emergence and development of so called third generation sequencing platforms such as PacBio has permitted exceptionally long reads (over 20 kb) to be generated. Due to read length increases, algorithm improvements and hybrid assembly approaches, the concept of one chromosome, one contig and automated finishing of microbial genomes is now a realistic and achievable task for many microbial laboratories. In this paper, we describe high quality sequence datasets which span three generations of sequencing technologies, containing six types of data from four NGS platforms and originating from a single microorganism, Clostridium autoethanogenum. The dataset reported here will be useful for the scientific community to evaluate upcoming NGS platforms, enabling comparison of existing and novel bioinformatics approaches and will encourage interest in the development of innovative experimental and computational methods for NGS data. Nature Publishing Group 2015-04-14 /pmc/articles/PMC4409012/ /pubmed/25977818 http://dx.doi.org/10.1038/sdata.2015.14 Text en Copyright © 2015, Macmillan Publishers Limited http://creativecommons.org/licenses/by-nc/4.0/ This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc/4.0/ Metadata associated with this Data Descriptor is available at http://www.nature.com/sdata/ and is released under the CC0 waiver to maximize reuse.
spellingShingle Data Descriptor
Utturkar, Sagar M
Klingeman, Dawn M
Bruno-Barcena, José M
Chinn, Mari S
Grunden, Amy M
Köpke, Michael
Brown, Steven D
Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title_full Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title_fullStr Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title_full_unstemmed Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title_short Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies
title_sort sequence data for clostridium autoethanogenum using three generations of sequencing technologies
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4409012/
https://www.ncbi.nlm.nih.gov/pubmed/25977818
http://dx.doi.org/10.1038/sdata.2015.14
work_keys_str_mv AT utturkarsagarm sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT klingemandawnm sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT brunobarcenajosem sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT chinnmaris sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT grundenamym sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT kopkemichael sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies
AT brownstevend sequencedataforclostridiumautoethanogenumusingthreegenerationsofsequencingtechnologies