Genome sequence of Coxiella burnetii strain Namibia

We present the whole genome sequence and annotation of the Coxiella burnetii strain Namibia. This strain was isolated from an aborting goat in 1991 in Windhoek, Namibia. The plasmid type QpRS was confirmed in our work. Further genomic typing placed the strain into a unique genomic group. The genome...

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Autores principales: Walter, Mathias C, Öhrman, Caroline, Myrtennäs, Kerstin, Sjödin, Andreas, Byström, Mona, Larsson, Pär, Macellaro, Anna, Forsman, Mats, Frangoulidis, Dimitrios
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2014
Materias:
Short Genome Report
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4286197/
https://www.ncbi.nlm.nih.gov/pubmed/25593636
http://dx.doi.org/10.1186/1944-3277-9-22
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author Walter, Mathias C
Öhrman, Caroline
Myrtennäs, Kerstin
Sjödin, Andreas
Byström, Mona
Larsson, Pär
Macellaro, Anna
Forsman, Mats
Frangoulidis, Dimitrios
author_facet Walter, Mathias C
Öhrman, Caroline
Myrtennäs, Kerstin
Sjödin, Andreas
Byström, Mona
Larsson, Pär
Macellaro, Anna
Forsman, Mats
Frangoulidis, Dimitrios
author_sort Walter, Mathias C
collection PubMed
description We present the whole genome sequence and annotation of the Coxiella burnetii strain Namibia. This strain was isolated from an aborting goat in 1991 in Windhoek, Namibia. The plasmid type QpRS was confirmed in our work. Further genomic typing placed the strain into a unique genomic group. The genome sequence is 2,101,438 bp long and contains 1,979 protein-coding and 51 RNA genes, including one rRNA operon. To overcome the poor yield from cell culture systems, an additional DNA enrichment with whole genome amplification (WGA) methods was applied. We describe a bioinformatics pipeline for improved genome assembly including several filters with a special focus on WGA characteristics.
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spelling pubmed-42861972015-01-15 Genome sequence of Coxiella burnetii strain Namibia Walter, Mathias C Öhrman, Caroline Myrtennäs, Kerstin Sjödin, Andreas Byström, Mona Larsson, Pär Macellaro, Anna Forsman, Mats Frangoulidis, Dimitrios Stand Genomic Sci Short Genome Report We present the whole genome sequence and annotation of the Coxiella burnetii strain Namibia. This strain was isolated from an aborting goat in 1991 in Windhoek, Namibia. The plasmid type QpRS was confirmed in our work. Further genomic typing placed the strain into a unique genomic group. The genome sequence is 2,101,438 bp long and contains 1,979 protein-coding and 51 RNA genes, including one rRNA operon. To overcome the poor yield from cell culture systems, an additional DNA enrichment with whole genome amplification (WGA) methods was applied. We describe a bioinformatics pipeline for improved genome assembly including several filters with a special focus on WGA characteristics. BioMed Central 2014-12-29 /pmc/articles/PMC4286197/ /pubmed/25593636 http://dx.doi.org/10.1186/1944-3277-9-22 Text en Copyright © 2014 Walter et al.; licensee BioMed Central. 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 use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Short Genome Report
Walter, Mathias C
Öhrman, Caroline
Myrtennäs, Kerstin
Sjödin, Andreas
Byström, Mona
Larsson, Pär
Macellaro, Anna
Forsman, Mats
Frangoulidis, Dimitrios
Genome sequence of Coxiella burnetii strain Namibia
title Genome sequence of Coxiella burnetii strain Namibia
title_full Genome sequence of Coxiella burnetii strain Namibia
title_fullStr Genome sequence of Coxiella burnetii strain Namibia
title_full_unstemmed Genome sequence of Coxiella burnetii strain Namibia
title_short Genome sequence of Coxiella burnetii strain Namibia
title_sort genome sequence of coxiella burnetii strain namibia
topic Short Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4286197/
https://www.ncbi.nlm.nih.gov/pubmed/25593636
http://dx.doi.org/10.1186/1944-3277-9-22
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