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Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil

Nitrosospira briensis C-128 is an ammonia-oxidizing bacterium isolated from an acid agricultural soil. N. briensis C-128 was sequenced with PacBio RS technologies at the DOE-Joint Genome Institute through their Community Science Program (2010). The high-quality finished genome contains one chromosom...

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Autores principales: Rice, Marlen C., Norton, Jeanette M., Valois, Frederica, Bollmann, Annette, Bottomley, Peter J., Klotz, Martin G., Laanbroek, Hendrikus J., Suwa, Yuichi, Stein, Lisa Y., Sayavedra-Soto, Luis, Woyke, Tanja, Shapiro, Nicole, Goodwin, Lynne A., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Kyrpides, Nikos, Varghese, Neha, Mikhailova, Natalia, Markowitz, Victor, Palaniappan, Krishna, Ivanova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4964001/
https://www.ncbi.nlm.nih.gov/pubmed/27471578
http://dx.doi.org/10.1186/s40793-016-0168-4
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author Rice, Marlen C.
Norton, Jeanette M.
Valois, Frederica
Bollmann, Annette
Bottomley, Peter J.
Klotz, Martin G.
Laanbroek, Hendrikus J.
Suwa, Yuichi
Stein, Lisa Y.
Sayavedra-Soto, Luis
Woyke, Tanja
Shapiro, Nicole
Goodwin, Lynne A.
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Kyrpides, Nikos
Varghese, Neha
Mikhailova, Natalia
Markowitz, Victor
Palaniappan, Krishna
Ivanova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
author_facet Rice, Marlen C.
Norton, Jeanette M.
Valois, Frederica
Bollmann, Annette
Bottomley, Peter J.
Klotz, Martin G.
Laanbroek, Hendrikus J.
Suwa, Yuichi
Stein, Lisa Y.
Sayavedra-Soto, Luis
Woyke, Tanja
Shapiro, Nicole
Goodwin, Lynne A.
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Kyrpides, Nikos
Varghese, Neha
Mikhailova, Natalia
Markowitz, Victor
Palaniappan, Krishna
Ivanova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
author_sort Rice, Marlen C.
collection PubMed
description Nitrosospira briensis C-128 is an ammonia-oxidizing bacterium isolated from an acid agricultural soil. N. briensis C-128 was sequenced with PacBio RS technologies at the DOE-Joint Genome Institute through their Community Science Program (2010). The high-quality finished genome contains one chromosome of 3.21 Mb and no plasmids. We identified 3073 gene models, 3018 of which are protein coding. The two-way average nucleotide identity between the chromosomes of Nitrosospira multiformis ATCC 25196 and Nitrosospira briensis C-128 was found to be 77.2 %. Multiple copies of modules encoding chemolithotrophic metabolism were identified in their genomic context. The gene inventory supports chemolithotrophic metabolism with implications for function in soil environments.
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spelling pubmed-49640012016-07-29 Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil Rice, Marlen C. Norton, Jeanette M. Valois, Frederica Bollmann, Annette Bottomley, Peter J. Klotz, Martin G. Laanbroek, Hendrikus J. Suwa, Yuichi Stein, Lisa Y. Sayavedra-Soto, Luis Woyke, Tanja Shapiro, Nicole Goodwin, Lynne A. Huntemann, Marcel Clum, Alicia Pillay, Manoj Kyrpides, Nikos Varghese, Neha Mikhailova, Natalia Markowitz, Victor Palaniappan, Krishna Ivanova, Natalia Stamatis, Dimitrios Reddy, T. B. K. Ngan, Chew Yee Daum, Chris Stand Genomic Sci Short Genome Report Nitrosospira briensis C-128 is an ammonia-oxidizing bacterium isolated from an acid agricultural soil. N. briensis C-128 was sequenced with PacBio RS technologies at the DOE-Joint Genome Institute through their Community Science Program (2010). The high-quality finished genome contains one chromosome of 3.21 Mb and no plasmids. We identified 3073 gene models, 3018 of which are protein coding. The two-way average nucleotide identity between the chromosomes of Nitrosospira multiformis ATCC 25196 and Nitrosospira briensis C-128 was found to be 77.2 %. Multiple copies of modules encoding chemolithotrophic metabolism were identified in their genomic context. The gene inventory supports chemolithotrophic metabolism with implications for function in soil environments. BioMed Central 2016-07-28 /pmc/articles/PMC4964001/ /pubmed/27471578 http://dx.doi.org/10.1186/s40793-016-0168-4 Text en © The Author(s). 2016 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. 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
Rice, Marlen C.
Norton, Jeanette M.
Valois, Frederica
Bollmann, Annette
Bottomley, Peter J.
Klotz, Martin G.
Laanbroek, Hendrikus J.
Suwa, Yuichi
Stein, Lisa Y.
Sayavedra-Soto, Luis
Woyke, Tanja
Shapiro, Nicole
Goodwin, Lynne A.
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Kyrpides, Nikos
Varghese, Neha
Mikhailova, Natalia
Markowitz, Victor
Palaniappan, Krishna
Ivanova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title_full Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title_fullStr Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title_full_unstemmed Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title_short Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil
title_sort complete genome of nitrosospira briensis c-128, an ammonia-oxidizing bacterium from agricultural soil
topic Short Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4964001/
https://www.ncbi.nlm.nih.gov/pubmed/27471578
http://dx.doi.org/10.1186/s40793-016-0168-4
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