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High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway

Thermus amyloliquefaciens type strain YIM 77409(T) is a thermophilic, Gram-negative, non-motile and rod-shaped bacterium isolated from Niujie Hot Spring in Eryuan County, Yunnan Province, southwest China. In the present study we describe the features of strain YIM 77409(T) together with its genome s...

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Autores principales: Zhou, En-Min, Murugapiran, Senthil K., Mefferd, Chrisabelle C., Liu, Lan, Xian, Wen-Dong, Yin, Yi-Rui, Ming, Hong, Yu, Tian-Tian, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Spunde, Alexander, Kyrpides, Nikos, Woyke, Tanja, Li, Wen-Jun, Hedlund, Brian P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4769583/
https://www.ncbi.nlm.nih.gov/pubmed/26925197
http://dx.doi.org/10.1186/s40793-016-0140-3
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author Zhou, En-Min
Murugapiran, Senthil K.
Mefferd, Chrisabelle C.
Liu, Lan
Xian, Wen-Dong
Yin, Yi-Rui
Ming, Hong
Yu, Tian-Tian
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Palaniappan, Krishnaveni
Varghese, Neha
Mikhailova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
Shapiro, Nicole
Markowitz, Victor
Ivanova, Natalia
Spunde, Alexander
Kyrpides, Nikos
Woyke, Tanja
Li, Wen-Jun
Hedlund, Brian P.
author_facet Zhou, En-Min
Murugapiran, Senthil K.
Mefferd, Chrisabelle C.
Liu, Lan
Xian, Wen-Dong
Yin, Yi-Rui
Ming, Hong
Yu, Tian-Tian
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Palaniappan, Krishnaveni
Varghese, Neha
Mikhailova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
Shapiro, Nicole
Markowitz, Victor
Ivanova, Natalia
Spunde, Alexander
Kyrpides, Nikos
Woyke, Tanja
Li, Wen-Jun
Hedlund, Brian P.
author_sort Zhou, En-Min
collection PubMed
description Thermus amyloliquefaciens type strain YIM 77409(T) is a thermophilic, Gram-negative, non-motile and rod-shaped bacterium isolated from Niujie Hot Spring in Eryuan County, Yunnan Province, southwest China. In the present study we describe the features of strain YIM 77409(T) together with its genome sequence and annotation. The genome is 2,160,855 bp long and consists of 6 scaffolds with 67.4 % average GC content. A total of 2,313 genes were predicted, comprising 2,257 protein-coding and 56 RNA genes. The genome is predicted to encode a complete glycolysis, pentose phosphate pathway, and tricarboxylic acid cycle. Additionally, a large number of transporters and enzymes for heterotrophy highlight the broad heterotrophic lifestyle of this organism. A denitrification gene cluster included genes predicted to encode enzymes for the sequential reduction of nitrate to nitrous oxide, consistent with the incomplete denitrification phenotype of this strain.
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spelling pubmed-47695832016-02-28 High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway Zhou, En-Min Murugapiran, Senthil K. Mefferd, Chrisabelle C. Liu, Lan Xian, Wen-Dong Yin, Yi-Rui Ming, Hong Yu, Tian-Tian Huntemann, Marcel Clum, Alicia Pillay, Manoj Palaniappan, Krishnaveni Varghese, Neha Mikhailova, Natalia Stamatis, Dimitrios Reddy, T. B. K. Ngan, Chew Yee Daum, Chris Shapiro, Nicole Markowitz, Victor Ivanova, Natalia Spunde, Alexander Kyrpides, Nikos Woyke, Tanja Li, Wen-Jun Hedlund, Brian P. Stand Genomic Sci Short Genome Report Thermus amyloliquefaciens type strain YIM 77409(T) is a thermophilic, Gram-negative, non-motile and rod-shaped bacterium isolated from Niujie Hot Spring in Eryuan County, Yunnan Province, southwest China. In the present study we describe the features of strain YIM 77409(T) together with its genome sequence and annotation. The genome is 2,160,855 bp long and consists of 6 scaffolds with 67.4 % average GC content. A total of 2,313 genes were predicted, comprising 2,257 protein-coding and 56 RNA genes. The genome is predicted to encode a complete glycolysis, pentose phosphate pathway, and tricarboxylic acid cycle. Additionally, a large number of transporters and enzymes for heterotrophy highlight the broad heterotrophic lifestyle of this organism. A denitrification gene cluster included genes predicted to encode enzymes for the sequential reduction of nitrate to nitrous oxide, consistent with the incomplete denitrification phenotype of this strain. BioMed Central 2016-02-27 /pmc/articles/PMC4769583/ /pubmed/26925197 http://dx.doi.org/10.1186/s40793-016-0140-3 Text en © Zhou et al. 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
Zhou, En-Min
Murugapiran, Senthil K.
Mefferd, Chrisabelle C.
Liu, Lan
Xian, Wen-Dong
Yin, Yi-Rui
Ming, Hong
Yu, Tian-Tian
Huntemann, Marcel
Clum, Alicia
Pillay, Manoj
Palaniappan, Krishnaveni
Varghese, Neha
Mikhailova, Natalia
Stamatis, Dimitrios
Reddy, T. B. K.
Ngan, Chew Yee
Daum, Chris
Shapiro, Nicole
Markowitz, Victor
Ivanova, Natalia
Spunde, Alexander
Kyrpides, Nikos
Woyke, Tanja
Li, Wen-Jun
Hedlund, Brian P.
High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title_full High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title_fullStr High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title_full_unstemmed High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title_short High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway
title_sort high-quality draft genome sequence of the thermus amyloliquefaciens type strain yim 77409(t) with an incomplete denitrification pathway
topic Short Genome Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4769583/
https://www.ncbi.nlm.nih.gov/pubmed/26925197
http://dx.doi.org/10.1186/s40793-016-0140-3
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