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Title: High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698)

Abstract

Anaerobium acetethylicum strain GluBS11 T belongs to the family Lachnospiraceae within the order Clostridiales. It is a Gram-positive, non-motile and strictly anaerobic bacterium isolated from biogas slurry that was originally enriched with gluconate as carbon source (Patil, et al., Int J Syst Evol Microbiol 65:3289-3296, 2015). Here we describe the draft genome sequence of strain GluBS11 T and provide a detailed insight into its physiological and metabolic features. The draft genome sequence generated 4,609,043 bp, distributed among 105 scaffolds assembled using the SPAdes genome assembler method. It comprises in total 4,132 genes, of which 4,008 were predicted to be protein coding genes, 124 RNA genes and 867 pseudogenes. The content was 43.51 mol %. The annotated genome of strain GluBS11 T contains putative genes coding for the pentose phosphate pathway, the Embden-Meyerhoff-Parnas pathway, the Entner-Doudoroff pathway and the tricarboxylic acid cycle. The genome revealed the presence of most of the necessary genes required for the fermentation of glucose and gluconate to acetate, ethanol, and hydrogen gas. However, a candidate gene for production of formate was not identified.

Authors:
 [1];  [1];  [1];  [2];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [3];  [4]
+ Show Author Affiliations
  1. Univ. of Konstanz (Germany). Dept. of Biology, Microbial Ecology
  2. Univ. of Georgia, Athens, GA (United States). Dept. of Microbiology
  3. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  4. Univ. of Konstanz (Germany). Dept. of Biology, Microbial Ecology, Konstanz Reserch School of Chemical Biology
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1379739
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 12; Journal Issue: 1; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; anaerobic; gluconate; glycerol; microcompartments; lachnospiraceae; firmicutes; gram-staining positive; embden-meyerhoff-parnas pathway; entner-doudoroff pathway; ferredoxin; transporters

Citation Formats

Patil, Yogita, Müller, Nicolai, Schink, Bernhard, Whitman, William B., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Daum, Chris, Shapiro, Nicole, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, and Junghare, Madan. High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698). United States: N. p., 2017. Web. doi:10.1186/s40793-017-0236-4.
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Patil, Yogita, Müller, Nicolai, Schink, Bernhard, Whitman, William B., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Daum, Chris, Shapiro, Nicole, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, & Junghare, Madan. High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698). United States. https://doi.org/10.1186/s40793-017-0236-4
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Patil, Yogita, Müller, Nicolai, Schink, Bernhard, Whitman, William B., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Daum, Chris, Shapiro, Nicole, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, and Junghare, Madan. Mon . "High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698)". United States. https://doi.org/10.1186/s40793-017-0236-4. https://www.osti.gov/servlets/purl/1379739.
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@article{osti_1379739,
title = {High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698)},
author = {Patil, Yogita and Müller, Nicolai and Schink, Bernhard and Whitman, William B. and Huntemann, Marcel and Clum, Alicia and Pillay, Manoj and Palaniappan, Krishnaveni and Varghese, Neha and Mikhailova, Natalia and Stamatis, Dimitrios and Reddy, T. B. K. and Daum, Chris and Shapiro, Nicole and Ivanova, Natalia and Kyrpides, Nikos and Woyke, Tanja and Junghare, Madan},
abstractNote = {Anaerobium acetethylicum strain GluBS11 T belongs to the family Lachnospiraceae within the order Clostridiales. It is a Gram-positive, non-motile and strictly anaerobic bacterium isolated from biogas slurry that was originally enriched with gluconate as carbon source (Patil, et al., Int J Syst Evol Microbiol 65:3289-3296, 2015). Here we describe the draft genome sequence of strain GluBS11 T and provide a detailed insight into its physiological and metabolic features. The draft genome sequence generated 4,609,043 bp, distributed among 105 scaffolds assembled using the SPAdes genome assembler method. It comprises in total 4,132 genes, of which 4,008 were predicted to be protein coding genes, 124 RNA genes and 867 pseudogenes. The content was 43.51 mol %. The annotated genome of strain GluBS11 T contains putative genes coding for the pentose phosphate pathway, the Embden-Meyerhoff-Parnas pathway, the Entner-Doudoroff pathway and the tricarboxylic acid cycle. The genome revealed the presence of most of the necessary genes required for the fermentation of glucose and gluconate to acetate, ethanol, and hydrogen gas. However, a candidate gene for production of formate was not identified.},
doi = {10.1186/s40793-017-0236-4},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 12,
place = {United States},
year = {Mon Feb 20 00:00:00 EST 2017},
month = {Mon Feb 20 00:00:00 EST 2017}
}
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Publisher's Version of Record
https://doi.org/10.1186/s40793-017-0236-4
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Figures / Tables:

Fig. 1 Fig. 1: Transmission electron micrograph of A. acetethylicum strain GluBS11T cells grown with gluconate. a Ultrathin trans-section of cell; b details of the Gram-positive membrane structure (white arrows)
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