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Title: Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland

Abstract

Our report presents the permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, an obligate anaerobic hyperthermophilic crenarchaeon that was isolated from acidic hot springs in Hveravellir, Iceland. D. mobilis utilizes peptides as carbon and energy sources and reduces elemental sulfur to H 2S. A metabolic construction derived from the draft genome identified putative pathways for peptide degradation and sulfur respiration in this archaeon. Existence of several hydrogenase genes in the genome supported previous findings that H 2 is produced during the growth of D. mobilis in the absence of sulfur. Interestingly, genes encoding glucose transport and utilization systems also exist in the D. mobilis genome though this archaeon does not utilize carbohydrate for growth. The draft genome of D. mobilis provides an additional mean for comparative genomic analysis of desulfurococci. In addition, our analysis on the Average Nucleotide Identity between D. mobilis and Desulfurococcus mucosus suggested that these two desulfurococci are two different strains of the same species.

Authors:
 [1];  [2];  [3];  [4];  [4];  [5];  [4];  [5];  [4];  [6];  [7]
  1. Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States)
  2. Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States). Biocomplexity Institute
  3. St. Petersburg State Univ., St. Petersburg (Russia); St. Petersburg Academic University, St. Petersburg (Russia). Algorithmic Biology Lab.
  4. DOE Joint Genome Institute, Walnut Creek, CA (United States)
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  6. DOE Joint Genome Institute, Walnut Creek, CA (United States); King Abdulaziz Univ., Jeddah (Saudi Arabia)
  7. Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States); Virginia Polytechnic Inst. and State Univ. (Virginia Tech), Blacksburg, VA (United States). Dept. of Biological Sciences
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) (SC-23)
OSTI Identifier:
1256945
Alternate Identifier(s):
OSTI ID: 1379032
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 11; Journal Issue: 1; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Desulfurococcus; Sulfur-reducing crenarchaeon; Thermophile; Acidic hot spring

Citation Formats

Susanti, Dwi, Johnson, Eric F., Lapidus, Alla, Han, James, Reddy, T. B. K., Pilay, Manoj, Ivanova, Natalia N., Markowitz, Victor M., Woyke, Tanja, Kyrpides, Nikos C., and Mukhopadhyay, Biswarup. Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland. United States: N. p., 2016. Web. doi:10.1186/s40793-015-0128-4.
Susanti, Dwi, Johnson, Eric F., Lapidus, Alla, Han, James, Reddy, T. B. K., Pilay, Manoj, Ivanova, Natalia N., Markowitz, Victor M., Woyke, Tanja, Kyrpides, Nikos C., & Mukhopadhyay, Biswarup. Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland. United States. doi:10.1186/s40793-015-0128-4.
Susanti, Dwi, Johnson, Eric F., Lapidus, Alla, Han, James, Reddy, T. B. K., Pilay, Manoj, Ivanova, Natalia N., Markowitz, Victor M., Woyke, Tanja, Kyrpides, Nikos C., and Mukhopadhyay, Biswarup. Wed . "Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland". United States. doi:10.1186/s40793-015-0128-4. https://www.osti.gov/servlets/purl/1256945.
@article{osti_1256945,
title = {Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland},
author = {Susanti, Dwi and Johnson, Eric F. and Lapidus, Alla and Han, James and Reddy, T. B. K. and Pilay, Manoj and Ivanova, Natalia N. and Markowitz, Victor M. and Woyke, Tanja and Kyrpides, Nikos C. and Mukhopadhyay, Biswarup},
abstractNote = {Our report presents the permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, an obligate anaerobic hyperthermophilic crenarchaeon that was isolated from acidic hot springs in Hveravellir, Iceland. D. mobilis utilizes peptides as carbon and energy sources and reduces elemental sulfur to H2S. A metabolic construction derived from the draft genome identified putative pathways for peptide degradation and sulfur respiration in this archaeon. Existence of several hydrogenase genes in the genome supported previous findings that H2 is produced during the growth of D. mobilis in the absence of sulfur. Interestingly, genes encoding glucose transport and utilization systems also exist in the D. mobilis genome though this archaeon does not utilize carbohydrate for growth. The draft genome of D. mobilis provides an additional mean for comparative genomic analysis of desulfurococci. In addition, our analysis on the Average Nucleotide Identity between D. mobilis and Desulfurococcus mucosus suggested that these two desulfurococci are two different strains of the same species.},
doi = {10.1186/s40793-015-0128-4},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 11,
place = {United States},
year = {Wed Jan 13 00:00:00 EST 2016},
month = {Wed Jan 13 00:00:00 EST 2016}
}

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Works referenced in this record:

MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004

  • Edgar, R. C.
  • Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
  • DOI: 10.1093/nar/gkh340