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Title: Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2T

Abstract

© 2015 Berben et al. Thioalkalivibrio thiocyanoxidans strain ARh 2 T is a sulfur-oxidizing bacterium isolated from haloalkaline soda lakes. It is a motile, Gram-negative member of the Gammaproteobacteria. Remarkable properties include the ability to grow on thiocyanate as the sole energy, sulfur and nitrogen source, and the capability of growth at salinities of up to 4.3 M total Na + . This draft genome sequence consists of 61 scaffolds comprising 2,765,337 bp, and contains 2616 protein-coding and 61 RNA-coding genes. This organism was sequenced as part of the Community Science Program of the DOE Joint Genome Institute.

Authors:
 [1];  [2];  [3];  [3];  [3];  [3];  [3]; ORCiD logo [1]
  1. Univ. of Amsterdam, Amsterdam (The Netherlands)
  2. Winogradsky Institute of Microbiology, RAS, Moscow (Russia); Delft Univ. of Technology, Delft (The Netherlands)
  3. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1323183
Alternate Identifier(s):
OSTI ID: 1378605
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 10; Journal Issue: 1; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; haloalkaliphilic; Soda lakes; sulfur-oxidizing bacteria; Thiocyanate; sp-nov

Citation Formats

Berben, Tom, Sorokin, Dimitry Y., Ivanova, Natalia, Pati, Amrita, Kyrpides, Nikos, Goodwin, Lynne A., Woyke, Tanja, and Muyzer, Gerard. Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2T. United States: N. p., 2015. Web. doi:10.1186/s40793-015-0078-x.
Berben, Tom, Sorokin, Dimitry Y., Ivanova, Natalia, Pati, Amrita, Kyrpides, Nikos, Goodwin, Lynne A., Woyke, Tanja, & Muyzer, Gerard. Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2T. United States. https://doi.org/10.1186/s40793-015-0078-x
Berben, Tom, Sorokin, Dimitry Y., Ivanova, Natalia, Pati, Amrita, Kyrpides, Nikos, Goodwin, Lynne A., Woyke, Tanja, and Muyzer, Gerard. 2015. "Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2T". United States. https://doi.org/10.1186/s40793-015-0078-x. https://www.osti.gov/servlets/purl/1323183.
@article{osti_1323183,
title = {Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2T},
author = {Berben, Tom and Sorokin, Dimitry Y. and Ivanova, Natalia and Pati, Amrita and Kyrpides, Nikos and Goodwin, Lynne A. and Woyke, Tanja and Muyzer, Gerard},
abstractNote = {© 2015 Berben et al. Thioalkalivibrio thiocyanoxidans strain ARh 2 T is a sulfur-oxidizing bacterium isolated from haloalkaline soda lakes. It is a motile, Gram-negative member of the Gammaproteobacteria. Remarkable properties include the ability to grow on thiocyanate as the sole energy, sulfur and nitrogen source, and the capability of growth at salinities of up to 4.3 M total Na + . This draft genome sequence consists of 61 scaffolds comprising 2,765,337 bp, and contains 2616 protein-coding and 61 RNA-coding genes. This organism was sequenced as part of the Community Science Program of the DOE Joint Genome Institute.},
doi = {10.1186/s40793-015-0078-x},
url = {https://www.osti.gov/biblio/1323183}, journal = {Standards in Genomic Sciences},
issn = {1944-3277},
number = 1,
volume = 10,
place = {United States},
year = {Mon Oct 26 00:00:00 EDT 2015},
month = {Mon Oct 26 00:00:00 EDT 2015}
}

Journal Article:
Free Publicly Available Full Text
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Cited by: 3 works
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Works referenced in this record:

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journal, March 2002


Microbiological analysis of the population of extremely haloalkaliphilic sulfur-oxidizing bacteria dominating in lab-scale sulfide-removing bioreactors
journal, August 2008


Microbial diversity and biogeochemical cycling in soda lakes
journal, August 2014


The minimum information about a genome sequence (MIGS) specification
journal, May 2008


Dietary palmitic acid promotes a prometastatic memory via Schwann cells
journal, November 2021


Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
journal, June 1990


MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
journal, October 2013


tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
journal, March 1997


ARB: a software environment for sequence data
journal, February 2004


Thioalkalivibrio thiocyanoxidans sp. nov. and Thioalkalivibrio paradoxus sp. nov., novel alkaliphilic, obligately autotrophic, sulfur-oxidizing bacteria capable of growth on thiocyanate, from soda lakes.
journal, March 2002


Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
journal, February 2008


Prodigal: prokaryotic gene recognition and translation initiation site identification
journal, March 2010


The Microbial Sulfur Cycle at Extremely Haloalkaline Conditions of Soda Lakes
journal, January 2011