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Title: An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1 T

Abstract

Despite their ubiquity and their involvement in food spoilage, the genus Carnobacterium remains rather sparsely characterized at the genome level. Carnobacterium inhibens K1 T is a member of the Carnobacteriaceae family within the class Bacilli. This strain is a Gram-positive, rod-shaped bacterium isolated from the intestine of an Atlantic salmon. The present study determined the genome sequence and annotation of Carnobacterium inhibens K1 T. The genome comprised 2,748,608 bp with a G+C content of 34.85 %, which included 2621 protein-coding genes and 116 RNA genes. The strain contained five contigs corresponding to presumptive plasmids of sizes: 19,036; 24,250; 26,581; 65,272; and 65,904 bp.

Authors:
 [1];  [1];  [2];  [2];  [2];  [2];  [2];  [3];  [2];  [2];  [2];  [4];  [2]
  1. Univ. of Florida, Merritt Island, FL (United States). Inst. of Food and Agricultural Sciences
  2. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  3. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Biological Data Management and Technology Center
  4. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); King Abdulaziz Univ., Jeddah (Saudi Arabia)
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:
1377481
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
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

Citation Formats

Nicholson, Wayne L., Davis, Christina L., Shapiro, Nicole, Huntemann, Marcel, Clum, Alicia, Reddy, T. B. K., Pillay, Manoj, Markowitz, Victor, Varghese, Neha, Pati, Amrita, Ivanova, Natalia, Kyrpides, Nikos, and Woyke, Tanja. An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1T. United States: N. p., 2016. Web. doi:10.1186/s40793-016-0193-3.
Nicholson, Wayne L., Davis, Christina L., Shapiro, Nicole, Huntemann, Marcel, Clum, Alicia, Reddy, T. B. K., Pillay, Manoj, Markowitz, Victor, Varghese, Neha, Pati, Amrita, Ivanova, Natalia, Kyrpides, Nikos, & Woyke, Tanja. An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1T. United States. doi:10.1186/s40793-016-0193-3.
Nicholson, Wayne L., Davis, Christina L., Shapiro, Nicole, Huntemann, Marcel, Clum, Alicia, Reddy, T. B. K., Pillay, Manoj, Markowitz, Victor, Varghese, Neha, Pati, Amrita, Ivanova, Natalia, Kyrpides, Nikos, and Woyke, Tanja. Thu . "An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1T". United States. doi:10.1186/s40793-016-0193-3. https://www.osti.gov/servlets/purl/1377481.
@article{osti_1377481,
title = {An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1T},
author = {Nicholson, Wayne L. and Davis, Christina L. and Shapiro, Nicole and Huntemann, Marcel and Clum, Alicia and Reddy, T. B. K. and Pillay, Manoj and Markowitz, Victor and Varghese, Neha and Pati, Amrita and Ivanova, Natalia and Kyrpides, Nikos and Woyke, Tanja},
abstractNote = {Despite their ubiquity and their involvement in food spoilage, the genus Carnobacterium remains rather sparsely characterized at the genome level. Carnobacterium inhibens K1T is a member of the Carnobacteriaceae family within the class Bacilli. This strain is a Gram-positive, rod-shaped bacterium isolated from the intestine of an Atlantic salmon. The present study determined the genome sequence and annotation of Carnobacterium inhibens K1T. The genome comprised 2,748,608 bp with a G+C content of 34.85 %, which included 2621 protein-coding genes and 116 RNA genes. The strain contained five contigs corresponding to presumptive plasmids of sizes: 19,036; 24,250; 26,581; 65,272; and 65,904 bp.},
doi = {10.1186/s40793-016-0193-3},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 11,
place = {United States},
year = {2016},
month = {9}
}

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Works referenced in this record:

Real-Time DNA Sequencing from Single Polymerase Molecules
journal, January 2009


Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
journal, September 1997

  • Altschul, Stephen F.; Madden, Thomas L.; Schäffer, Alejandro A.
  • Nucleic Acids Research, Vol. 25, Issue 17, p. 3389-3402
  • DOI: 10.1093/nar/25.17.3389