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Title: Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7

Abstract

Here, we and others have shown the utility of long sequence reads to improve genome assembly quality. In this study, we generated PacBio DNA sequence data to improve the assemblies of draft genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7.

Authors:
 [1];  [2];  [3];  [3];  [4];  [4];  [5]; ORCiD logo [4];  [6];  [7];  [7];  [7];  [7];  [7];  [7];  [7];  [7];  [7];  [7];  [7] more »;  [7];  [7];  [7];  [7];  [8] « less
  1. Univ. of Tennessee, Knoxville, TN (United States)
  2. The Weismann Institute of Science, Rehovot (Israel)
  3. Tel-Aviv Univ., Ramat Aviv (Israel)
  4. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  5. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); BioEnergy Science Center, Oak Ridge, TN (United States)
  6. Univ. of Oklahoma, Norman, OK (United States)
  7. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  8. Univ. of Tennessee, Knoxville, TN (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); BioEnergy Science Center, Oak Ridge, TN (United States)
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). BioEnergy Science Center (BESC); 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:
1327678
Alternate Identifier(s):
OSTI ID: 1378997
Grant/Contract Number:
AC05-00OR22725; AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Genome Announcements
Additional Journal Information:
Journal Volume: 4; Journal Issue: 5; Journal ID: ISSN 2169-8287
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Utturkar, Sagar M., Bayer, Edward A., Borovok, Ilya, Lamed, Raphael, Hurt, Richard A., Land, Miriam L., Klingeman, Dawn M., Elias, Dwayne, Zhou, Jizhong, 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, Kyrpides, Nikos, Woyke, Tanja, and Brown, Steven D. Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7. United States: N. p., 2016. Web. doi:10.1128/genomeA.01043-16.
Utturkar, Sagar M., Bayer, Edward A., Borovok, Ilya, Lamed, Raphael, Hurt, Richard A., Land, Miriam L., Klingeman, Dawn M., Elias, Dwayne, Zhou, Jizhong, 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, Kyrpides, Nikos, Woyke, Tanja, & Brown, Steven D. Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7. United States. doi:10.1128/genomeA.01043-16.
Utturkar, Sagar M., Bayer, Edward A., Borovok, Ilya, Lamed, Raphael, Hurt, Richard A., Land, Miriam L., Klingeman, Dawn M., Elias, Dwayne, Zhou, Jizhong, 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, Kyrpides, Nikos, Woyke, Tanja, and Brown, Steven D. Thu . "Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7". United States. doi:10.1128/genomeA.01043-16. https://www.osti.gov/servlets/purl/1327678.
@article{osti_1327678,
title = {Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7},
author = {Utturkar, Sagar M. and Bayer, Edward A. and Borovok, Ilya and Lamed, Raphael and Hurt, Richard A. and Land, Miriam L. and Klingeman, Dawn M. and Elias, Dwayne and Zhou, Jizhong 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 Ngan, Chew Yee and Daum, Chris and Shapiro, Nicole and Markowitz, Victor and Ivanova, Natalia and Kyrpides, Nikos and Woyke, Tanja and Brown, Steven D.},
abstractNote = {Here, we and others have shown the utility of long sequence reads to improve genome assembly quality. In this study, we generated PacBio DNA sequence data to improve the assemblies of draft genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7.},
doi = {10.1128/genomeA.01043-16},
journal = {Genome Announcements},
number = 5,
volume = 4,
place = {United States},
year = {Thu Sep 29 00:00:00 EDT 2016},
month = {Thu Sep 29 00:00:00 EDT 2016}
}

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