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

Sagar M. Utturkar; Edward A. Bayer; Ilya Borovok; Raphael Lamed; Richard A. Hurt; Miriam L. Land; Dawn M. Klingeman; Dwayne Elias; Jizhong Zhou; Marcel Huntemann; Alicia Clum; Manoj Pillay; Krishnaveni Palaniappan; Neha Varghese; Natalia Mikhailova; Dimitrios Stamatis; T. B.K. Reddy; Chew Yee Ngan; Chris Daum; Nicole Shapiro; Victor Markowitz; Natalia Ivanova; Nikos Kyrpides; Tanja Woyke; Steven D. Brown

doi:10.1128/genomeA.01043-16

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

Sagar M. Utturkar
, Edward A. Bayer
, Ilya Borovok
, Raphael Lamed
, Richard A. Hurt
, Miriam L. Land
, Dawn M. Klingeman
, Dwayne Elias
, Jizhong Zhou
, Marcel Huntemann
, Alicia Clum
, Manoj Pillay
, Krishnaveni Palaniappan
, Neha Varghese
, Natalia Mikhailova
, Dimitrios Stamatis
, T. B.K. Reddy
, Chew Yee Ngan
, Chris Daum
, Nicole Shapiro

Victor Markowitz, Natalia Ivanova, Nikos Kyrpides, Tanja Woyke, Steven D. Brown

Biological Systems Design Group

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Abstract

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.

Original language	English
Article number	e01043-16
Journal	Genome Announcements
Volume	4
Issue number	5
DOIs	https://doi.org/10.1128/genomeA.01043-16
State	Published - 2016

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Utturkar, S. M., Bayer, E. A., Borovok, I., Lamed, R., Hurt, R. A., Land, M. L., Klingeman, D. M., Elias, D., Zhou, J., Huntemann, M., Clum, A., Pillay, M., Palaniappan, K., Varghese, N., Mikhailova, N., Stamatis, D., Reddy, T. B. K., Ngan, C. Y., Daum, C., ... Brown, S. D. (2016). Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7. Genome Announcements, 4(5), Article e01043-16. https://doi.org/10.1128/genomeA.01043-16

@article{a2f29bdd9e4a426a975617de9d9a72bc,

title = "Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7",

abstract = "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.",

author = "Utturkar, \{Sagar M.\} and Bayer, \{Edward A.\} and Ilya Borovok and Raphael Lamed and Hurt, \{Richard A.\} and Land, \{Miriam L.\} and Klingeman, \{Dawn M.\} and Dwayne Elias and Jizhong Zhou and Marcel Huntemann and Alicia Clum and Manoj Pillay and Krishnaveni Palaniappan and Neha Varghese and Natalia Mikhailova and Dimitrios Stamatis and Reddy, \{T. B.K.\} and Ngan, \{Chew Yee\} and Chris Daum and Nicole Shapiro and Victor Markowitz and Natalia Ivanova and Nikos Kyrpides and Tanja Woyke and Brown, \{Steven D.\}",

note = "Publisher Copyright: {\textcopyright} 2016 Utturkar et al.",

year = "2016",

doi = "10.1128/genomeA.01043-16",

language = "English",

volume = "4",

journal = "Genome Announcements",

issn = "2169-8287",

number = "5",

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Utturkar, SM, Bayer, EA, Borovok, I, Lamed, R, Hurt, RA, Land, ML, Klingeman, DM, Elias, D, Zhou, J, Huntemann, M, Clum, A, Pillay, M, Palaniappan, K, Varghese, N, Mikhailova, N, Stamatis, D, Reddy, TBK, Ngan, CY, Daum, C, Shapiro, N, Markowitz, V, Ivanova, N, Kyrpides, N, Woyke, T & Brown, SD 2016, 'Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7', Genome Announcements, vol. 4, no. 5, e01043-16. https://doi.org/10.1128/genomeA.01043-16

TY - JOUR

T1 - Application of long sequence reads to improve genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7

AU - Utturkar, Sagar M.

AU - Bayer, Edward A.

AU - Borovok, Ilya

AU - Lamed, Raphael

AU - Hurt, Richard A.

AU - Land, Miriam L.

AU - Klingeman, Dawn M.

AU - Elias, Dwayne

AU - Zhou, Jizhong

AU - Huntemann, Marcel

AU - Clum, Alicia

AU - Pillay, Manoj

AU - Palaniappan, Krishnaveni

AU - Varghese, Neha

AU - Mikhailova, Natalia

AU - Stamatis, Dimitrios

AU - Reddy, T. B.K.

AU - Ngan, Chew Yee

AU - Daum, Chris

AU - Shapiro, Nicole

AU - Markowitz, Victor

AU - Ivanova, Natalia

AU - Kyrpides, Nikos

AU - Woyke, Tanja

AU - Brown, Steven D.

PY - 2016

Y1 - 2016

N2 - 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.

AB - 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.

UR - https://www.scopus.com/pages/publications/85010469662

U2 - 10.1128/genomeA.01043-16

DO - 10.1128/genomeA.01043-16

M3 - Article

AN - SCOPUS:85010469662

SN - 2169-8287

VL - 4

JO - Genome Announcements

JF - Genome Announcements

IS - 5

M1 - e01043-16

ER -

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

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