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Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan / Hassani-Pak, Keywan


CiteScore 2018: 0.90

SCImago Journal Rank (SJR) 2018: 0.315

Open Access
Online
ISSN
1613-4516
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Volume 10, Issue 3

Issues

Re-annotation of the genome sequence of Helicobacter pylori 26695

Tiago Resende
  • IBB – Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Portugal
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Daniela M. Correia
  • IBB – Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Portugal
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Miguel Rocha / Isabel Rocha
  • Corresponding author
  • IBB – Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Portugal
  • Email
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2013-233

Summary

Helicobacter pylori is a pathogenic bacterium that colonizes the human epithelia, causing duodenal and gastric ulcers, and gastric cancer. The genome of H. pylori 26695 has been previously sequenced and annotated. In addition, two genome-scale metabolic models have been developed. In order to maintain accurate and relevant information on coding sequences (CDS) and to retrieve new information, the assignment of new functions to Helicobacter pylori 26695s genes was performed in this work. The use of software tools, on-line databases and an annotation pipeline for inspecting each gene allowed the attribution of validated EC numbers and TC numbers to metabolic genes encoding enzymes and transport proteins, respectively. 1212 genes encoding proteins were identified in this annotation, being 712 metabolic genes and 500 non-metabolic, while 191 new functions were assignment to the CDS of this bacterium. This information provides relevant biological information for the scientific community dealing with this organism and can be used as the basis for a new metabolic model reconstruction.

About the article

Published Online: 2016-10-18

Published in Print: 2013-12-01


Citation Information: Journal of Integrative Bioinformatics, Volume 10, Issue 3, Pages 66–78, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2013-233.

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© 2013 The Author(s). Published by Journal of Integrative Bioinformatics.. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

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