Literature DB >> 23209256

Genome sequence of Afipia birgiae, a rare bacterium associated with Amoebae.

Isabelle Pagnier1, Olivier Croce, Catherine Robert, Didier Raoult, Bernard La Scola.   

Abstract

Afipia birgiae is an alphaproteobacterium from the family Bradyrhizobiaceae, growing in amoebae, and a potential human pathogen. We sequenced the genome of type strain 34632(T). It is composed of 5,325,467 bp and contains 5,160 protein-coding genes and 53 RNA genes, including 3 rRNA genes.

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Year:  2012        PMID： 23209256      PMCID： PMC3510551          DOI： 10.1128/JB.01918-12

Source DB:  PubMed          Journal:  J Bacteriol        ISSN： 0021-9193            Impact factor:   3.490


  15 in total

1.  ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.

Authors:  Dean Laslett; Bjorn Canback
Journal:  Nucleic Acids Res       Date:  2004-01-02       Impact factor: 16.971

2.  New Afipia and Bosea strains isolated from various water sources by amoebal co-culture.

Authors:  Vincent Thomas; Nicola Casson; Gilbert Greub
Journal:  Syst Appl Microbiol       Date:  2007-08-16       Impact factor: 4.022

3.  Opera: reconstructing optimal genomic scaffolds with high-throughput paired-end sequences.

Authors:  Song Gao; Wing-Kin Sung; Niranjan Nagarajan
Journal:  J Comput Biol       Date:  2011-09-19       Impact factor: 1.479

4.  Isolation of new fastidious alpha Proteobacteria and Afipia felis from hospital water supplies by direct plating and amoebal co-culture procedures.

Authors: 
Journal:  FEMS Microbiol Ecol       Date:  2000-12-01       Impact factor: 4.194

Review 5.  Amoebal pathogens as emerging causal agents of pneumonia.

Authors:  Frédéric Lamoth; Gilbert Greub
Journal:  FEMS Microbiol Rev       Date:  2009-12-17       Impact factor: 16.408

6.  Prodigal: prokaryotic gene recognition and translation initiation site identification.

Authors:  Doug Hyatt; Gwo-Liang Chen; Philip F Locascio; Miriam L Land; Frank W Larimer; Loren J Hauser
Journal:  BMC Bioinformatics       Date:  2010-03-08       Impact factor: 3.169

7.  Toward almost closed genomes with GapFiller.

Authors:  Marten Boetzer; Walter Pirovano
Journal:  Genome Biol       Date:  2012-06-25       Impact factor: 13.583

8.  The Pfam protein families database.

Authors:  Marco Punta; Penny C Coggill; Ruth Y Eberhardt; Jaina Mistry; John Tate; Chris Boursnell; Ningze Pang; Kristoffer Forslund; Goran Ceric; Jody Clements; Andreas Heger; Liisa Holm; Erik L L Sonnhammer; Sean R Eddy; Alex Bateman; Robert D Finn
Journal:  Nucleic Acids Res       Date:  2011-11-29       Impact factor: 16.971

9.  RNAmmer: consistent and rapid annotation of ribosomal RNA genes.

Authors:  Karin Lagesen; Peter Hallin; Einar Andreas Rødland; Hans-Henrik Staerfeldt; Torbjørn Rognes; David W Ussery
Journal:  Nucleic Acids Res       Date:  2007-04-22       Impact factor: 16.971

10.  The RAST Server: rapid annotations using subsystems technology.

Authors:  Ramy K Aziz; Daniela Bartels; Aaron A Best; Matthew DeJongh; Terrence Disz; Robert A Edwards; Kevin Formsma; Svetlana Gerdes; Elizabeth M Glass; Michael Kubal; Folker Meyer; Gary J Olsen; Robert Olson; Andrei L Osterman; Ross A Overbeek; Leslie K McNeil; Daniel Paarmann; Tobias Paczian; Bruce Parrello; Gordon D Pusch; Claudia Reich; Rick Stevens; Olga Vassieva; Veronika Vonstein; Andreas Wilke; Olga Zagnitko
Journal:  BMC Genomics       Date:  2008-02-08       Impact factor: 3.969
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  1 in total

1.  Isolation of novel Afipia septicemium and identification of previously unknown bacteria Bradyrhizobium sp. OHSU_III from blood of patients with poorly defined illnesses.

Authors:  Shyh-Ching Lo; Guo-Chiuan Hung; Bingjie Li; Haiyan Lei; Tianwei Li; Kenjiro Nagamine; Jing Zhang; Shien Tsai; Richard Bryant
Journal:  PLoS One       Date:  2013-10-14       Impact factor: 3.240
  1 in total

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