Literature DB >> 23144412

Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant.

Emilie E L Muller1, Nicolás Pinel, John D Gillece, James M Schupp, Lance B Price, David M Engelthaler, Caterina Levantesi, Valter Tandoi, Khai Luong, Nitin S Baliga, Jonas Korlach, Paul S Keim, Paul Wilmes.   

Abstract

"Candidatus Microthrix" bacteria are deeply branching filamentous actinobacteria which occur at the water-air interface of biological wastewater treatment plants, where they are often responsible for foaming and bulking. Here, we report the first draft genome sequence of a strain from this genus: "Candidatus Microthrix parvicella" strain Bio17-1.

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Year:  2012        PMID： 23144412      PMCID： PMC3497503          DOI： 10.1128/JB.01765-12

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


  15 in total

1.  Velvet: algorithms for de novo short read assembly using de Bruijn graphs.

Authors:  Daniel R Zerbino; Ewan Birney
Journal:  Genome Res       Date:  2008-03-18       Impact factor: 9.043

2.  De novo assembly of human genomes with massively parallel short read sequencing.

Authors:  Ruiqiang Li; Hongmei Zhu; Jue Ruan; Wubin Qian; Xiaodong Fang; Zhongbin Shi; Yingrui Li; Shengting Li; Gao Shan; Karsten Kristiansen; Songgang Li; Huanming Yang; Jian Wang; Jun Wang
Journal:  Genome Res       Date:  2009-12-17       Impact factor: 9.043

3.  Phylogeny, physiology and distribution of 'Candidatus Microthrix calida', a new Microthrix species isolated from industrial activated sludge wastewater treatment plants.

Authors:  Caterina Levantesi; Simona Rossetti; Karin Thelen; Caroline Kragelund; Janneke Krooneman; Dick Eikelboom; Per Halkjaer Nielsen; Valter Tandoi
Journal:  Environ Microbiol       Date:  2006-09       Impact factor: 5.491

Review 4.  "Microthrix parvicella", a filamentous bacterium causing bulking and foaming in activated sludge systems: a review of current knowledge.

Authors:  Simona Rossetti; Maria C Tomei; Per H Nielsen; Valter Tandoi
Journal:  FEMS Microbiol Rev       Date:  2005-01       Impact factor: 16.408

5.  De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer.

Authors:  David Hernandez; Patrice François; Laurent Farinelli; Magne Osterås; Jacques Schrenzel
Journal:  Genome Res       Date:  2008-03-10       Impact factor: 9.043

6.  Microthrix parvicella, a specialized lipid consumer in anaerobic-aerobic activated sludge plants.

Authors:  P H Nielsen; P Roslev; T E Dueholm; J L Nielsen
Journal:  Water Sci Technol       Date:  2002       Impact factor: 1.915

7.  Toward almost closed genomes with GapFiller.

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

8.  Aggressive assembly of pyrosequencing reads with mates.

Authors:  Jason R Miller; Arthur L Delcher; Sergey Koren; Eli Venter; Brian P Walenz; Anushka Brownley; Justin Johnson; Kelvin Li; Clark Mobarry; Granger Sutton
Journal:  Bioinformatics       Date:  2008-10-24       Impact factor: 6.937

9.  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

10.  CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats.

Authors:  Ibtissem Grissa; Gilles Vergnaud; Christine Pourcel
Journal:  Nucleic Acids Res       Date:  2007-05-30       Impact factor: 16.971
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  9 in total

1.  Metabolic model for the filamentous 'Candidatus Microthrix parvicella' based on genomic and metagenomic analyses.

Authors:  Simon Jon McIlroy; Rikke Kristiansen; Mads Albertsen; Søren Michael Karst; Simona Rossetti; Jeppe Lund Nielsen; Valter Tandoi; Robert James Seviour; Per Halkjær Nielsen
Journal:  ISME J       Date:  2013-02-28       Impact factor: 10.302

2.  Low Global Diversity of Candidatus Microthrix, a Troublesome Filamentous Organism in Full-Scale WWTPs.

Authors:  Marta Nierychlo; Caitlin M Singleton; Francesca Petriglieri; Lisette Thomsen; Jette F Petersen; Miriam Peces; Zivile Kondrotaite; Morten S Dueholm; Per H Nielsen
Journal:  Front Microbiol       Date:  2021-06-25       Impact factor: 5.640

3.  Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.

Authors:  Emilie E L Muller; Nicolás Pinel; Cédric C Laczny; Michael R Hoopmann; Shaman Narayanasamy; Laura A Lebrun; Hugo Roume; Jake Lin; Patrick May; Nathan D Hicks; Anna Heintz-Buschart; Linda Wampach; Cindy M Liu; Lance B Price; John D Gillece; Cédric Guignard; James M Schupp; Nikos Vlassis; Nitin S Baliga; Robert L Moritz; Paul S Keim; Paul Wilmes
Journal:  Nat Commun       Date:  2014-11-26       Impact factor: 14.919

4.  Genomic and Transcriptomic Evidence for Carbohydrate Consumption among Microorganisms in a Cold Seep Brine Pool.

Authors:  Weipeng Zhang; Wei Ding; Bo Yang; Renmao Tian; Shuo Gu; Haiwei Luo; Pei-Yuan Qian
Journal:  Front Microbiol       Date:  2016-11-15       Impact factor: 5.640

5.  Microbial community compositions in different functional zones of Carrousel oxidation ditch system for domestic wastewater treatment.

Authors:  Dong Xu; Sitong Liu; Qian Chen; Jinren Ni
Journal:  AMB Express       Date:  2017-02-15       Impact factor: 3.298

6.  GRASShopPER-An algorithm for de novo assembly based on GPU alignments.

Authors:  Aleksandra Swiercz; Wojciech Frohmberg; Michal Kierzynka; Pawel Wojciechowski; Piotr Zurkowski; Jan Badura; Artur Laskowski; Marta Kasprzak; Jacek Blazewicz
Journal:  PLoS One       Date:  2018-08-16       Impact factor: 3.240

7.  Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics.

Authors:  Susana Martínez Arbas; Shaman Narayanasamy; Malte Herold; Laura A Lebrun; Michael R Hoopmann; Sujun Li; Tony J Lam; Benoît J Kunath; Nathan D Hicks; Cindy M Liu; Lance B Price; Cedric C Laczny; John D Gillece; James M Schupp; Paul S Keim; Robert L Moritz; Karoline Faust; Haixu Tang; Yuzhen Ye; Alexander Skupin; Patrick May; Emilie E L Muller; Paul Wilmes
Journal:  Nat Microbiol       Date:  2020-11-02       Impact factor: 17.745

8.  In situ phenotypic heterogeneity among single cells of the filamentous bacterium Candidatus Microthrix parvicella.

Authors:  Abdul R Sheik; Emilie El Muller; Jean-Nicolas Audinot; Laura A Lebrun; Patrick Grysan; Cedric Guignard; Paul Wilmes
Journal:  ISME J       Date:  2015-10-27       Impact factor: 10.302

9.  Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks.

Authors:  Hugo Roume; Anna Heintz-Buschart; Emilie E L Muller; Patrick May; Venkata P Satagopam; Cédric C Laczny; Shaman Narayanasamy; Laura A Lebrun; Michael R Hoopmann; James M Schupp; John D Gillece; Nathan D Hicks; David M Engelthaler; Thomas Sauter; Paul S Keim; Robert L Moritz; Paul Wilmes
Journal:  NPJ Biofilms Microbiomes       Date:  2015-06-17       Impact factor: 7.290
  9 in total

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