You have full text access to this Open Access content


Cover image for Vol. 2 Issue 2

April 2013

Volume 2, Issue 2

Pages i–ii, 215–364

  1. Issue Information

    1. Top of page
    2. Issue Information
    3. Original Research
    4. Review
    1. You have full text access to this OnlineOpen article
      Issue Information (pages i–ii)

      Version of Record online: 8 APR 2013 | DOI: 10.1002/mbo3.91

  2. Original Research

    1. Top of page
    2. Issue Information
    3. Original Research
    4. Review
    1. You have full text access to this OnlineOpen article
      Microbiota diversity and stability of the preterm neonatal ileum and colon of two infants (pages 215–225)

      Eoin Barrett, Caitriona M. Guinane, C. Anthony Ryan, Eugene M. Dempsey, Brendan P. Murphy, Paul W. O'Toole, Gerald F. Fitzgerald, Paul D. Cotter, R. Paul Ross and Catherine Stanton

      Version of Record online: 24 JAN 2013 | DOI: 10.1002/mbo3.64

      Thumbnail image of graphical abstract

      Pyrosequencing analysis of microbiota composition indicated that bifidobacteria and lactobacilli are among the dominant genera in both the ileal and colonic fluids. Bifidobacteria and lactobacilli levels were unstable in the ileostomy fluid, with large reductions in the numbers and relative proportions of bifidobacteria and lactobacilli observed.

    2. You have full text access to this OnlineOpen article
      Identification of quorum sensing-controlled genes in Burkholderia ambifaria (pages 226–242)

      Annelise Chapalain, Ludovic Vial, Natacha Laprade, Valérie Dekimpe, Jonathan Perreault and Eric Déziel

      Version of Record online: 5 FEB 2013 | DOI: 10.1002/mbo3.67

      Thumbnail image of graphical abstract

      Burkholderia ambifaria is a growth-promoting rhizobacteria that belongs to the B. cepacia complex (Bcc), also known for its virulence potential toward immunocompromised patients. To better understand the QS circuitry in this bacterium, a whole-genome transposon-insertion mutagenesis strategy has been performed. Among the QS-controlled genes identified in the study, several are implicated in antifungal and antimicrobial properties, which could lead to attractive biotechnological applications.

    3. You have full text access to this OnlineOpen article
      Burkholderia cenocepacia conditional growth mutant library created by random promoter replacement of essential genes (pages 243–258)

      Ruhi A. M. Bloodworth, April S. Gislason and Silvia T. Cardona

      Version of Record online: 7 FEB 2013 | DOI: 10.1002/mbo3.71

      Thumbnail image of graphical abstract

      We used transposon delivery of an outward-facing rhamnose-inducible promoter followed by screening of rhamnose-dependent growth to construct a genomic library of 107 Burkholderia cenocepacia conditional growth (CG) mutants. Expression from the rhamnose promoter achieved the wide dynamic range of expression levels required for essential genes. Gene regulation to obtain 30–60% of wild-type growth created conditions for specific hypersensitivity demonstrating the value of the CG mutant library for chemogenomic experiments.

    4. You have full text access to this OnlineOpen article
      Free-living bacterial communities associated with tubeworm (Ridgeia piscesae) aggregations in contrasting diffuse flow hydrothermal vent habitats at the Main Endeavour Field, Juan de Fuca Ridge (pages 259–275)

      Nathalie L. Forget and S. Kim Juniper

      Version of Record online: 9 FEB 2013 | DOI: 10.1002/mbo3.70

      Thumbnail image of graphical abstract

      This study is the first survey of free-living microbial diversity associated with the major foundation species at the Endeavour Hydrothermal Vents Marine Protected Area. We combined 454 tag sequencing and Sanger sequencing to characterize the composition and structure of the bacterial communities in contrasting hydrothermal habitats. While the sulphur-oxidizing genus Sulfurovum was dominant in all samples, we found significant relationships between sequence library composition and habitat type.

    5. You have full text access to this OnlineOpen article
      Analysis of the bacterial communities associated with two ant–plant symbioses (pages 276–283)

      Ryan F. Seipke, Jörg Barke, Darren Heavens, Douglas W. Yu and Matthew I. Hutchings

      Version of Record online: 17 FEB 2013 | DOI: 10.1002/mbo3.73

      Thumbnail image of graphical abstract

      Allomerus and Tetraponera spp. ants live in symbiosis with host plants and practice cultivate fungus to use as a building material or food, respectively. The cuticles of Allomerus and Tetraponera ants are dominated by γ-proteobacteria Erwinia and Serratia spp.

    6. You have full text access to this OnlineOpen article
      Assessment of a semi-automated protocol for multiplex analysis of sepsis-causing bacteria with spiked whole blood samples (pages 284–292)

      Sanna Laakso and Minna Mäki

      Version of Record online: 18 FEB 2013 | DOI: 10.1002/mbo3.69

      Thumbnail image of graphical abstract

      The proof-of-concept for accurate multiplex pathogen and antibacterial resistance marker detection from spiked whole blood samples was demonstrated by the selective bacterial DNA extraction method combined with the high-throughput PCR and microarray-based platform.

    7. You have full text access to this OnlineOpen article
      Role of the ribosome-associated protein PY in the cold-shock response of Escherichia coli (pages 293–307)

      Fabio Di Pietro, Anna Brandi, Nadire Dzeladini, Attilio Fabbretti, Thomas Carzaniga, Lolita Piersimoni, Cynthia L. Pon and Anna Maria Giuliodori

      Version of Record online: 19 FEB 2013 | DOI: 10.1002/mbo3.68

      Thumbnail image of graphical abstract

      Escherichia coli responds to cold stress by entering an acclimation phase during which protein synthesis slows down considerably with the exception of a specific set of genes (cold-shock genes) whose expression is stimulated. In this article, we have investigated in vivo and in vitro the role of PY, a protein that is associated with the ribosome throughout the cold acclimation phase. Our data indicate that protein PY can affect translation initiation but is not responsible for turning off bulk protein synthesis during the cold stress.

    8. You have full text access to this OnlineOpen article
      Complete mitochondrial genome of the aluminum-tolerant fungus Rhodotorula taiwanensis RS1 and comparative analysis of Basidiomycota mitochondrial genomes (pages 308–317)

      Xue Qiang Zhao, Tomoko Aizawa, Jessica Schneider, Chao Wang, Ren Fang Shen and Michio Sunairi

      Version of Record online: 21 FEB 2013 | DOI: 10.1002/mbo3.74

      Thumbnail image of graphical abstract

      This is, to our knowledge, the first report of the complete mitochondrial genome sequence of the genus Rhodotorula, and contains comparison with known 12 mitochondrial genomes of Basidiomycota species. The mitochondrial genome of Rhodotorula taiwanensis RS1 has two unique features, that is, relatively higher G+C content and two intron insertions into the atp9 gene. This study will supply basic information for understanding the evolution of fungal mitochondrial genomes and researching the mechanism of aluminum tolerance in microorganisms.

    9. You have full text access to this OnlineOpen article
      Study of the effect of antimicrobial peptide mimic, CSA-13, on an established biofilm formed by Pseudomonas aeruginosa (pages 318–325)

      Carole Nagant, Betsey Pitts, Philip S. Stewart, Yanshu Feng, Paul B. Savage and Jean-Paul Dehaye

      Version of Record online: 25 FEB 2013 | DOI: 10.1002/mbo3.77

      Thumbnail image of graphical abstract

      Persistent Pseudomonas aeruginosa respiratory infections are linked to the formation of a biofilm and are a common cause of morbidity and mortality in cystic fibrosis patients. The worldwide increase resistance to conventional antibiotics has motived the search for new strategies to combat chronic infections. Confocal laser scanning microscopy was used in this study to demonstrate the ability of the drug to kill bacteria within a complex and robust biofilm. Cationic steroid antibiotics (CSA)-13 offers promising potential to treat not only acute infections caused by planktonic bacteria but also chronic infections involving biofilms.

    10. You have full text access to this OnlineOpen article
      Expression of Bacteroides fragilis hemolysins in vivo and role of HlyBA in an intra-abdominal infection model (pages 326–337)

      Leandro A. Lobo, Audrey L. Jenkins, C. Jeffrey Smith and Edson R. Rocha

      Version of Record online: 26 FEB 2013 | DOI: 10.1002/mbo3.76

      Thumbnail image of graphical abstract

      Bacteroides fragilis hemolysins are expressed and regulated in vivo. The dual-hemolysin component HlyBA is required for survival in an intra-abdominal infection model. This is the first study showing that hemolysins are virulence factor in B. fragilis, the most frequent anaerobe isolated from human infection.

    11. You have full text access to this OnlineOpen article
      Temperature-driven shifts in the epibiotic bacterial community composition of the brown macroalga Fucus vesiculosus (pages 338–349)

      Stephanie B Stratil, Sven C Neulinger, Henrik Knecht, Anette K Friedrichs and Martin Wahl

      Version of Record online: 13 MAR 2013 | DOI: 10.1002/mbo3.79

      Thumbnail image of graphical abstract

      This study explores the compositional shifts and the diversity of the bacterial community associated with the brown macroalga Fucus vesiculosus under different temperature conditions using fingerprinting and pyrosequencing methods.

  3. Review

    1. Top of page
    2. Issue Information
    3. Original Research
    4. Review
    1. You have full text access to this OnlineOpen article
      Topological mapping methods for α-helical bacterial membrane proteins – an update and a guide (pages 350–364)

      Salim T. Islam and Joseph S. Lam

      Version of Record online: 14 FEB 2013 | DOI: 10.1002/mbo3.72

      Thumbnail image of graphical abstract

      In this review, we synthesize the various methods available for topological mapping of α-helical integral membrane proteins to provide investigators with a comprehensive reference for choosing techniques suited to their particular topological queries and available resources.