Clinical microbiology and vaccines

Section edited by Igor Mokrousov and Raffaele Zarrilli

This section aims to publish studies looking at all aspects of clinical microbiology, including virology, epidemiology, antimicrobial resistance, vaccines and immune responses.

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  1. Research article

    Comparison of biomarker based Matrix Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry (MALDI-TOF MS) and conventional methods in the identification of clinically relevant bacteria and yeast

    MALDI-TOF MS is an analytical method that has recently become integral in the identification of microorganisms in clinical laboratories. It relies on databases that majorly employ pattern recognition or finger...

    Ali Kassim, Valentin Pflüger, Zul Premji, Claudia Daubenberger and Gunturu Revathi

    BMC Microbiology 2017 17:128

    Published on: 25 May 2017

  2. Methodology Article

    Identification and quantification of virulence factors of enterotoxigenic Escherichia coli by high-resolution melting curve quantitative PCR

    Diagnosis of enterotoxigenic E. coli (ETEC) associated diarrhea is complicated by the diversity of E.coli virulence factors. This study developed a multiplex quantitative PCR assay based on high-resolution meltin...

    Weilan Wang, Ruurd T. Zijlstra and Michael G. Gänzle

    BMC Microbiology 2017 17:114

    Published on: 15 May 2017

  3. Research article

    FilmArray™ GI panel performance for the diagnosis of acute gastroenteritis or hemorragic diarrhea

    Acute gastroenteritis is a common cause of morbidity and mortality in humans worldwide. The rapid and specific identification of infectious agents is crucial for correct patient management. However, diagnosis ...

    Antonio Piralla, Giovanna Lunghi, Gianluigi Ardissino, Alessia Girello, Marta Premoli, Erika Bava, Milena Arghittu, Maria Rosaria Colombo, Alessandra Cognetto, Patrizia Bono, Giulia Campanini, Piero Marone and Fausto Baldanti

    BMC Microbiology 2017 17:111

    Published on: 12 May 2017

  4. Research article

    Influence of chronic azithromycin treatment on the composition of the oropharyngeal microbial community in patients with severe asthma

    This study of the oropharyngeal microbiome complements the previously published AZIthromycin in Severe ASThma (AZISAST) clinical trial, where the use of azithromycin was assessed in subjects with exacerbation-...

    Guido Lopes dos Santos Santiago, Guy Brusselle, Kenny Dauwe, Pieter Deschaght, Chris Verhofstede, Dries Vaneechoutte, Ellen Deschepper, Paul Jordens, Guy Joos and Mario Vaneechoutte

    BMC Microbiology 2017 17:109

    Published on: 10 May 2017

  5. Researc article

    Nationwide molecular epidemiology of methicillin-resistant Staphylococcus aureus responsible for horse infections in France

    The epidemiology of methicillin-resistant Staphylococcus aureus (MRSA) isolated in horse infections is not well documented, especially in France. The aim of the study was to evaluate the prevalence of MRSA isolat...

    François Guérin, Marguerite Fines-Guyon, Pierrick Meignen, Géraldine Delente, Caroline Fondrinier, Nancy Bourdon, Vincent Cattoir and Albertine Léon

    BMC Microbiology 2017 17:104

    Published on: 3 May 2017

  6. Methodology Article

    Simultaneous detection of chikungunya virus, dengue virus and human pathogenic Leptospira genomes using a multiplex TaqMan® assay

    In 2005–2006 a major epidemics of Chikungunya disease occurred in South-West Indian Ocean islands. In Reunion Island, the magnitude of Chikungunya infection related symptoms was high and with over 38% of serol...

    Claude Giry, Bénédicte Roquebert, Ghislaine Li-Pat-Yuen, Philippe Gasque and Marie-Christine Jaffar-Bandjee

    BMC Microbiology 2017 17:105

    Published on: 3 May 2017

  7. Methodology Article

    Ribosomal subunit protein typing using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) for the identification and discrimination of Aspergillus species

    Accurate identification of Aspergillus species is a very important subject. Mass spectral fingerprinting using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) is genera...

    Sayaka Nakamura, Hiroaki Sato, Reiko Tanaka, Yoko Kusuya, Hiroki Takahashi and Takashi Yaguchi

    BMC Microbiology 2017 17:100

    Published on: 26 April 2017

  8. Research article

    Prevalence and antimicrobial resistance of Campylobacter jejuni and Campylobacter coli isolated from children and environmental sources in urban and suburban areas

    Campylobacteriosis is a dominant bacterial cause of foodborne infection and is considered the main public health problem in Europe and many other countries worldwide. In the study lasting from 2011 to 2013 we ...

    Bernadeta Szczepanska, Małgorzata Andrzejewska, Dorota Spica and Jacek J. Klawe

    BMC Microbiology 2017 17:80

    Published on: 4 April 2017

  9. Methodology article

    Comparison of stool versus rectal swab samples and storage conditions on bacterial community profiles

    Sample collection for gut microbiota analysis from in-patients can be challenging. Collection method and storage conditions are potential sources of variability. In this study, we compared the bacterial microb...

    Christine M. Bassis, Nicholas M. Moore, Karen Lolans, Anna M. Seekatz, Robert A. Weinstein, Vincent B. Young and Mary K. Hayden

    BMC Microbiology 2017 17:78

    Published on: 31 March 2017

  10. Research article

    Short-term increase in prevalence of nasopharyngeal carriage of macrolide-resistant Staphylococcus aureus following mass drug administration with azithromycin for trachoma control

    Mass drug administration (MDA) with azithromycin is a corner-stone of trachoma control however it may drive the emergence of antimicrobial resistance. In a cluster-randomized trial (Clinical trial gov NCT00792...

    Ebrima Bojang, James Jafali, Vincent Perreten, John Hart, Emma M. Harding-Esch, Ansumana Sillah, David C. W. Mabey, Martin J. Holland, Robin L. Bailey, Anna Roca and Sarah E. Burr

    BMC Microbiology 2017 17:75

    Published on: 28 March 2017

  11. Research article

    Clonality, outer-membrane proteins profile and efflux pump in KPC- producing Enterobacter sp. in Brazil

    Carbapenems resistance in Enterobacter spp. has increased in the last decade, few studies, however, described the mechanisms of resistance in this bacterium. This study evaluated clonality and mechanisms of carba...

    Juliana Ferraz Rosa, Camila Rizek, Ana Paula Marchi, Thais Guimaraes, Lourdes Miranda, Claudia Carrilho, Anna S Levin and Silvia F Costa

    BMC Microbiology 2017 17:69

    Published on: 17 March 2017

  12. Research article

    Molecular characterization of invasive capsule null Neisseria meningitidis in South Africa

    The meningococcal capsule is an important virulence determinant. Unencapsulated meningococci lacking capsule biosynthesis genes and containing the capsule null locus (cnl) are predominantly non-pathogenic. Rare c...

    Karistha Ganesh, Mushal Allam, Nicole Wolter, Holly B. Bratcher, Odile B. Harrison, Jay Lucidarme, Ray Borrow, Linda de Gouveia, Susan Meiring, Monica Birkhead, Martin C. J. Maiden, Anne von Gottberg and Mignon du Plessis

    BMC Microbiology 2017 17:40

    Published on: 21 February 2017

  13. Research article

    The respiratory microbiome in bronchial mucosa and secretions from severe IgE-mediated asthma patients

    The bronchial microbiome in chronic lung diseases presents an abnormal pattern, but its microbial composition and regional differences in severe asthma have not been sufficiently addressed. The aim of the stud...

    Laura Millares, Guadalupe Bermudo, Vicente Pérez-Brocal, Christian Domingo, Marian Garcia-Nuñez, Xavier Pomares, Andrés Moya and Eduard Monsó

    BMC Microbiology 2017 17:20

    Published on: 19 January 2017

  14. Research article

    Identification of a novel bovine enterovirus possessing highly divergent amino acid sequences in capsid protein

    Bovine enterovirus (BEV) belongs to the species Enterovirus E or F, genus Enterovirus and family Picornaviridae. Although numerous studies have identified BEVs in the feces of cattle with diarrhea, the pathogenic...

    Shinobu Tsuchiaka, Sayed Samim Rahpaya, Konosuke Otomaru, Hiroshi Aoki, Mai Kishimoto, Yuki Naoi, Tsutomu Omatsu, Kaori Sano, Sachiko Okazaki-Terashima, Yukie Katayama, Mami Oba, Makoto Nagai and Tetsuya Mizutani

    BMC Microbiology 2017 17:18

    Published on: 17 January 2017

  15. Researc article

    A novel quantitative PCR detects Babesia infection in patients not identified by currently available non-nucleic acid amplification tests

    Ticks transmit Babesia microti, the causative agents of babesiosis in North America and Europe. Babesiosis is now endemic in Northeastern USA and affects people of all ages. Babesia species infect erythrocytes an...

    Lavoisier Akoolo, Samantha Schlachter, Rasel Khan, Laura Alter, Albert D. Rojtman, Kristine Gedroic, Purnima Bhanot and Nikhat Parveen

    BMC Microbiology 2017 17:16

    Published on: 14 January 2017

  16. Research article

    Methicillin resistance and virulence genes in invasive and nasal Staphylococcus epidermidis isolates from neonates

    Staphylococcus epidermidis is an opportunistic pathogen involved in hospital-acquired infections, particularly in those related to medical devices. This study characterized 50 genetica...

    Vivian Carolina Salgueiro, Natalia Lopes Pontes Iorio, Marcelle Cristina Ferreira, Raiane Cardoso Chamon and Kátia Regina Netto dos Santos

    BMC Microbiology 2017 17:15

    Published on: 13 January 2017

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