Journal of Clinical Microbiology: 53 (9)

September 1, 2015; Volume 53,Issue 9

Photo Quiz

Photo Quiz
Photo Quiz: A 76-Year-Old with Community-Acquired Pneumonia
Karrie K. K. Ko, Therese S. Lapperre, T. H. Koh
Photo Quiz
Answer to September 2015 Photo Quiz
Karrie K. K. Ko, Therese S. Lapperre, T. H. Koh

Point-Counterpoint

Point-Counterpoint
Point-Counterpoint: Cervical Cancer Screening Should Be Done by Primary Human Papillomavirus Testing with Genotyping and Reflex Cytology for Women over the Age of 25 Years
Mark H. Stoler, R. Marshall Austin, Chengquan Zhao

Bacteriology

Bacteriology
Performance of a New Rapid Immunoassay Test Kit for Point-of-Care Diagnosis of Significant Bacteriuria
Ann E. Stapleton, Marsha E. Cox, Robert K. DiNello, Mark Geisberg, April Abbott, Pacita L. Roberts, Thomas M. Hooton
Bacteriology
Comparison of Established Diagnostic Methodologies and a Novel Bacterial smpB Real-Time PCR Assay for Specific Detection of Haemophilus influenzae Isolates Associated with Respiratory Tract Infections
Kate Reddington, Stefan Schwenk, Nina Tuite, Gareth Platt, Danesh Davar, Helena Coughlan, Yoann Personne, Vanya Gant, Virve I. Enne, Alimuddin Zumla, Thomas Barry
Open Access

Bacteriology
Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Whole-Genome Sequence-Based Typing of Listeria monocytogenes
Werner Ruppitsch, Ariane Pietzka, Karola Prior, Stefan Bletz, Haizpea Lasa Fernandez, Franz Allerberger, Dag Harmsen, Alexander Mellmann
Open Access

Bacteriology
Use of Alignment-Free Phylogenetics for Rapid Genome Sequence-Based Typing of Helicobacter pylori Virulence Markers and Antibiotic Susceptibility
Arnoud H. M. van Vliet, Johannes G. Kusters
Bacteriology
Antimicrobial Treatment Options for Granulomatous Mastitis Caused by Corynebacterium Species
Hazel C. Dobinson, Trevor P. Anderson, Stephen T. Chambers, Matthew P. Doogue, Lois Seaward, Anja M. Werno
Bacteriology
Isothermal Detection of Mycoplasma pneumoniae Directly from Respiratory Clinical Specimens
Brianna L. Petrone, Bernard J. Wolff, Alexandra A. DeLaney, Maureen H. Diaz, Jonas M. Winchell
Bacteriology
Rapidec Carba NP Test for Rapid Detection of Carbapenemase Producers
Laurent Poirel, Patrice Nordmann
Bacteriology
Prospective Two-Center Comparison of Three Chromogenic Agars for Methicillin-Resistant Staphylococcus aureus Screening in Hospitalized Patients
Magali Dodémont, Carlo Verhulst, Claire Nonhoff, Carole Nagant, Olivier Denis, Jan Kluytmans
Bacteriology
Comparison between Salmonella enterica Serotype Enteritidis Genotyping Methods and Phage Type
Alessandra De Cesare, Keshav Krishnamani, Antonio Parisi, Antonia Ricci, Ida Luzzi, Lisa Barco, Alex Lucchi, Angela Miccolupo, Gerardo Manfreda
Bacteriology
Characterization of Third-Generation-Cephalosporin-Resistant Shiga Toxin-Producing Strains of Escherichia coli O157:H7 in Japan
Ryuji Kawahara, Kazuko Seto, Masumi Taguchi, Chie Nakajima, Yuko Kumeda, Yasuhiko Suzuki

Mycobacteriology and Aerobic Actinomycetes

Open Access

Mycobacteriology and Aerobic Actinomycetes
Diagnostic Performance of the New Version (v2.0) of GenoType MTBDRsl Assay for Detection of Resistance to Fluoroquinolones and Second-Line Injectable Drugs: a Multicenter Study
Elisa Tagliani, Andrea M. Cabibbe, Paolo Miotto, Emanuele Borroni, Juan Carlos Toro, Mikael Mansjö, Sven Hoffner, Doris Hillemann, Aksana Zalutskaya, Alena Skrahina, Daniela M. Cirillo
Mycobacteriology and Aerobic Actinomycetes
Evaluation of the Efficiency of the Sample Inactivation Reagent in the Abbott RealTime MTB Assay for Inactivation of Mycobacterium tuberculosis
Chao Qi, Carole Wallis, Vihanga Pahalawatta, Andrea Frank, Neeshan Ramdin, Raquel Viana, Klara Abravaya, Gregor Leckie, Ning Tang
Mycobacteriology and Aerobic Actinomycetes
Comparison of Three Commercial Molecular Assays for Detection of Rifampin and Isoniazid Resistance among Mycobacterium tuberculosis Isolates in a High-HIV-Prevalence Setting
K. Strydom, F. Ismail, M. M. Z. Matabane, O. Onwuegbuna, S. V. Omar, N. Ismail
Mycobacteriology and Aerobic Actinomycetes
Support from Phylogenomic Networks and Subspecies Signatures for Separation of Mycobacterium massiliense from Mycobacterium bolletii
Joon Liang Tan, Yun Fong Ngeow, Siew Woh Choo

Mycology

Mycology
Morphological and Molecular Characterization of Exophiala polymorpha sp. nov. Isolated from Sporotrichoid Lymphocutaneous Lesions in a Patient with Myasthenia Gravis
Lee K. Yong, Nathan P. Wiederhold, Deanna A. Sutton, Marcelo Sandoval-Denis, Jonathan R. Lindner, Hongxin Fan, Carmita Sanders, Josep Guarro
Open Access

Mycology
Clinical Performance of Aspergillus PCR for Testing Serum and Plasma: a Study by the European Aspergillus PCR Initiative
P. Lewis White, Rosemary A. Barnes, Jan Springer, Lena Klingspor, Manuel Cuenca-Estrella, C. Oliver Morton, Katrien Lagrou, Stéphane Bretagne, Willem J. G. Melchers, Carlo Mengoli, J. Peter Donnelly, Werner J. Heinz, Juergen Loeffler
and the EAPCRI
Open Access

Mycology
Analytical Comparison of In Vitro-Spiked Human Serum and Plasma for PCR-Based Detection of Aspergillus fumigatus DNA: a Study by the European Aspergillus PCR Initiative
Juergen Loeffler, Carlo Mengoli, Jan Springer, Stéphane Bretagne, Manuel Cuenca-Estrella, Lena Klingspor, Katrien Lagrou, Willem J. G. Melchers, C. Oliver Morton, Rosemary A. Barnes, J. Peter Donnelly, P. Lewis White
and on behalf of the European Aspergillus PCR Initiative
Mycology
Cohort Study of Airway Mycobiome in Adult Cystic Fibrosis Patients: Differences in Community Structure between Fungi and Bacteria Reveal Predominance of Transient Fungal Elements
Rolf Kramer, Annette Sauer-Heilborn, Tobias Welte, Carlos A. Guzman, Wolf-Rainer Abraham, Manfred G. Höfle
Mycology
Phaeohyphomycosis Caused by a Novel Species, Pseudochaetosphaeronema martinelli
Sarah A. Ahmed, Nicole Desbois, D. Quist, C. Miossec, Carlos Atoche, Alexandro Bonifaz, G. Sybren de Hoog
Mycology
Cladosporium Species Recovered from Clinical Samples in the United States
Marcelo Sandoval-Denis, Deanna A. Sutton, Adela Martin-Vicente, José F. Cano-Lira, Nathan Wiederhold, Josep Guarro, Josepa Gené
Mycology
Evaluation of a Novel Plasma (1,3)-β-d-Glucan Detection Assay for Diagnosis of Candidemia in Pediatric Patients
Ying Liu, Feng Chen, Xiaodong Zhu, Lisong Shen, Sean X. Zhang

Parasitology

Parasitology
Novel Molecular Assay for Simultaneous Identification of Neglected Lungworms and Heartworms Affecting Cats
Angela Di Cesare, Fabrizia Veronesi, Antonio Frangipane di Regalbono, Raffaella Iorio, Donato Traversa

Virology

Virology
Genotypic Tropism Testing in HIV-1 Proviral DNA Can Provide Useful Information at Low-Level Viremia
Lavinia Fabeni, Giulia Berno, Valentina Svicher, Francesca Ceccherini-Silberstein, Caterina Gori, Ada Bertoli, Cristina Mussini, Miriam Lichtner, Mauro Zaccarelli, Adriana Ammassari, Carmela Pinnetti, Stefania Cicalini, Claudio Maria Mastroianni, Massimo Andreoni, Andrea Antinori, Carlo Federico Perno, Maria Mercedes Santoro
Virology
Development and Validation of Two Screening Assays for the Hepatitis C Virus NS3 Q80K Polymorphism Associated with Reduced Response to Combination Treatment Regimens Containing Simeprevir
C. K. S. Chui, W. W. Y. Dong, J. B. Joy, A. F. Y. Poon, W. Y. Dong, T. Mo, C. K. Woods, C. Beatty, H. Hew, P. R. Harrigan, C. J. Brumme
Virology
Infectious Middle East Respiratory Syndrome Coronavirus Excretion and Serotype Variability Based on Live Virus Isolates from Patients in Saudi Arabia
Doreen Muth, Victor M. Corman, Benjamin Meyer, Abdullah Assiri, Malak Al-Masri, Mohamed Farah, Katja Steinhagen, Erik Lattwein, Jaffar A. Al-Tawfiq, Ali Albarrak, Marcel A. Müller, Christian Drosten, Ziad A. Memish
Free

Virology
Comparison of FilmArray and Quantitative Real-Time Reverse Transcriptase PCR for Detection of Zaire Ebolavirus from Contrived and Clinical Specimens
Timothy R. Southern, Lori D. Racsa, César G. Albariño, Paul D. Fey, Steven H. Hinrichs, Caitlin N. Murphy, Vicki L. Herrera, Anthony R. Sambol, Charles E. Hill, Emily L. Ryan, Colleen S. Kraft, Shelley Campbell, Tara K. Sealy, Amy Schuh, James C. Ritchie, G. Marshall Lyon, Aneesh K. Mehta, Jay B. Varkey, Bruce S. Ribner, Kent P. Brantly, Ute Ströher, Peter C. Iwen, Eileen M. Burd
Virology
Comparison of Automated Quantitative Reverse Transcription-PCR and Direct Fluorescent-Antibody Detection for Routine Rabies Diagnosis in the United States
Michelle Dupuis, Scott Brunt, Kim Appler, April Davis, Robert Rudd
Virology
Impact of Mutations at Amino Acid 70 in Hepatitis C Virus (HCV) Genotype 1b Core Region on Hepatocarcinogenesis following Eradication of HCV RNA
Norio Akuta, Fumitaka Suzuki, Masahiro Kobayashi, Hitomi Sezaki, Yusuke Kawamura, Tetsuya Hosaka, Mariko Kobayashi, Satoshi Saitoh, Yoshiyuki Suzuki, Yasuji Arase, Kenji Ikeda, Hiromitsu Kumada

Clinical Veterinary Microbiology

Open Access

Clinical Veterinary Microbiology
Field-Applicable Recombinase Polymerase Amplification Assay for Rapid Detection of Mycoplasma capricolum subsp. capripneumoniae
Anne Liljander, Mingyan Yu, Elizabeth O'Brien, Martin Heller, Julia F. Nepper, Douglas B. Weibel, Ilona Gluecks, Mario Younan, Joachim Frey, Laurent Falquet, Joerg Jores
Clinical Veterinary Microbiology
Methicillin-Resistant Staphylococcus aureus spa Type t002 Outbreak in Horses and Staff at a Veterinary Teaching Hospital after Its Presumed Introduction by a Veterinarian
Amir Steinman, Samira Masarwa, Sharon Tirosh-Levy, Dan Gleser, Gal Kelmer, Amos Adler, Yehuda Carmeli, Mitchell J. Schwaber
Clinical Veterinary Microbiology
Molecular Epidemiology of Novel Pathogen “Brachyspira hampsonii” Reveals Relationships between Diverse Genetic Groups, Regions, Host Species, and Other Pathogenic and Commensal Brachyspira Species
Nandita S. Mirajkar, Aschalew Z. Bekele, Yogesh Y. Chander, Connie J. Gebhart

Epidemiology

Epidemiology
Evaluation of Remel Spectra CRE Agar for Detection of Carbapenem-Resistant Bacteria from Rectal Swabs Obtained from Residents of a Long-Term-Care Facility
Vincent J. LaBombardi, Carl M. Urban, Barry N. Kreiswirth, Liang Chen, Giuliana Osorio, Joanna Kopacz, Georges Labaze, Sorana Segal-Maurer
Epidemiology
Genomic Epidemiology of Clostridium botulinum Isolates from Temporally Related Cases of Infant Botulism in New South Wales, Australia
Nadine McCallum, Timothy J. Gray, Qinning Wang, Jimmy Ng, Leanne Hicks, Trang Nguyen, Marion Yuen, Grant A. Hill-Cawthorne, Vitali Sintchenko
Epidemiology
Tracking Nosocomial Klebsiella pneumoniae Infections and Outbreaks by Whole-Genome Analysis: Small-Scale Italian Scenario within a Single Hospital
Raffaella Onori, Stefano Gaiarsa, Francesco Comandatore, Stefano Pongolini, Sylvain Brisse, Alberto Colombo, Gianluca Cassani, Piero Marone, Paolo Grossi, Giulio Minoja, Claudio Bandi, Davide Sassera, Antonio Toniolo
Open Access

Epidemiology
Temporal Variation in Viral Hemorrhagic Septicemia Virus Antibodies in Freshwater Drum (Aplodinotus grunniens) Indicates Cyclic Transmission in Lake Winnebago, Wisconsin
Anna Wilson-Rothering, Susan Marcquenski, Ryan Koenigs, Ronald Bruch, Kendall Kamke, Daniel Isermann, Andrew Thurman, Kathy Toohey-Kurth, Tony Goldberg
Epidemiology
Emergence of Serotype IV Group B Streptococcus Adult Invasive Disease in Manitoba and Saskatchewan, Canada, Is Driven by Clonal Sequence Type 459 Strains
Sarah Teatero, Taryn B. T. Athey, Paul Van Caeseele, Greg Horsman, David C. Alexander, Roberto G. Melano, Aimin Li, Anthony R. Flores, Samuel A. Shelburne, Allison McGeer, Walter Demczuk, Irene Martin, Nahuel Fittipaldi
Epidemiology
Challenges in Preparation of Cumulative Antibiogram Reports for Community Hospitals
Rebekah W. Moehring, Kevin C. Hazen, Myra R. Hawkins, Richard H. Drew, Daniel J. Sexton, Deverick J. Anderson

Case Reports

Open Access

CASE REPORTS
Cladophialophora bantiana as an Emerging Pathogen in Animals: Case Report of Equine Endometritis and Review of the Literature
Merja Rantala, Stella Attia, Pirkko Koukila-Kähkölä, Sybren de Hoog, Marjukka Anttila, Terttu Katila
CASE REPORTS
Vertebral Osteomyelitis Caused by Helicobacter cinaedi
Aisa Yoshizaki, Hiroshi Takegawa, Asako Doi, Yasushi Mizuno, Hiroaki Nishioka
CASE REPORTS
Coinfection with “Rickettsia sibirica subsp. mongolotimonae” and Rickettsia conorii in a Human Patient: a Challenge for Molecular Diagnosis Tools
María Mercedes Nogueras, Beatriz Roson, Sergio Lario, Isabel Sanfeliu, Immaculada Pons, Esperança Anton, Aurora Casanovas, Ferran Segura
CASE REPORTS
First Human Case of Fungal Keratitis Caused by a Putatively Novel Species of Lophotrichus
Allen O. Eghrari, Connie Gibas, Tonya Watkins, Sina Vahedi, Rick Lee, Elizabeth Houle, Maria Jose Suarez, Charles Eberhart, Deanna A. Sutton, Nathan P. Wiederhold, Shameema Sikder, Sean X. Zhang
CASE REPORTS
Mycoplasma hominis, a Rare but True Cause of Infective Endocarditis
Amandine Gagneux-Brunon, Florence Grattard, Jerome Morel, Florence Suy, Jean-François Fuzellier, Paul Verhoeven, Celine Cazorla, Claire Guglielminotti, Anne Fresard, Frederic Lucht, Elisabeth Botelho-Nevers
CASE REPORTS
Disseminated Balamuthia mandrillaris Infection
Katherine R. Schafer, Neil Shah, M. I. Almira-Suarez, Jennifer M. Reese, George M. Hoke, James W. Mandell, Sharon L. Roy, Govinda Visvesvara
CASE REPORTS
Two Cases of Urinary Tract Infection Caused by Propionimicrobium lymphophilum
Glynne D. Williams
CASE REPORTS
Humicola sp. as a Cause of Peritoneal Dialysis-Associated Peritonitis
Nathan Burns, Ian Arthur, Michael Leung, Selva Ketharanathan, Marcelo Sandoval-Denis, Josepa Gené, Josep Guarro, Aron Chakera
CASE REPORTS
Severe Community-Acquired Pneumonia with Bacteremia Caused by Herbaspirillum aquaticum or Herbaspirillum huttiense in an Immune-Competent Adult
Hariharan Regunath, Joanna Kimball, L. Patrick Smith, William Salzer
CASE REPORTS
Tonsillar Syphilis: an Unusual Site of Infection Detected by Treponema pallidum PCR
John R. M. Smith, Raymond S. W. Tsang, Kamran Kadkhoda
CASE REPORTS
Contact Lens-Related Infectious Keratitis with White Plaque Formation Caused by Corynebacterium propinquum
Daisuke Todokoro, Hiroshi Eguchi, Norihiro Yamada, Hirotake Sodeyama, Ryuichi Hosoya, Shoji Kishi
CASE REPORTS
Recurrent Streptococcus equi subsp. zooepidemicus Bacteremia in an Infant
Joshua R. Watson, Amy Leber, Sridhar Velineni, John F. Timoney, Monica I. Ardura

Letters to the Editor

LETTERS TO THE EDITOR
First Report of Anaerobic Isolation of Salmonella enterica from Liver Abscesses of Feedlot Cattle
R. G. Amachawadi, T. G. Nagaraja
LETTERS TO THE EDITOR
Ceftaroline Activity against mecC-Containing Staphylococcus aureus
Sushmita D. Lahiri, Richard A. Alm
LETTERS TO THE EDITOR
Characterization of a Clone of Mycobacterium tuberculosis Clinical Isolates with Mutations in KatG (A110V), EthA (Q269STOP), and the inhA Promoter (−15C→T)
Florence Brossier, Christophe Sola, Christine Bernard, Vincent Jarlier, Nicolas Veziris, Wladimir Sougakoff
LETTERS TO THE EDITOR
Evaluation of the Recently Launched Rapid Carb Blue Kit for Detection of Carbapenemase-Producing Gram-Negative Bacteria
Ângela Novais, Michael Brilhante, João Pires, Luísa Peixe

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Table of Contents

Photo Quiz

Point-Counterpoint

Bacteriology

Mycobacteriology and Aerobic Actinomycetes

Mycology

Parasitology

Virology

Clinical Veterinary Microbiology

Epidemiology

Case Reports

Letters to the Editor

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