Contents • May 2019 • Volume 57, No. 5

CONTENTS • MAY 2019 • VOLUME 57, NO. 5

PHOTO QUIZ Paul Bourbeau R Photo Quiz: Disseminated Necrotic Cutaneous Nodules in a Lung Transplant Recipient e00087-18 Photo Quiz J.-P. Talarmin, H. Yera, F. Chrétien, G. Jouvion, P. Plantin, P. Siohan, P. Hutin Paul Bourbeau R Answer to Photo Quiz e00089-18 Photo Quiz J.-P. Talarmin, H. Yera, F. Chrétien, G. Jouvion, P. Plantin, P. Siohan, P. Hutin

EDITORIAL Carey-Ann D. R The Signiﬁcance of Microbial Taxonomy: a Micro-Comic Strip e00231-19 Burnham Editorial Alexander J. McAdam

THE BRIEF CASE Carey-Ann D. R The Brief Case: Pneumonia Caused by Talaromyces marneffei e01690-18 Burnham Brief Case Lori Bourassa, Avanthi Doppalapudi, Susan M. Butler-Wu Carey-Ann D. R Closing the Brief Case: Pneumonia Caused by Talaromyces marneffei e01691-18 Burnham Brief Case Lori Bourassa, Avanthi Doppalapudi, Susan M. Butler-Wu

BIOGRAPHICAL FEATURE Erik Munson R Biographical Feature: Stephen G. Jenkins, Ph.D., D(ABMM), F(AAM) e00299-19 Bio Feature Alexander J. McAdam

COMMENTARY Karen C. Carroll R To Lump or To Split: Does Strain Lineage for Clostridioides difﬁcile Matter? e00196-19 Commentary Scott R. Curry

MINIREVIEWS Colleen Suzanne R An Update on Mycobacterial Taxonomy, 2016–2017 e01408-18 Kraft Minireview Nicole Parrish Colleen Suzanne R Laboratory Diagnosis of Neonatal Herpes Simplex Virus Infections e01460-18 Kraft Minireview William J. Muller, Xiaotian Zheng Colleen Suzanne R Phylogenomic Pipeline Validation for Foodborne Pathogen Disease Surveillance e01816-18 Kraft Minireview Ruth E. Timme, Errol Strain, Joseph D. Baugher, Steven Davis, Narjol Gonzalez-Escalona, Maria Sanchez Leon, Marc W. Allard, Eric W. Brown, Sandra Tallent, Hugh Rand

BACTERIOLOGY Karen C. Carroll T Multiplex Detection of Three Select Agents Directly from Blood by Use of the e00036-19 Bacteriology GeneXpert System Padmapriya P. Banada, Srinidhi Deshpande, Sukalyani Banik, Darshini Shah, Ranie Koshy, Bhavana Patel, Robert Kwiatkowski, David Persing, David Alland

Instructions to Authors are available on the journal website. †This article was published on 26 April 2019 with Malgorzata Mikulska’s surname incorrectly presented as “Mikulska Malgorzata” in the byline. The byline was updated in the version posted on 16 October 2019. CONTENTS • MAY 2019 • VOLUME 57, NO. 5

Nathan A. T A Novel Phenotypic Method To Screen for Plasmid-Mediated Colistin Resistance e00040-19 Ledeboer Bacteriology among Enterobacteriales Drew T. Bell, Yehudit Bergman, Abida Q. Kazmi, Shawna Lewis, Pranita D. Tamma, Patricia J. Simner Daniel J. Diekema T Carriage of a Single Strain of Nontoxigenic Corynebacterium diphtheriae bv. e00042-19 Bacteriology Belfanti (Corynebacterium belfantii) in Four Patients with Cystic Fibrosis Diane Pivot, Annlyse Fanton, Edgar Badell-Ocando, Marion Benouachkou, Karine Astruc, Frederic Huet, Lucie Amoureux, Catherine Neuwirth, Alexis Criscuolo, Serge Aho, Julie Toubiana, Sylvain Brisse Paul Bourbeau T Identification of Burkholderia pseudomallei by Use of the Vitek Mass Spectrometer e00081-19 Bacteriology I. Gassiep, M. Armstrong, R. E. Norton Erik Munson T Prognostic Indicators of Recurrence of Bacterial Vaginosis e00227-19 Bacteriology Jack D. Sobel, Navkiranjot Kaur, Nicole A. Woznicki, Dina Boikov, Tina Aguin, Gurveer Gill, Robert A. Akins Carey-Ann D. T Identification of the OXA-48 Carbapenemase Family by Use of Tryptic Peptides e01240-18 Burnham Bacteriology and Liquid Chromatography-Tandem Mass Spectrometry Jeffrey R. Strich, Honghui Wang, Ousmane H. Cissé, Jung-Ho Youn, Steven K. Drake, Yong Chen, Avi Z. Rosenberg, Marjan Gucek, Patrick T. McGann, John P. Dekker, Anthony F. Suffredini Nathan A. T EDTA-Modified Carbapenem Inactivation Method: a Phenotypic Method for e01757-18 Ledeboer Bacteriology Detecting Metallo-␤-Lactamase-Producing Enterobacteriaceae M. M. Sfeir, J. A. Hayden, K. A. Fauntleroy, C. Mazur, J. K. Johnson, P. J. Simner, S. Das, M. J. Satlin, S. G. Jenkins, L. F. Westblade Sandra S. Richter T Evaluation of the MicroScan Colistin Well and Gradient Diffusion Strips for e01866-18 Bacteriology Colistin Susceptibility Testing in Enterobacteriaceae Joseph D. Lutgring, Anny Kim, Davina Campbell, Maria Karlsson, Allison C. Brown, Eileen M. Burd Karen C. Carroll T Antimicrobial Stewardship Opportunities in Patients with Bacteremia Not e01941-18 Bacteriology Identified by BioFire FilmArray P. Ny, A. Ozaki, J. Pallares, P. Nieberg, A. Wong-Beringer Daniel J. Diekema T Evaluation of the Aries Bordetella Assay for Detection and Identification of e01966-18 Bacteriology Bordetella pertussis in Nasopharyngeal Swab Specimens T. McMillen, H. Y. Chow, Shubhagata Das, Sherry A. Dunbar, N. E. Babady

MYCOBACTERIOLOGY AND AEROBIC ACTINOMYCETES Melissa B. Miller T A Simple Microﬂuidic Assay for Diagnosing Tuberculous Meningitis in HIV-Uninfected e01975-18 Mycobacteriology Patients Joung Ha Park, Choong Eun Jin, Bonhan Koo, Ji-Soo Kwon, Hye Hee Cha, Ji Yeun Kim, Geun Su Noh, Yong Seo Koo, Sang-Beom Jeon, Sang-Ahm Lee, Yong Shin, Sung-Han Kim

MYCOLOGY David W. Warnock T Evaluation of Aspergillus-Speciﬁc Lateral-Flow Device Test Using Serum and e00095-19 Mycology Bronchoalveolar Lavage Fluid for Diagnosis of Chronic Pulmonary Aspergillosis Takahiro Takazono, Yuya Ito, Masato Tashiro, Keitaro Nishimura, Tomomi Saijo, Kazuko Yamamoto, Yoshifumi Imamura, Taiga Miyazaki, Katsunori Yanagihara, Hiroshi Mukae, Koichi Izumikawa

May 2019 Volume 57 Issue 5 Journal of Clinical Microbiology jcm.asm.org iii CONTENTS • MAY 2019 • VOLUME 57, NO. 5

David W. Warnock T Reagent-Free Identification of Clinical Yeasts by Use of Attenuated Total e01739-18 Mycology Reflectance Fourier Transform Infrared Spectroscopy Lisa M. T. Lam, Philippe J. Dufresne, Jean Longtin, Jacqueline Sedman, Ashraf A. Ismail David W. Warnock T Evaluation of Mass Spectrometry-Based Detection of Panfungal Serum e01867-18 Mycology Disaccharide for Diagnosis of Invasive Fungal Infections: Results from a Collaborative Study Involving Six European Clinical Centers† Marjorie Cornu, Boualem Sendid, Alexandre Mery, Nadine François, Malgorzata Mikulska, Valérie Letscher-Bru, Elena De Carolis, Lauro Damonti, Marie Titecat, Pierre-Yves Bochud, Alexandre Alanio, Maurizio Sanguinetti, Claudio Viscoli, Raoul Herbrecht, Yann Guerardel, Daniel Poulain Geoffrey A. Land T Candida auris Isolates of the Southern Asian and South African Lineages Exhibit e02055-18 Mycology Different Phenotypic and Antifungal Susceptibility Profiles In Vitro Adrien Szekely, Andrew M. Borman, Elizabeth M. Johnson

PARASITOLOGY Michael J. T Comparison and Recommendations for Use of Dientamoeba fragilis Real-Time e01466-18 Loeffelholz Parasitology PCR Assays Rory Gough, John Ellis, Damien Stark Michael J. T Development of a Multiplexed Assay for Detection of Leishmania donovani and e02076-18 Loeffelholz Parasitology Leishmania infantum Protein Biomarkers in Urine Samples of Patients with Visceral Leishmaniasis Claudia Abeijon, Fabiana Alves, Severine Monnerat, Monique Wasunna, Jane Mbui, Agostinho G. Viana, Lilian L. Bueno, Williane F. Siqueira, Silvio G. Carvalho, Neha Agrawal, Ricardo Fujiwara, Shyam Sundar, Antonio Campos-Neto

VIROLOGY Angela M. CaliendoT Use of FTA Cards To Transport Throat Swabs and Oral Fluid Samples for e00048-19 Virology Molecular Detection and Genotyping of Measles and Rubella Viruses Bettina Bankamp, Carolyn Sein, Elisabeth Pukuta Simbu, Raydel Anderson, Emily Abernathy, Min-Hsin Chen, Jean-Jacques Muyembe Tamfum, Kathleen A. Wannemuehler, Diane Waku-Kouomou, Elena N. Lopareva, Joseph P. Icenogle, Paul A. Rota, James L. Goodson Yi-Wei Tang T Emergence of Parechovirus A4 Central Nervous System Infections among Infants e01698-18 Virology in Kansas City, Missouri, USA A. Sasidharan, C. J. Harrison, D. Banerjee, R. Selvarangan Yi-Wei Tang T Development of the TypeSeq Assay for Detection of 51 Human Papillomavirus e01794-18 Virology Genotypes by Next-Generation Sequencing Sarah Wagner, David Roberson, Joseph Boland, Meredith Yeager, Michael Cullen, Lisa Mirabello, S. Terence Dunn, Joan Walker, Rosemary Zuna, Mark Schiffman, Nicolas Wentzensen Yi-Wei Tang T Development of an Enzyme-Linked Immunosorbent Assay To Detect Antibodies e01892-18 Virology Targeting Recombinant Envelope Protein 2 of Mayaro Virus Marcílio Jorge Fumagalli, William Marciel de Souza, Marília Farignoli Romeiro, Michell Charles de Souza Costa, Renata Dezengrini Slhessarenko, Luiz Tadeu Moraes Figueiredo

iv jcm.asm.org Journal of Clinical Microbiology Volume 57 Issue 5 May 2019 CONTENTS • MAY 2019 • VOLUME 57, NO. 5

Michael J. T Impact of Early Antiretroviral Therapy on Detection of Cell-Associated HIV-1 e01922-18 Loeffelholz Virology Nucleic Acid in Blood by the Roche Cobas TaqMan Test Linda L. Jagodzinski, Mark M. Manak, Holly R. Hack, Ying Liu, Jennifer A. Malia, Joanna Freeman, Nittaya Phanuphak, Mark de Souza, Eugène D. Kroon, Donn J. Colby, Nitiya Chomchey, Michelle A. Lally, Nelson L. Michael, Jintanat Ananworanich, Sheila A. Peel, on behalf of the RV254/SEARCH010 Study Team

IMMUNOASSAYS Yi-Wei Tang T Development and Multicentric Validation of a Lateral Flow Immunoassay for e01454-18 Immunoassays Rapid Detection of MCR-1-Producing Enterobacteriaceae Hervé Volland, Laurent Dortet, Sandrine Bernabeu, Hervé Boutal, Marisa Haenni, Jean-Yves Madec, Frédéric Robin, Racha Beyrouthy, Thierry Naas, Stéphanie Simon

EPIDEMIOLOGY Daniel J. Diekema T Rapid Emergence, Subsidence, and Molecular Detection of Escherichia coli e01664-18 Epidemiology Sequence Type 1193-ﬁmH64, a New Disseminated Multidrug-Resistant Commensal and Extraintestinal Pathogen James R. Johnson, Brian D. Johnston, Stephen B. Porter, Connie Clabots, Tricia L. Bender, Paul Thuras, Darren J. Trott, Rowland Cobbold, Joanne Mollinger, Patricia Ferrieri, Sarah Drawz, Ritu Banerjee Karen C. Carroll T Multilocus Variable-Number Tandem-Repeat Analysis of Clostridioides difﬁcile e01724-18 Epidemiology Clusters in Ribotype 027 Isolates and Lack of Association with Clinical Outcomes Julian R. Garneau, Claire Nour Abou Chakra, Louis-Charles Fortier, Annie-Claude Labbé, Andrew E. Simor, Wayne Gold, Matthew Muller, Allison McGeer, Jeff Powis, Kevin Katz, Jacques Pépin, Louis Valiquette

LETTERS TO THE EDITOR David W. Warnock D Capability of Fluorescent Capillary Electrophoresis To Distinguish Species of the e00135-19 Letter Candida parapsilosis Complex Iva Kotásková, Hana Obrucˇova, Veronika Lýcˇková, Filip Ru˚žicˇka, Tomáš Freiberger

David W. Warnock D Comparable Serum and Plasma 1,3-␤-D-Glucan Values Obtained Using the Wako e00149-19 Letter ␤-Glucan Test in Patients with Probable or Proven Fungal Diseases Elena De Carolis, Federica Marchionni, Riccardo Torelli, Patrizia Posteraro, Gennaro De Pascale, Simone Carelli, Maurizio Sanguinetti, Brunella Posteraro Andrew B. D New Variant of Vibrio cholerae O139 in Odisha, India e01877-18 Onderdonk Letter Bibhuti Bhusan Pal, Anima Mohanty, BhagyaLaxmi Biswal, Smruti Ranjan Nayak

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