Detection of Shigella in direct stool specimens using a metagenomic approach 1 2 Jie Liu 1,* , Mathieu Almeida 2,4,* , Furqan Kabir 3,* , Sadia Shakoor 3 , Shahida Qureshi 3 , Anita Zaidi 3 , 3 Shan Li 4 , Boubou Tamboura 5 , Samba O Sow 5 , Inacio Mandomando 6 , Pedro L Alonso 6 , 4 Thandavarayan Ramamurthy 7 , Dipika Sur 7 , Karen Kotloff 4 , James Nataro 8 , Myron M Levine 4 , 5 O. Colin Stine 4, # , Eric Houpt 1,# 6 7 1 Division of Infectious Diseases and International Health, University of Virginia, Charlottesville, 8 Virginia, United States of America 9 2 Center for Bioinformatics and Computational Biology, University of Maryland, College Park, 10 Maryland, United States of America 11 3 Aga Khan University, Karachi, Pakistan 12 4 School of Medicine, University of Maryland, Baltimore, Maryland, United States of America 13 5 Centre pour le Développement des Vaccins, Bamako, Mali 14 6 Centro de Investigação em Saúde da Manhiça, Maputo, Mozambique 15 7 National Institute of Cholera and Enteric Diseases, Kolkata, India 16 8 Department of Pediatrics, University of Virginia, Charlottesville, Virginia 17 18 *,# Contributed equally 19 Corresponding Authors: 20 Eric Houpt, University of Virginia, Charlottesville, Virginia, Tel: 434-243-9326, Email: 21 erh6k@virginia.edu; O. Colin Stine, University of Maryland, Baltimore, Maryland, Tel: 410- 22 706-1607, Email: cstine@som.umaryland.edu 23 JCM Accepted Manuscript Posted Online 8 November 2017 J. Clin. Microbiol. doi:10.1128/JCM.01374-17 Copyright © 2017 Liu et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license. on November 12, 2017 by AGA KHAN UNIV http://jcm.asm.org/ Downloaded from