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16S metagenomics for diagnosis of bloodstream infections: opportunities and pitfalls

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Pages 749-759 | Received 11 Apr 2018, Accepted 06 Jul 2018, Published online: 18 Jul 2018

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Simon Hosbond Poulsen, Kirstine Kobberøe Søgaard, Kurt Fuursted & Hans Linde Nielsen. (2023) Evaluating the diagnostic accuracy and clinical utility of 16S and 18S rRNA gene targeted next-generation sequencing based on five years of clinical experience. Infectious Diseases 0:0, pages 1-9.
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Dongsheng Han, Ziyang Li, Rui Li, Ping Tan, Rui Zhang & Jinming Li. (2019) mNGS in clinical microbiology laboratories: on the road to maturity. Critical Reviews in Microbiology 45:5-6, pages 668-685.
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Articles from other publishers (19)

Dengfeng Wu, Wei Wang, Qiufen Xun, Hongluan Wang, Jiarong Liu, Ziqing Zhong, Chao Ouyang & Qing Yang. (2022) Metagenomic next-generation sequencing indicates more precise pathogens in patients with pulmonary infection: A retrospective study. Frontiers in Cellular and Infection Microbiology 12.
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Qingmei Deng, Yongqing Cao, Xiaofeng Wan, Bin Wang, Aimin Sun, Huanzhong Wang, Yunfei Wang, Hongzhi Wang & Hongcang Gu. (2022) Nanopore-based metagenomic sequencing for the rapid and precise detection of pathogens among immunocompromised cancer patients with suspected infections. Frontiers in Cellular and Infection Microbiology 12.
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Mariam Doualeh, Matthew Payne, Edward Litton, Edward Raby & Andrew Currie. (2022) Molecular Methodologies for Improved Polymicrobial Sepsis Diagnosis. International Journal of Molecular Sciences 23:9, pages 4484.
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Qian Li, Wenhua Huang, Shengwei Zhang, Yuling Zheng, Qingyu Lv, Decong Kong, Lei Zhang, Yan Zhang, Zhihu Zhao, Miaoyu Wang, Hua Jiang, Peng Liu & Yongqiang Jiang. (2022) Target-enriched sequencing enables accurate identification of bloodstream infections in whole blood. Journal of Microbiological Methods 192, pages 106391.
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Sikao Wu, Xuewen Ding, Ying Kong, Sanam Acharya, Huaqian Wu, Chunning Huang, Yuanyuan Liang, Xianxian Nong & Hong Chen. (2021) The feature of cervical microbiota associated with the progression of cervical cancer among reproductive females. Gynecologic Oncology 163:2, pages 348-357.
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Yan Zheng, Xiaojian Qiu, Ting Wang & Jie Zhang. (2021) The Diagnostic Value of Metagenomic Next–Generation Sequencing in Lower Respiratory Tract Infection. Frontiers in Cellular and Infection Microbiology 11.
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Gangfeng Yan, Jing Liu, Weiming Chen, Yang Chen, Ye Cheng, Jinhao Tao, Xiaodi Cai, Yang Zhou, Yixue Wang, Mingbang Wang & Guoping Lu. (2021) Metagenomic Next-Generation Sequencing of Bloodstream Microbial Cell-Free Nucleic Acid in Children With Suspected Sepsis in Pediatric Intensive Care Unit. Frontiers in Cellular and Infection Microbiology 11.
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Rossella Baldan, Penelope R. Cliff, Sarah Burns, Adela Medina, Graeme C. Smith, Rahul Batra, Alberto Cerda, Rebekah Wilson, Tammy Merrill, Shona J. Lewis, Amita Patel, Dakshika Jeyaratnam, Duncan L. Wyncoll, Nicholas Barrett, Meera A. Chand & Jonathan D. Edgeworth. (2021) Development and evaluation of a nanopore 16S rRNA gene sequencing service for same day targeted treatment of bacterial respiratory infection in the intensive care unit. Journal of Infection 83:2, pages 167-174.
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Anna Maria Peri, Adam Stewart, Anna Hume, Adam Irwin & Patrick N A Harris. (2021) New Microbiological Techniques for the Diagnosis of Bacterial Infections and Sepsis in ICU Including Point of Care. Current Infectious Disease Reports 23:8.
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Yan-Chiao Mao, Han-Ni Chuang, Chien-Hung Shih, Han-Hsueh Hsieh, Yu-Han Jiang, Liao-Chun Chiang, Wen-Loung Lin, Tzu-Hung Hsiao & Po-Yu Liu. (2021) An investigation of conventional microbial culture for the Naja atra bite wound, and the comparison between culture-based 16S Sanger sequencing and 16S metagenomics of the snake oropharyngeal bacterial microbiota. PLOS Neglected Tropical Diseases 15:4, pages e0009331.
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Alexandra Corduneanu, Andrei Daniel Mihalca, Attila D. Sándor, Sándor Hornok, Maja Malmberg, Natalia Pin Viso & Erik Bongcam-Rudloff. (2021) The heart microbiome of insectivorous bats from Central and South Eastern Europe. Comparative Immunology, Microbiology and Infectious Diseases 75, pages 101605.
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Ankur Kaul, Dimple Sethi Chopra, Abhishek Thakur, Pranav Shah & A. K. Mishra. 2021. Strategies to Overcome Superbug Invasions. Strategies to Overcome Superbug Invasions 16 32 .
承成 何. (2021) A Review of the Value of Next-Generation Sequencing in the Diagnosis of Lower Respiratory Tract Infection. Advances in Clinical Medicine 11:06, pages 2521-2525.
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Matteo Bassetti, Elda Righi & Murat Akova. 2021. Infection Management in Hematology. Infection Management in Hematology 161 179 .
Shamim A. Sinnar & Steven J. Schiff. (2020) The Problem of Microbial Dark Matter in Neonatal Sepsis. Emerging Infectious Diseases 26:11, pages 2543-2548.
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Karim Hayoun, Olivier Pible, Pauline Petit, François Allain, Virginie Jouffret, Karen Culotta, Corinne Rivasseau, Jean Armengaud & Béatrice Alpha-Bazin. (2020) Proteotyping Environmental Microorganisms by Phylopeptidomics: Case Study Screening Water from a Radioactive Material Storage Pool. Microorganisms 8:10, pages 1525.
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Adriana Sanabria, Erik Hjerde, Mona Johannessen, Johanna Ericson Sollid, Gunnar Skov Simonsen & Anne-Merethe Hanssen. (2020) Shotgun-Metagenomics on Positive Blood Culture Bottles Inoculated With Prosthetic Joint Tissue: A Proof of Concept Study. Frontiers in Microbiology 11.
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Pao-Jen Kuo, Cheng-Shyuan Rau, Shao-Chun Wu, Tsu-Hsiang Lu, Yi-Chan Wu, Peng-Chen Chien, Chia-Jung Wu, Chia-Wei Lin, Chia-Wen Tsai, Ching-Hua Hsieh & Chun-Ying Huang. (2019) Metagenomic analysis of the effects of toll-like receptors on bacterial infection in the peritoneal cavity following cecum ligation and puncture in mice. PLOS ONE 14:7, pages e0220398.
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Alexander L Greninger & Samia N Naccache. (2019) Metagenomics to Assist in the Diagnosis of Bloodstream Infection. The Journal of Applied Laboratory Medicine 3:4, pages 643-653.
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