Application of next-generation sequencing to study ascitic microbiome in cirrhotic patients with or without spontaneous bacterial peritonitis

Journal of Microbiology, Immunology and Infection - Tập 48 - Trang 504-509 - 2015
Ye Feng1,2, Chyi-Liang Chen3, Tsung-Hsing Chen4, Yi-Hua Liang3, Hsiu-Ling Chen3, Chun-Yen Lin4, Cheng-Hsun Chiu3,5,6
1Sir Run Run Shaw Hospital Zhejiang University School of Medicine, Hangzhou, China
2Institute for Translational Medicine, Zhejiang University School of Medicine, Hangzhou, China
3Molecular Infectious Disease Research Center, Chang Gung Memorial Hospital, Chang Gung University College of Medicine, Taoyuan, Taiwan
4Department of Gastroenterology and Hepatology, Chang Gung Memorial Hospital, Chang Gung University College of Medicine, Taoyuan, Taiwan
5Graduate Institute of Biomedical Sciences, Chang Gung University College of Medicine, Taoyuan, Taiwan
6Department of Pediatrics, Chang Gung Children's Hospital, Chang Gung University College of Medicine, Taoyuan, Taiwan

Tài liệu tham khảo

Fernandez, 2002, Bacterial infections in cirrhosis: epidemiological changes with invasive procedures and norfloxacin prophylaxis, Hepatology, 35, 140, 10.1053/jhep.2002.30082 Wong, 2005, Sepsis in cirrhosis: report on the 7th meeting of the International Ascites Club, Gut, 54, 718, 10.1136/gut.2004.038679 Moore, 2006, Guidelines on the management of ascites in cirrhosis, Gut, 55, vi1, 10.1136/gut.2006.099580 Runyon, 2009, Management of adult patients with ascites due to cirrhosis: an update, Hepatology, 49, 2087, 10.1002/hep.22853 Kallwitz, 2008, Ascites fluid lactoferrin: data emerges for a logical biomarker, Gastroenterology, 135, 731, 10.1053/j.gastro.2008.07.037 Parsi, 2008, Ascitic fluid lactoferrin for diagnosis of spontaneous bacterial peritonitis, Gastroenterology, 135, 803, 10.1053/j.gastro.2008.05.045 Appenrodt, 2010, Is detection of bacterial DNA in ascitic fluid of clinical relevance?, Eur J Gastroenterol Hepatol, 22, 1487, 10.1097/MEG.0b013e328340c43a Soriano, 2011, Bacterial DNA in the diagnosis of spontaneous bacterial peritonitis, Aliment Pharmacol Ther, 33, 275, 10.1111/j.1365-2036.2010.04506.x Such, 2002, Detection and identification of bacterial DNA in patients with cirrhosis and culture-negative, nonneutrocytic ascites, Hepatology, 36, 135, 10.1053/jhep.2002.33715 Vieira, 2007, Amplification of bacterial DNA does not distinguish patients with ascitic fluid infection from those colonized by bacteria, J Pediatr Gastroenterol Nutr, 44, 603, 10.1097/MPG.0b013e318031d602 Peterson, 2009, The NIH Human Microbiome Project, Genome Res, 19, 2317, 10.1101/gr.096651.109 Qin, 2010, A human gut microbial gene catalogue established by metagenomic sequencing, Nature, 464, 59, 10.1038/nature08821 Langmead, 2012, Fast gapped-read alignment with Bowtie 2, Nat Methods, 9, 357, 10.1038/nmeth.1923 Simpson, 1949, Measurement of diversity, Nature, 163, 688, 10.1038/163688a0 Bruns, 2009, Identification of bacterial DNA in neutrocytic and non-neutrocytic cirrhotic ascites by means of a multiplex polymerase chain reaction, Liver Int, 29, 1206, 10.1111/j.1478-3231.2009.02073.x Nobre, 2008, In-hospital mortality in spontaneous bacterial peritonitis: a new predictive model, Eur J Gastroenterol Hepatol, 20, 1176, 10.1097/MEG.0b013e32830607a2 Umgelter, 2009, Failure of current antibiotic first-line regimens and mortality in hospitalized patients with spontaneous bacterial peritonitis, Infection, 37, 2, 10.1007/s15010-008-8060-9 Dore, 2002, Helicobacter infection and spontaneous bacterial peritonitis, J Clin Microbiol, 40, 1121, 10.1128/JCM.40.3.1121.2002 Scheider, 1994, Ascites and secondary bacterial peritonitis associated with small bowel obstruction, Am J Gastroenterol, 89, 1238