当前位置： SCI文献检索 > DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE期刊下所有文献 > Assessing next-generation sequencing and 4 bioinformatics tools for detection of Enterovirus D68 and other respiratory viruses in clinical samples.

Assessing next-generation sequencing and 4 bioinformatics tools for detection of Enterovirus D68 and other respiratory viruses in clinical samples.

Abstract：

:We used 4 different bioinformatics algorithms to evaluate the application of a metagenomic shot-gun sequencing method in detection of Enterovirus D68 and other respiratory viruses in clinical specimens. Our data supported that next-generation sequencing, combined with improved bioinformatics tools, is practically feasible and useful for clinical diagnosis of viral infections.

journal_name

Diagn Microbiol Infect Dis

journal_title

Diagnostic microbiology and infectious disease

authors

Huang W,Wang G,Lin H,Zhuge J,Nolan SM,Vail E,Dimitrova N,Fallon JT

doi

10.1016/j.diagmicrobio.2016.01.013

subject

Has Abstract

pub_date

2016-05-01 00:00:00

pages

26-9

issue

1

eissn

0732-8893

issn

1879-0070

pii

S0732-8893(16)00032-8

journal_volume

85

pub_type

杂志文章

相关文献

DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE文献大全
  • High prevalence of virulent Helicobacter pylori strains in symptomatic Bulgarian patients.

    abstract：:The aim of the study was to evaluate the prevalence of main virulence genes in Helicobacter pylori strains from 116 patients with peptic ulcers (41 cases) and nonulcer diseases (75) by polymerase chain reaction (PCR) with pure cultures and to compare the results with those by multiplex PCR in 39 H. pylori-positive gas...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2009.04.005

    authors： Boyanova L,Markovska R,Yordanov D,Marina M,Ivanova K,Panayotov S,Gergova G,Mitov I

    更新日期：2009-08-01 00:00:00

  • Comparative in vitro assessment of sparfloxacin activity and spectrum using results from over 14,000 pathogens isolated at 190 medical centers in the USA. SPAR Study Group.

    abstract：:Sparfloxacin, a new orally administered fluoroquinolone, was tested against 14,182 clinical strains isolated (generally blood stream and respiratory tract cultures) at nearly 200 hospitals in the United States (USA) and Canada. Sparfloxacin activity was compared with 13 other compounds by Etest (AB BIODISK, Solna, Swe...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/s0732-8893(97)81807-x

    authors： Ballow CH,Jones RN,Johnson DM,Deinhart JA,Schentag JJ

    更新日期：1997-11-01 00:00:00

  • Major methodology-dependent discordant susceptibility results for Bacteroides fragilis group isolates but not other anaerobes.

    abstract：:Two standardized susceptibility test methods, a broth microdilution (BMD) and agar dilution (AD) method were performed on a total of 441 clinical isolates of anaerobes with ceftizoxime, cefotaxime, ceftriaxone, cefoxitin, piperacillin, and metronidazole. Against the 339 strains of the Bacteroides fragilis group BMD mi...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/0732-8893(94)90107-4

    authors： Aldridge KE,Schiro DD

    更新日期：1994-11-01 00:00:00

  • Evaluation of lateral flow assays for the detection of botulinum neurotoxin type A and their application in laboratory diagnosis of botulism.

    abstract：:Four lateral flow assays (LFAs) were evaluated for the detection of purified botulinum neurotoxin A, toxin complex, and unpurified culture supernatant. They included the BioThreat (Tetracore, Rockville, MD), SMART (New Horizons Diagnostics, Columbia, MD), BADD (ADVNT Biotechnologies, Phoenix, AZ), and RAMP (Response B...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2006.07.017

    authors： Gessler F,Pagel-Wieder S,Avondet MA,Böhnel H

    更新日期：2007-03-01 00:00:00

  • Comparison of BD Phoenix and bioMérieux Vitek 2 automated systems for the detection of macrolide-lincosamide-streptogramin B resistance among clinical isolates of Staphylococcus.

    abstract：:Two automated systems, BD Phoenix and bioMérieux Vitek 2, were compared to a double-disk diffusion method for the detection of inducible resistance to clindamycin in Staphylococcus spp. Analysis of 524 clinical isolates revealed sensitivity and specificity of 100% and 99.6%, respectively, for Phoenix and 91.1% and 99....

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2011.12.003

    authors： Buchan BW,Anderson NW,Ledeboer NA

    更新日期：2012-03-01 00:00:00

  • Evaluation of Etest for determining in vitro susceptibility of yeast isolates to amphotericin B.

    abstract：:We evaluated the performance of Etest using several different agar media for testing of amphotericin B against 660 clinical isolates of yeast species including Candida albicans, C. glabrata, C. tropicalis, C. parapsilosis, C. lusitaniae, C. krusei, Candida spp., Cryptococcus neoformans, and Saccharomyces cerevisiae. T...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/s0732-8893(98)00120-5

    authors： Pfaller MA,Messer SA,Bolmström A

    更新日期：1998-11-01 00:00:00

  • A novel OXA-10-like beta-lactamase is present in different Enterobacteriaceae.

    abstract：:OXA 101, a novel OXA-10 like enzyme, was found forming part of a class 1 integron located in a conjugative plasmid in three different species of Enterobacteriaceae. This beta-lactamase is related to OXA-35 and OXA-56 and displays a narrow substrate hydrolysis profile. ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2009.09.010

    authors： Porto A,Ayala J,Gutkind G,Di Conza J

    更新日期：2010-02-01 00:00:00

  • In vitro activity of tigecycline against isolates collected from complicated skin and skin structure infections and intra-abdominal infections in Africa and Middle East countries: TEST 2007-2012.

    abstract：:Complicated skin and skin structure infections (cSSSIs) and intra-abdominal infections (IAIs) are problematic due to decreasing therapeutic options available against multidrug-resistant pathogens common among these types of infections. A total of 2245 isolates from African and the Middle Eastern (AfME) countries were ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2014.01.017

    authors： Renteria MI,Biedenbach DJ,Bouchillon SK,Hoban DJ,Raghubir N,Sajben P,Mokaddas E

    更新日期：2014-05-01 00:00:00

  • Pharmacodynamic comparisons of antimicrobials against nosocomial isolates of escherichia coli, klebsiella pneumoniae, acinetobacter baumannii and pseudomonas aeruginosa from the MYSTIC surveillance program: the OPTAMA Program, South America 2002.

    abstract：:The OPTAMA (Optimizing Pharmacodynamic Target Attainment using the MYSTIC [Meropenem Yearly Susceptibility Test Information Collection] Antibiogram) Program provides insight into the appropriate antibiotic options for empiric therapy for common nosocomial pathogens. In this report, South America is represented by Braz...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2004.03.003

    authors： Kiffer CR,Mendes C,Kuti JL,Nicolau DP

    更新日期：2004-06-01 00:00:00

  • Population structure of invasive Streptococcus pneumoniae isolates among Alaskan children in the conjugate vaccine era, 2001 to 2013.

    abstract：:Here we describe the relationships between serotypes, genotypes, and antimicrobial susceptibility among isolates causing invasive pneumococcal disease in Alaskan children during the pneumococcal conjugate vaccine (PCV) era. From 2001 to 2013 we received 271 isolates representing 33 serotypes. The most common serotypes...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2016.07.004

    authors： Miernyk KM,Bulkow LR,Case SL,Zulz T,Bruce MG,Harker-Jones M,Hurlburt DA,Hennessy TW,Rudolph KM

    更新日期：2016-10-01 00:00:00

  • Comparative evaluation of 3 selective media for primary isolation of Helicobacter pylori from gastric biopsies under routine conditions.

    abstract：:This study evaluates 3 selective media (Pylori agar [bioMérieux, France], BD Helicobacter agar, modified [Becton Dickinson, USA], and an in-house medium) designed for Helicobacter pylori isolation. Ninety-eight strains were isolated from 400 gastric biopsies. The media were equally efficient for Helicobacter pylori's ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2010.08.009

    authors： Miendje Deyi VY,Van den Borre C,Fontaine V

    更新日期：2010-12-01 00:00:00

  • Serological response to plasmid-encoded antigens in children and adults with shigellosis.

    abstract：:The immunological response to plasmid-encoded antigens of virulent Shigella was determined in Thai children less than 4 yr of age and in Thai adults by immunoblot analysis and ELISA. Forty-two percent (8/19) of Thai children and 4% (1/22) of Thai adults with shigellosis developed a greater than or equal to 4-fold rise...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/0732-8893(88)90043-0

    authors： Echeverria P,Hanchalay S,Taylor DN

    更新日期：1988-06-01 00:00:00

  • Pharmacokinetic/pharmacodynamic profile for tigecycline-a new glycylcycline antimicrobial agent.

    abstract：:Tigecycline is a new first-in-class glycylcycline antimicrobial agent with expanded broad-spectrum activity against both Gram-negative and Gram-positive aerobes and anaerobes, as well as atypical bacterial species. The spectrum of activity extends to clinically relevant susceptible and multidrug-resistant strains of S...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章,评审

    doi：10.1016/j.diagmicrobio.2005.05.006

    authors： Meagher AK,Ambrose PG,Grasela TH,Ellis-Grosse EJ

    更新日期：2005-07-01 00:00:00

  • Activity of doripenem with and without levofloxacin, amikacin, and colistin against Pseudomonas aeruginosa and Acinetobacter baumannii.

    abstract：:At 24 h, sub-MIC doripenem and levofloxacin showed synergy against 21 of 25 Pseudomonas aeruginosa strains, sub-MIC doripenem and amikacin against 22 isolates, and sub-MIC doripenem and colistin against 19 isolates. Of 25 Acinetobacter baumannii strains, sub-MIC doripenem and levofloxacin showed synergy against 11 str...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2010.01.004

    authors： Pankuch GA,Seifert H,Appelbaum PC

    更新日期：2010-06-01 00:00:00

  • Epidemiology and antimicrobial susceptibilities of wound isolates of obligate anaerobes from combat casualties.

    abstract：:Data from recent conflicts related to war wounds and obligate anaerobes are limited. We define the epidemiology and antimicrobial susceptibility of obligate anaerobes from Iraq and Afghanistan casualties (6/2009-12/2013), as well as their association with clinical outcomes. Susceptibility against eleven antibiotics (7...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2015.10.010

    authors： White BK,Mende K,Weintrob AC,Beckius ML,Zera WC,Lu D,Bradley W,Tribble DR,Schnaubelt ER,Murray CK,Infectious Disease Clinical Research Program Trauma Infectious Disease Outcome Study Group.

    更新日期：2016-02-01 00:00:00

  • Effect of treatment of shell vial cell cultures with dimethyl sulfoxide and dexamethasone and age of MRC-5 monolayers for detection of cytomegalovirus.

    abstract：:Pretreatment of MRC-5 cell monolayers in commercially prepared shell vials with 1% dimethyl sulfoxide (DMSO) and 10(-5) mol/L dexamethasone (DEX) was evaluated. Preliminary experiments indicated enhanced infectivity of AD-169 for pretreated MRC-5 cells in shell vials of ages 9 and 16 days. Compared with untreated shel...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/0732-8893(90)90052-w

    authors： Fedorko DP,Ilstrup DM,Smith TF

    更新日期：1990-01-01 00:00:00

  • T2 Candida versus beta-D-glucan to facilitate antifungal discontinuation in the intensive care unit.

    abstract：:T2 Magnetic Resonance Candida Panel (T2MR) detects Candida directly in blood. Rapid turnaround time and high negative predictive value make it a useful diagnostic test to support antifungal discontinuation. This retrospective quasi-experiment compared empiric anidulafungin days of therapy (DOTs) in intensive care unit...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2019.04.016

    authors： Gill CM,Kenney RM,Hencken L,Mlynarek ME,Alangaden GJ,Samuel LP,Davis SL

    更新日期：2019-10-01 00:00:00

  • An evaluation of a leukocyte esterase/nitrite test strip and a bioluminescence assay for detection of bacteriuria.

    abstract：:A leukocyte esterase/nitrite (Chemstrip LNTM) and a bioluminescence assay (LumacTM) were evaluated for detection of bacteriuria in 1,000 urine specimens. Both devices provided high predictive negative values (95.4-97.8%); however, false-negative values at levels of bacteriuria greater than or equal to 10(4) CFU/ml wer...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/0732-8893(85)90023-9

    authors： Hughes JG,Snyder RJ,Washington JA 2nd

    更新日期：1985-03-01 00:00:00

  • Rapid urine antigen testing for Streptococcus pneumoniae in adults with community-acquired pneumonia: clinical use and barriers.

    abstract：:Streptococcus pneumoniae (pneumococcus) is the most common bacterial etiology of community-acquired pneumonia (CAP) in adults, a leading cause of death. The majority of pneumococcal CAP is diagnosed by blood culture, which likely underestimates the burden of disease. The 2007 CAP guidelines recommend routine use of th...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2014.05.008

    authors： Harris AM,Beekmann SE,Polgreen PM,Moore MR

    更新日期：2014-08-01 00:00:00

  • Reassessment of the incubation time in a controlled clinical comparison of the BacT/Alert aerobic FAN bottle and standard anaerobic bottle used aerobically for the detection of bloodstream infections.

    abstract：:This study assessed the minimum incubation time required to detect bloodstream infections during a controlled clinical comparison of the performance characteristics of the BacT/Alert aerobic FAN bottle and the standard anaerobic bottle used aerobically except on a selective basis. Blood was collected from adults with ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 临床试验,杂志文章

    doi：10.1016/s0732-8893(98)00057-1

    authors： Cornish N,Kirkley BA,Easley KA,Washington JA

    更新日期：1998-09-01 00:00:00

  • Bipolaris oryzae, a novel fungal opportunist causing keratitis.

    abstract：:We report a case of mycotic keratitis caused by Bipolaris oryzae with predisposing trauma from a foreign body. The fungus was identified by sequencing the internal transcribed spacer region, translation elongation factor 1α (TEF1) gene, and partial glyceraldehyde-3-phosphate dehydrogenase (GPDH) gene, and the species ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2015.11.020

    authors： Wang L,Al-Hatmi AM,Lai X,Peng L,Yang C,Lai H,Li J,Meis JF,de Hoog GS,Zhuo C,Chen M

    更新日期：2016-05-01 00:00:00

  • Use of 2 pneumococcal common protein real-time polymerase chain reaction assays in healthy children colonized with Streptococcus pneumoniae.

    abstract：:Polymerase chain reaction (PCR) offers promise in pneumococcal diagnostics, but whether nasopharyngeal carriage causes false-positive results in people colonized with Streptococcus pneumoniae is unknown. We found in serum no positive samples for pneumococcal DNA in 100 carriers and noncarriers using 2 different real-t...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2010.09.006

    authors： Rouphael N,Steyn S,Bangert M,Sampson JS,Adrian P,Madhi SA,Klugman KP,Ades EW

    更新日期：2011-08-01 00:00:00

  • Prediction of community-onset bacteremia among febrile adults visiting an emergency department: rigor matters.

    abstract：OBJECTIVES:Bacteremia is a severe bacterial infection with significant mortality and morbidity. Clinical parameters that reliably predict the presence of community-onset bacteremia are less elucidated. METHODS:During 96 randomly selected days between August 2006 and July 2007, a prospective study was conducted to anal...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2012.02.009

    authors： Lee CC,Wu CJ,Chi CH,Lee NY,Chen PL,Lee HC,Chang CM,Ko NY,Ko WC

    更新日期：2012-06-01 00:00:00

  • In vitro activity of linezolid as assessed through the 2013 LEADER surveillance program.

    abstract：:The 2013 LEADER surveillance program monitored the in vitro activity of linezolid and comparator agents against Gram-positive bacteria at 60 medical centers in the United States. A total of 7183 pathogens were contributed from 6 predetermined pathogen groups. The groups were Staphylococcus aureus, coagulase-negative s...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2014.12.009

    authors： Flamm RK,Mendes RE,Hogan PA,Ross JE,Farrell DJ,Jones RN

    更新日期：2015-04-01 00:00:00

  • In vitro susceptibility and synergy studies of Aspergillus species to conventional and new agents.

    abstract：:In vitro susceptibility data using a macrodilution broth method on greater than 100 isolates of Aspergillus spp. are presented. For amphotericin B (Amp B) (n = 105), 67% had minimum inhibitory concentrations (MICs) less than or equal to 2 micrograms/ml, and 90% had MICs less than or equal to 4 micrograms/ml; for 5-flu...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/0732-8893(92)90053-v

    authors： Denning DW,Hanson LH,Perlman AM,Stevens DA

    更新日期：1992-01-01 00:00:00

  • Expansion of the E138A mutation in newly diagnosed HIV-infected patients in Gran Canaria.

    abstract：:Molecular epidemiology allows us to know local HIV transmission and to design strategies of prevention. We studied 25 HIV newly diagnosed patients with the E138A mutation since the year 2010. Most transmission networks involved young and promiscuous men who have sex with men. Recent infection was only documented in pa...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2016.06.014

    authors： Chamizo F,Gilarranz R,Tosco T,Carrillo D,Holguín Á,Santana É,Pérez-Arellano JL,Hernández M,Francés A,Cárdenes MÁ,Zarzalejos JM,Pena-López MJ

    更新日期：2016-09-01 00:00:00

  • Low intrathecal immune response of anti-EBNA-1 antibodies and EBV DNA from multiple sclerosis patients.

    abstract：:Numerous studies have been carried out to determine whether an Epstein-Barr virus (EBV) infection can be considered a risk factor for multiple sclerosis (MS), following the evidence of an increase in IgG response to nuclear antigen-1 (EBNA-1) in both serum and cerebrospinal fluid (CSF) from MS patients. However, the p...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2010.11.013

    authors： Villegas E,Santiago O,Carrillo JA,Sorlózano A,Guerrero M,Fernández O,Gutiérrez J

    更新日期：2011-05-01 00:00:00

  • Reproducibility of positive results for rare pathogens on the FilmArray GI Panel.

    abstract：:Though the FilmArray GI Panel has a reported aggregate specificity and reproducibility of >97% and > 99%, respectively, the reproducibility is less understood in clinical practice. We measured the reproducibility of positive results for low-prevalence pathogens. Samples with positive results for selected targets were ...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/j.diagmicrobio.2019.03.013

    authors： Hitchcock MM,Hogan CA,Budvytiene I,Banaei N

    更新日期：2019-09-01 00:00:00

  • Urine D-arabinitol/L-arabinitol ratio in diagnosing Candida infection in patients with haematological malignancy and HIV infection.

    abstract：:Adult patients with hematologic malignancies along with HIV infected patients were prospectively studied to determine the performance of urine D-arabinitol/L-arabinitol (DA/LA) ratio in diagnosing invasive candidiasis. Ten evaluable febrile neutropenic patients had proven invasive candidiasis and elevated DA/LA ratios...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章

    doi：10.1016/s0732-8893(01)00310-8

    authors： Eisen DP,Bartley PB,Hope W,Sigmundsdottir G,Pehrson C,Larsson L,Christensson B

    更新日期：2002-01-01 00:00:00

  • Antimicrobial resistance among uropathogens that cause acute uncomplicated cystitis in women in Hong Kong: a prospective multicenter study in 2006 to 2008.

    abstract：:A prospective multicenter study was conducted to assess the epidemiology of antimicrobial resistance among uropathogens causing uncomplicated cystitis. Adult women with clinical diagnosis of uncomplicated cystitis were enrolled from 54 participating centers distributed all over Hong Kong during 2006 to 2008. A positiv...

    journal_title：Diagnostic microbiology and infectious disease

    pub_type： 杂志文章,多中心研究

    doi：10.1016/j.diagmicrobio.2009.03.027

    authors： Ho PL,Yip KS,Chow KH,Lo JY,Que TL,Yuen KY

    更新日期：2010-01-01 00:00:00