Target amplification for broad spectrum microbial diagnostics and detection

被引:9
作者
Leski, Tomasz A. [1 ,2 ]
Malanoski, Anthony P. [1 ]
Stenger, David A. [1 ]
Lin, Baochuan [1 ]
机构
[1] USN, Res Lab, Ctr Bio Mol Sci & Engn, Washington, DC 20375 USA
[2] Nova Res Inc, Alexandria, VA USA
关键词
16S rRNA; microarrays; multiplex PCR; random amplification; small subunit rRNA; strand displacement amplification; whole genome amplification; WHOLE-GENOME AMPLIFICATION; 16S RIBOSOMAL-RNA; MICROARRAY-BASED DETECTION; MULTIPLE DISPLACEMENT AMPLIFICATION; RESPIRATORY-TRACT INFECTIONS; BASE STACKING HYBRIDIZATION; OLIGONUCLEOTIDE MICROARRAY; DNA MICROARRAY; PATHOGEN DETECTION; BACTERIAL PATHOGENS;
D O I
10.2217/FMB.09.126
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Microarrays are massively parallel detection platforms that were first used extensively for gene expression studies, but have also been successfully applied to microbial detection in a number of diverse fields requiring broad-range microbial identification, This technology has enabled researchers to gain an insight into the microbial diversity of environmental samples, facilitated discovery of a number of new pathogens and enabled studies of multipathogen infections. In contrast to gene expression studies, the concentrations of targets in analyzed samples for microbial detection are usually much lower, and require the use of nucleic acid amplification techniques, The rapid advancement of manufacturing technologies has increased the content of the microarrays; thus, the required amplification is a challenging problem. The constant parallel improvements in both microarray and sample amplification techniques in the near future may lead to a radical progression in medical diagnostics and systems for efficient detection of microorganisms in the environment.
引用
收藏
页码:191 / 203
页数:13
相关论文
共 124 条
[71]   Use of semiconductor-based oligonucleotide microarrays for influenza A virus subtype identification and sequencing [J].
Lodes, MJ ;
Suciu, D ;
Elliott, M ;
Stover, AG ;
Ross, M ;
Caraballo, M ;
Dix, K ;
Crye, J ;
Webby, RJ ;
Lyon, WJ ;
Danley, DL ;
McShea, A .
JOURNAL OF CLINICAL MICROBIOLOGY, 2006, 44 (04) :1209-1218
[72]   Quantitative evaluation by minisequencing and microarrays reveals accurate multiplexed SNP genotyping of whole genome amplified DNA -: art. no. e129 [J].
Lovmar, L ;
Fredriksson, M ;
Liljedahl, U ;
Sigurdsson, S ;
Syvänen, AC .
NUCLEIC ACIDS RESEARCH, 2003, 31 (21) :e129
[73]   Highly parallel microbial diagnostics using oligonucleotide microarrays [J].
Loy, A ;
Bodrossy, L .
CLINICA CHIMICA ACTA, 2006, 363 (1-2) :106-119
[74]   DNA microarrays in the clinic: infectious diseases [J].
Mikhailovich, Vladimir ;
Gryadunov, Dmitry ;
Kolchinsky, Alexander ;
Makarov, Alexander A. ;
Zasedatelev, Alexander .
BIOESSAYS, 2008, 30 (07) :673-682
[75]   Different influences of DNA purity indices and quantity on PCR-based DGGE and functional gene microarray in soil microbial community study [J].
Ning, Jing ;
Liebich, Jost ;
Kaestner, Matthias ;
Zhou, Jizhong ;
Schaeffer, Andreas ;
Burauel, Peter .
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2009, 82 (05) :983-993
[76]   DNA microarray technique for detection and identification of seven Flaviviruses pathogenic for man [J].
Nordström, H ;
Falk, KI ;
Lindegren, G ;
Mouzavi-Jazi, M ;
Waldén, A ;
Elgh, F ;
Nilsson, P ;
Lundkvist, A .
JOURNAL OF MEDICAL VIROLOGY, 2005, 77 (04) :528-540
[77]   Oligonucleotide microarray for identification of Bacillus anthracis based on intergenic transcribed spacers in ribosomal DNA [J].
Nübel, U ;
Schmidt, PM ;
Reiss, E ;
Bier, F ;
Beyer, W ;
Naumann, D .
FEMS MICROBIOLOGY LETTERS, 2004, 240 (02) :215-223
[78]   Development of a DNA microarray for the simultaneous detection and genotyping of noroviruses [J].
Pagotto, Franco ;
Corneau, Nathalie ;
Mattison, Kirsten ;
Bidawid, Sabah .
JOURNAL OF FOOD PROTECTION, 2008, 71 (07) :1434-1441
[79]   Panmicrobial oligonucleotide array for diagnosis of infectious diseases [J].
Palacios, Gustavo ;
Quan, Phenix-Lan ;
Jabado, Omar J. ;
Conlan, Sean ;
Hirschberg, David L. ;
Liu, Yang ;
Zhai, Junhui ;
Renwick, Neil ;
Hui, Jeffrey ;
Hegyi, Hedi ;
Grolla, Allen ;
Strong, James E. ;
Towner, Jonathan S. ;
Geisbert, Thomas W. ;
Jahrling, Peter B. ;
Buechen-Osmond, Cornelia ;
Ellerbrok, Heinz ;
Sanchez-Seco, Maria Paz ;
Lussier, Yves ;
Formenty, Pierre ;
Nichol, Stuart T. ;
Feldmann, Heinz ;
Briese, Thomas ;
Lipkin, W. Ian .
EMERGING INFECTIOUS DISEASES, 2007, 13 (01) :73-81
[80]   Detection of pathogenic Vibrio spp. in shellfish by using multiplex PCR and DNA microarrays [J].
Panicker, G ;
Call, DR ;
Krug, MJ ;
Bej, AK .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2004, 70 (12) :7436-7444