PCR-Denaturing Gradient Gel Electrophoresis of Complex Microbial Communities: A Two-Step Approach to Address the Effect of Gel-to-Gel Variation and Allow Valid Comparisons Across a Large Dataset

[1]  C. Hajdu,et al.  DGGE and T-RFLP Analysis of Bacterial Succession during Mushroom Compost Production and Sequence-aided T-RFLP Profile of Mature Compost , 2009, Microbial Ecology.

[2]  F. V. D. van den Berg,et al.  Investigating the fermentation of cocoa by correlating denaturing gradient gel electrophoresis profiles and near infrared spectra. , 2008, International journal of food microbiology.

[3]  G. Abell,et al.  Bacterial population dynamics and faecal short-chain fatty acid (SCFA) concentrations in healthy humans , 2008, British Journal of Nutrition.

[4]  J. Gill,et al.  Effects of zinc bacitracin, bird age and access to range on bacterial microbiota in the ileum and caeca of broiler chickens , 2008, Journal of applied microbiology.

[5]  J. Zentek,et al.  Effects of dietary inulin on the intestinal short chain fatty acids and microbial ecology in broiler chickens as revealed by denaturing gradient gel electrophoresis. , 2008, Poultry science.

[6]  B. Wang,et al.  The immediate environment during postnatal development has long-term impact on gut community structure in pigs , 2008, The ISME Journal.

[7]  Haifeng Lu,et al.  Symbiotic gut microbes modulate human metabolic phenotypes , 2008, Proceedings of the National Academy of Sciences.

[8]  C. Pedrós-Alió,et al.  Comparison of Different Denaturing Gradient Gel Electrophoresis Primer Sets for the Study of Marine Bacterioplankton Communities , 2007, Applied and Environmental Microbiology.

[9]  Y. Roggo,et al.  A review of near infrared spectroscopy and chemometrics in pharmaceutical technologies. , 2007, Journal of pharmaceutical and biomedical analysis.

[10]  H. Heuer,et al.  Bacterial diversity of soils assessed by DGGE, T-RFLP and SSCP fingerprints of PCR-amplified 16S rRNA gene fragments: do the different methods provide similar results? , 2007, Journal of microbiological methods.

[11]  C. Pedrós-Alió,et al.  Seasonality in bacterial diversity in north-west Mediterranean coastal waters: assessment through clone libraries, fingerprinting and FISH. , 2007, FEMS microbiology ecology.

[12]  D. Penn,et al.  Murine scent mark microbial communities are genetically determined. , 2007, FEMS microbiology ecology.

[13]  C. Nakatsu Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis , 2007 .

[14]  J. Thies MOLECULAR METHODS FOR STUDYING SOIL ECOLOGY , 2007 .

[15]  A. Nocker,et al.  Genotypic Microbial Community Profiling: A Critical Technical Review , 2007, Microbial Ecology.

[16]  C. Maffeis,et al.  Lactobacillus paracasei A survives gastrointestinal passage and affects the fecal microbiota of healthy infants. , 2006, Research in microbiology.

[17]  J. Sanderson,et al.  Molecular characterization of the bacteria adherent to human colorectal mucosa , 2006, Journal of applied microbiology.

[18]  J. Prosser,et al.  Links between Plant and Rhizoplane Bacterial Communities in Grassland Soils, Characterized Using Molecular Techniques , 2005, Applied and Environmental Microbiology.

[19]  D. Rizzo,et al.  A multivariate statistical approach to spatial representation of groundwater contamination using hydrochemistry and microbial community profiles. , 2005, Environmental science & technology.

[20]  J. Neufeld,et al.  Fluorophore-Labeled Primers Improve the Sensitivity, Versatility, and Normalization of Denaturing Gradient Gel Electrophoresis , 2005, Applied and Environmental Microbiology.

[21]  Cindy J. Smith,et al.  Molecular microbial ecology , 2005 .

[22]  J. V. van Elsas,et al.  Multivariate Analyses of Burkholderia Species in Soil: Effect of Crop and Land Use History , 2004, Applied and Environmental Microbiology.

[23]  A. Felske,et al.  DNA fingerprinting of microbial communities , 2004 .

[24]  L. Forney,et al.  Molecular microbial ecology: land of the one-eyed king. , 2004, Current opinion in microbiology.

[25]  H. Heuer,et al.  Significance test for comparing complex microbial community fingerprints using pairwise similarity measures. , 2004, Journal of Microbiological Methods.

[26]  J. Hollibaugh,et al.  Distribution of microbial assemblages in the Central Arctic Ocean Basin studied by PCR/DGGE: analysis of a large data set , 1999, Hydrobiologia.

[27]  H. Paerl,et al.  Scaling up: the next challenge in environmental microbiology. , 2003, Environmental microbiology.

[28]  Ian Snape,et al.  Microbial community variation in pristine and polluted nearshore Antarctic sediments. , 2003, FEMS microbiology ecology.

[29]  J. Mcgowan,et al.  Optimization of Computer Software Settings Improves Accuracy of Pulsed-Field Gel Electrophoresis Macrorestriction Fragment Pattern Analysis , 2003, Journal of Clinical Microbiology.

[30]  W. M. Vos,et al.  Effect of fermentable carbohydrates on piglet faecal bacterial communities as revealed by denaturing gradient gel electrophoresis analysis of 16S ribosomal DNA. , 2003, FEMS microbiology ecology.

[31]  J. Pretty,et al.  Soil Type Is the Primary Determinant of the Composition of the Total and Active Bacterial Communities in Arable Soils , 2003, Applied and Environmental Microbiology.

[32]  F. Gillet,et al.  Statistical analysis of denaturing gel electrophoresis (DGE) fingerprinting patterns. , 2002, Environmental microbiology.

[33]  S. Biesterveld,et al.  Spatial and Temporal Variation of the Intestinal Bacterial Community in Commercially Raised Broiler Chickens During Growth , 2002, Microbial Ecology.

[34]  Gianluigi Cardinali,et al.  Multicenter Comparison of Three Different Analytical Systems for Evaluation of DNA Banding Patterns from Cryptococcus neoformans , 2002, Journal of Clinical Microbiology.

[35]  R. Arbeit,et al.  Comparison of SmaI-defined genotypes of Campylobacter jejuni examined by KpnI: a population-based study. , 2001, Journal of medical microbiology.

[36]  A. Rementeria,et al.  Comparative evaluation of three commercial software packages for analysis of DNA polymorphism patterns. , 2001, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[37]  R. Mackie,et al.  Denaturing Gradient Gel Electrophoresis Analysis of 16S Ribosomal DNA Amplicons To Monitor Changes in Fecal Bacterial Populations of Weaning Pigs after Introduction of Lactobacillus reuteri Strain MM53 , 2000, Applied and Environmental Microbiology.

[38]  G. Muyzer,et al.  Optimization of Terminal-Restriction Fragment Length Polymorphism Analysis for Complex Marine Bacterioplankton Communities and Comparison with Denaturing Gradient Gel Electrophoresis , 1999, Applied and Environmental Microbiology.

[39]  E. Zoetendal,et al.  Temperature Gradient Gel Electrophoresis Analysis of 16S rRNA from Human Fecal Samples Reveals Stable and Host-Specific Communities of Active Bacteria , 1998, Applied and Environmental Microbiology.

[40]  B. Swaminathan,et al.  Computerized Analysis of Restriction Fragment Length Polymorphism Patterns: Comparative Evaluation of Two Commercial Software Packages , 1998, Journal of Clinical Microbiology.

[41]  U. Göbel,et al.  Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis. , 1997, FEMS microbiology reviews.

[42]  Hans H. Cheng,et al.  Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA , 1997, Applied and environmental microbiology.

[43]  G. Kowalchuk,et al.  Analysis of ammonia-oxidizing bacteria of the beta subdivision of the class Proteobacteria in coastal sand dunes by denaturing gradient gel electrophoresis and sequencing of PCR-amplified 16S ribosomal DNA fragments , 1997, Applied and environmental microbiology.

[44]  B. Kowalski,et al.  Review of Chemometrics Applied to Spectroscopy: 1985-95, Part I , 1996 .

[45]  R. Amann,et al.  Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis , 1996, Journal of bacteriology.

[46]  D. M. Ward,et al.  Denaturing Gradient Gel Electrophoresis Profiles of 16 S rRNA-Defined Populations Inhabiting a Hot Spring Microbial Mat Community , 1996 .

[47]  A. Uitterlinden,et al.  Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA , 1993, Applied and environmental microbiology.