The Experts below are selected from a list of 1089 Experts worldwide ranked by ideXlab platform
Clifford H. Watson - One of the best experts on this subject based on the ideXlab platform.
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RESEARCH ARTICLE Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxo-nomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actino-bacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unob-served States) was used to impute the prevalence of genes encoding selected bacterial tox-ins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products
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characterization of bacterial communities in selected smokeless tobacco products using 16s rdna analysis
PLOS ONE, 2016Co-Authors: Stephen B. Stanfill, Lisa M Keong, Angel J Rivera, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxonomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actinobacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States) was used to impute the prevalence of genes encoding selected bacterial toxins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products.
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Relative abundance at family level of taxonomy.
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The relative abundances at the family level of taxonomic classification were calculated using QIIME. Each bacterial family is represented as a different color in the bar graphs below. Combined relative abundances total 100% for each individual product. Numbering is as follows: 1) Brevibacteriaceae 2) Corynebacteriaceae 3) Dermabacteraceae 4) Microbacteriaceae 5) Micrococcaceae 6) Promicromonosporaceae 7) Yaniellaceae 8) Sphingobacteriaceae 9) Bacillaceae 10) Planococcaceae 11) Staphylococcaceae 12) Aerococcaceae 13) Carnobacteriaceae 14) Enterococcaceae 15) Lactobacillaceae 16) Leuconostocaceae 17) Acetobacteraceae 18) Alcaligenaceae 19) Comamonadaceae 20) Oxalobacteraceae 21) Enterobacteriaceae 22) Moraxellaceae 23) Pseudomonadaceae 24) Xanthomonadaceae 25) All Others (Bogoriellaceae, Flavobacteriaceae, Nocardiaceae, Aurantimonadaceae, Methylobacteriaceae, Rhizobiaceae, Alteromonadaceae, Halomonadaceae, and Rhodobacteraceae).
Angel J Rivera - One of the best experts on this subject based on the ideXlab platform.
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Biplot for second and third component of tobacco bacterial data.
2017Co-Authors: Glen A. Satten, Angel J Rivera, Robert E. Tyx, Stephen B. StanfillAbstract:Points are colored by type (blue = dry, red = moist, green = toombak) and samples corresponding to replicates of the same product are plotted with the same symbol. The taxonomic families corresponding to the OTUs shown are Staphylococcaceae (4312974), Aerococcaceae (52399), Lactobacillaceae (4379247), Enterococcaceae (29012) and Corynebacteriaceae (810425). The scale on bottom and left corresponds to coordinates of samples, scale on right and top to coordinates of OTUs.
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RESEARCH ARTICLE Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxo-nomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actino-bacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unob-served States) was used to impute the prevalence of genes encoding selected bacterial tox-ins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products
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characterization of bacterial communities in selected smokeless tobacco products using 16s rdna analysis
PLOS ONE, 2016Co-Authors: Stephen B. Stanfill, Lisa M Keong, Angel J Rivera, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxonomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actinobacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States) was used to impute the prevalence of genes encoding selected bacterial toxins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products.
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Relative abundance at family level of taxonomy.
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The relative abundances at the family level of taxonomic classification were calculated using QIIME. Each bacterial family is represented as a different color in the bar graphs below. Combined relative abundances total 100% for each individual product. Numbering is as follows: 1) Brevibacteriaceae 2) Corynebacteriaceae 3) Dermabacteraceae 4) Microbacteriaceae 5) Micrococcaceae 6) Promicromonosporaceae 7) Yaniellaceae 8) Sphingobacteriaceae 9) Bacillaceae 10) Planococcaceae 11) Staphylococcaceae 12) Aerococcaceae 13) Carnobacteriaceae 14) Enterococcaceae 15) Lactobacillaceae 16) Leuconostocaceae 17) Acetobacteraceae 18) Alcaligenaceae 19) Comamonadaceae 20) Oxalobacteraceae 21) Enterobacteriaceae 22) Moraxellaceae 23) Pseudomonadaceae 24) Xanthomonadaceae 25) All Others (Bogoriellaceae, Flavobacteriaceae, Nocardiaceae, Aurantimonadaceae, Methylobacteriaceae, Rhizobiaceae, Alteromonadaceae, Halomonadaceae, and Rhodobacteraceae).
Doris E. Zúñiga - One of the best experts on this subject based on the ideXlab platform.
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Genetic diversity and antimicrobial activity of lactic acid bacteria in the preparation of traditional fermented potato product ‘tunta’
World Journal of Microbiology and Biotechnology, 2018Co-Authors: Elena R. Ramos, Ricardo A. Santos, Carmen E. Velezmoro, Encarna Velazquez, Doris E. ZúñigaAbstract:Fermentation microorganisms, lactic acid bacteria (LAB) and yeast from 12 samples of tunta production chain were quantified, from the native potatoes used by the process fermentation of potatoes in the river up to the final product. During fermentation, the LAB population steadily increased from 3 to 4 to 8 log CFU/g during the first 8 days in the river and the yeast population increased from 2 to 3 to 3–4 log CFU/g. Overall, 115 LAB strains were isolated using a culture-dependent method. Molecular techniques and 16S rRNA gene sequencing enabled the identification of native species. In LAB isolates, members of the Lactobacillaceae (64%), Leuconostocaceae (9%) and Enterococcaceae (2%) families were identified. The most prevalent LAB species in the tunta production chain was Lactobacillus curvatus , followed by Leuconostoc mesenteroides and Lactobacillus sakei, Lactobacillus brevis and Enterococcus mundtii were also present. Only 13 LAB strains showed anti-listerial activity, and one of them, identified as En. mundtii DSM 4838^T [MG031213], produced antimicrobial compounds that were determined to be proteins after treatment with proteolytic enzymes. Based on these results, we suggest that traditional fermented product-derived LAB strains from specific environments could be selected and used for technological application to control pathogenic bacteria and naturally protect food from post-harvest deleterious microbiota.
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Genetic diversity and antimicrobial activity of lactic acid bacteria in the preparation of traditional fermented potato product ‘tunta’
World Journal of Microbiology and Biotechnology, 2018Co-Authors: Elena R. Ramos, Ricardo A. Santos, Carmen E. Velezmoro, Encarna Velazquez, Doris E. ZúñigaAbstract:Fermentation microorganisms, lactic acid bacteria (LAB) and yeast from 12 samples of tunta production chain were quantified, from the native potatoes used by the process fermentation of potatoes in the river up to the final product. During fermentation, the LAB population steadily increased from 3 to 4 to 8 log CFU/g during the first 8 days in the river and the yeast population increased from 2 to 3 to 3–4 log CFU/g. Overall, 115 LAB strains were isolated using a culture-dependent method. Molecular techniques and 16S rRNA gene sequencing enabled the identification of native species. In LAB isolates, members of the Lactobacillaceae (64%), Leuconostocaceae (9%) and Enterococcaceae (2%) families were identified. The most prevalent LAB species in the tunta production chain was Lactobacillus curvatus , followed by Leuconostoc mesenteroides and Lactobacillus sakei, Lactobacillus brevis and Enterococcus mundtii were also present. Only 13 LAB strains showed anti-listerial activity, and one of them, identified as En. mundtii DSM 4838^T [MG031213], produced antimicrobial compounds that were determined to be proteins after treatment with proteolytic enzymes. Based on these results, we suggest that traditional fermented product-derived LAB strains from specific environments could be selected and used for technological application to control pathogenic bacteria and naturally protect food from post-harvest deleterious microbiota.
Lisa M Keong - One of the best experts on this subject based on the ideXlab platform.
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RESEARCH ARTICLE Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxo-nomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actino-bacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unob-served States) was used to impute the prevalence of genes encoding selected bacterial tox-ins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products
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characterization of bacterial communities in selected smokeless tobacco products using 16s rdna analysis
PLOS ONE, 2016Co-Authors: Stephen B. Stanfill, Lisa M Keong, Angel J Rivera, Glen A. Satten, Clifford H. WatsonAbstract:The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxonomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actinobacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States) was used to impute the prevalence of genes encoding selected bacterial toxins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products.
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Relative abundance at family level of taxonomy.
2016Co-Authors: Robert E. Tyx, Lisa M Keong, Angel J Rivera, Stephen B. Stanfill, Glen A. Satten, Clifford H. WatsonAbstract:The relative abundances at the family level of taxonomic classification were calculated using QIIME. Each bacterial family is represented as a different color in the bar graphs below. Combined relative abundances total 100% for each individual product. Numbering is as follows: 1) Brevibacteriaceae 2) Corynebacteriaceae 3) Dermabacteraceae 4) Microbacteriaceae 5) Micrococcaceae 6) Promicromonosporaceae 7) Yaniellaceae 8) Sphingobacteriaceae 9) Bacillaceae 10) Planococcaceae 11) Staphylococcaceae 12) Aerococcaceae 13) Carnobacteriaceae 14) Enterococcaceae 15) Lactobacillaceae 16) Leuconostocaceae 17) Acetobacteraceae 18) Alcaligenaceae 19) Comamonadaceae 20) Oxalobacteraceae 21) Enterobacteriaceae 22) Moraxellaceae 23) Pseudomonadaceae 24) Xanthomonadaceae 25) All Others (Bogoriellaceae, Flavobacteriaceae, Nocardiaceae, Aurantimonadaceae, Methylobacteriaceae, Rhizobiaceae, Alteromonadaceae, Halomonadaceae, and Rhodobacteraceae).
Thaddeus S Stappenbeck - One of the best experts on this subject based on the ideXlab platform.
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Spatial organization of intestinal microbiota in the mouse ascending colon
The ISME Journal, 2011Co-Authors: Gerardo M Nava, Hans J Friedrichsen, Thaddeus S StappenbeckAbstract:Complex microbial populations are organized in relation to their environment. In the intestine, the inner lining (mucosa) is a potential focal point for such organization. The proximal murine colon contains mucosal folds that are known to be associated with morphologically distinct microbes. To identify these microbes, we used the technique of laser capture microdissection (LCM) to sample microbes associated with these folds (interfold region) and within the central lumen (digesta region). Using 16S rRNA gene tag pyrosequencing, we found that microbes in the interfold region were highly enriched for the phylum Firmicutes and, more specifically, for the families Lachnospiraceae and Ruminococcaceae. Other families such as Bacteroidaceae, Enterococcaceae and Lactobacillaceae were all enriched in the digesta region. This high-resolution system to capture and examine spatial organization of intestinal microbes should facilitate microbial analysis in other mouse models, furthering our understanding of host–microbial interactions.