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- Author:
- Schriefer, Andrew E.; Cliften, Paul F.; Hibberd, Matthew C.; Sawyer, Christopher; Brown-Kennerly, Victoria; Burcea, Lauren; Klotz, Elliott; Crosby, Seth D.; Gordon, Jeffrey I.; Head, Richard D.
- Source:
- Journal of microbiological methods 2018 v.154 pp. 6-13
- ISSN:
- 0167-7012
- Subject:
- DNA; algorithms; bacterial communities; computer software; genes; germ-free animals; habitats; high-throughput nucleotide sequencing; metagenomics; mice; microfluidic technology; phylogeny; polymerase chain reaction; ribosomal RNA
- Abstract:
- ... Metagenomic sequencing of bacterial samples has become the gold standard for profiling microbial populations, but 16S rRNA profiling remains widely used due to advantages in sample throughput, cost, and sensitivity even though the approach is hampered by primer bias and lack of specificity. We hypothesized that a hybrid approach, that combined targeted PCR amplification with high-throughput sequen ...
- DOI:
- 10.1016/j.mimet.2018.09.019
- PubMed:
- 30273610
- PubMed Central:
- PMC6375304
-
https://dx.doi.org/10.1016/j.mimet.2018.09.019
- Author:
- Jang, Jaeyoun; Hendriksen, Niels Bohse; Jakobsen, Hans H.; Gosewinkel, Ulrich
- Source:
- Journal of microbiological methods 2018 v.154 pp. 63-72
- ISSN:
- 0167-7012
- Subject:
- DNA; air; airborne microorganisms; bacteria; flow cytometry; genes; quantitative polymerase chain reaction; regression analysis; relative humidity; ribosomal RNA; wastewater treatment
- Abstract:
- ... Characterization of airborne bacterial cells requires efficient collection, concentration, and analysis techniques, particularly to overcome the challenge of their dilute nature in outdoor environments. This study aims to establish a rapid and reliable approach for quantification of bacteria in air samples. To do this, a high volume impingement sampler was applied to collect airborne bacteria from ...
- DOI:
- 10.1016/j.mimet.2018.10.012
-
https://dx.doi.org/10.1016/j.mimet.2018.10.012
- Author:
- Pieczul, Katarzyna; Perek, Agnieszka; Kubiak, Krzysztof
- Source:
- Journal of microbiological methods 2018 v.154 pp. 141-146
- ISSN:
- 0167-7012
- Subject:
- Alternaria; Cladosporium; DNA; Fusarium; Helminthosporium; Penicillium; Tilletia controversa; Tilletia laevis; Tilletia tritici; detection limit; fungi; protocols; rapid methods; smut diseases; teliospores; wheat
- Abstract:
- ... The study describes a novel diagnostic protocol based on a loop-mediated isothermal DNA amplification (LAMP) for identification of wheat grains infection by Tilletia laevis, Tilletia caries (common bunt) and Tilletia controversa (draft bunt). The presented data showed that the LAMP analysis is a simple, specific and rapid method that could be used for detection of Tilletia spp. in contaminated gra ...
- DOI:
- 10.1016/j.mimet.2018.10.018
-
http://dx.doi.org/10.1016/j.mimet.2018.10.018
- Author:
- Li, Runze; Dhankhar, Dinesh; Chen, Jie; Cesario, Thomas C.; Rentzepis, Peter M.
- Source:
- Journal of microbiological methods 2018 v.154 pp. 73-78
- ISSN:
- 0167-7012
- Subject:
- DNA; antibiotic resistance; antibiotics; bacteria; drugs; fluorescence emission spectroscopy; patients; principal component analysis; tryptophan; tyrosine
- Abstract:
- ... Antibiotics are drugs that react against, kill, or inhibit the growth of bacteria. The method most often employed to evaluate the effectiveness of an antibiotic to kill bacteria requires at least 16 to 24 h for bacterial incubation. The requirement of long periods of time for the determination of the number of bacteria still alive after antibiotic treatment, may, in many cases, be detrimental to t ...
- DOI:
- 10.1016/j.mimet.2018.10.010
-
https://dx.doi.org/10.1016/j.mimet.2018.10.010
- Author:
- Staley, Christopher; Sadowsky, Michael J.
- Source:
- Journal of microbiological methods 2018 v.154 pp. 14-18
- ISSN:
- 0167-7012
- Subject:
- DNA; algorithms; biogeography; bioinformatics; ecosystems; genetic markers; habitats; high-throughput nucleotide sequencing; interdisciplinary research; metagenomics; microbial communities; microbiome; microorganisms; research programs; statistical analysis; technology
- Abstract:
- ... Recent advancements in metagenomic-based studies, especially analyses of amplicon-based DNA sequencing targeting taxonomic marker genes, has led to an unprecedented characterization of microbial communities from diverse ecosystems around the world. While originally constrained by a lack of appropriate analytical tools and sequencing depth, new technologies and computational and statistical algorit ...
- DOI:
- 10.1016/j.mimet.2018.09.020
-
https://dx.doi.org/10.1016/j.mimet.2018.09.020
- Author:
- Rusak, Leonardo Alves; de Castro Lisboa Pereira, Rodrigo; Freitag, Isabelle Geoffroy; Hofer, Cristina Barroso; Hofer, Ernesto; Asensi, Marise Dutra; Vallim, Deyse Christina
- Source:
- Journal of microbiological methods 2018 v.154 pp. 107-111
- ISSN:
- 0167-7012
- Subject:
- DNA; Yersinia enterocolitica; biosynthesis; digestive system diseases; feces; hospitals; humans; monitoring; peptide elongation factors; polymerase chain reaction; pregnant women; public health; rapid methods; selective media; serotypes; Europe
- Abstract:
- ... Yersinia enterocolitica, a member of the Enterobacteriaceae family, is a zoonotic agent that causes gastrointestinal diseases and some extraintestinal disorders in humans. Y. enterocolitica ssp. palearctica bioserotype 4/O:3 is the primary pathogenic bioserotype in Europe, where it has a high public health relevance. The isolation and identification of Y. enterocolitica from various sources on sel ...
- DOI:
- 10.1016/j.mimet.2018.10.014
-
https://dx.doi.org/10.1016/j.mimet.2018.10.014
