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Pyrosequencing Analysis Reveals Changes in Intestinal Microbiota of Healthy Adults Who Received a Daily Dose of Immunomodulatory Probiotic Strains
TLDR
Analysis of the compositions of the fecal microbiota of healthy adults who received one of these strains using high-throughput 16S ribosomal RNA gene sequencing shows that the intake of these three bacterial strains induced changes in the colon microbiota.
The Administration of Escherichia coli Nissle 1917 Ameliorates Development of DSS-Induced Colitis in Mice
TLDR
The intestinal anti-inflammatory effects of the probiotic EcN were associated with an amelioration of the altered gut microbiome in mouse experimental colitis, especially when considering bacterial diversity, which is reduced in these intestinal conditions.
Using NS5B Sequencing for Hepatitis C Virus Genotyping Reveals Discordances with Commercial Platforms
TLDR
The results indicated that the Trugene assay especially, and to a lesser extent, Versant HCV 2.0, can fail to differentiate HCV subtypes 1a and 1b, and lead to critical errors in clinical practice for correctly using directly acting antiviral agents.
Usefulness of Integrase resistance testing in proviral HIV-1 DNA in patients with Raltegravir prior failure
TLDR
This is a pilot study that demonstrates the possibility of properly identifying N155H and some secondary mutations 29–53 months after failure and correctly identifying all the secondary mutations.
The cobas® HCV GT is a new tool that accurately identifies Hepatitis C virus genotypes for clinical practice
TLDR
These results indicate that the cobas® HCV GT assay correctly identifies HCV genotypes, and points out the importance of additional methods based on DNA sequencing for resolving indeterminate results.
Infection with multiple hepatitis C virus genotypes detected using commercial tests should be confirmed using next generation sequencing
TLDR
To determine the accuracy of genotyping and the detection of mixed-genotype infections using the Abbott-RealTime HCV Genotype II assay (Abbott-RT-PCR) in comparison with a Roche-Next Generation Sequencing assay (Roche-NGS), it is recommended to recommend an NGS assay as a confirmation test.
Use of deep sequencing data for routine analysis of HIV resistance in newly diagnosed patients
TLDR
The comparison of deep and Sanger sequencing in newly diagnosed HIV patients, and the use of DeepChek v1.3 & VisibleChek for their interpretation and integration with virological and clinical data are presented.
Continued propagation of the CRF19_cpx variant among HIV-positive MSM patients in Spain
TLDR
It is demonstrated that this variant has spread in Spain in recent years among young HIV-positive MSM and the recent expansion in southern Spain in patients who carry mutation G190A is noted.
Minimizing Next-Generation Sequencing Errors for HIV Drug Resistance Testing.
TLDR
This review summarizes the most relevant data available for the optimization of next-generation sequencing applied to HIV resistance testing and proposes specific bioinformatic tools that may help to correctly identify the presence of resistance mutations with clinical impact.
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