Topic Editors

Department of Public Health and Infectious Diseases, “Sapienza” University, 00185 Rome, Italy
Department of Public Health and Infectious Diseases, “Sapienza” University, 00185 Rome, Italy
Prof. Andrea Carolina Entrocassi
Facultad de Farmacia y Bioquímica, Universidad de Buenos Aires, Cátedra de Microbiología Clínica, Inmunología y Virología Clínica, Buenos Aires C1113 AAD, Argentina

High-Throughput Analyses as a Multi-Faceted Approach for Characterizing the Human Microbiota

Abstract submission deadline
30 August 2024
Manuscript submission deadline
30 October 2024
Viewed by
1998

Topic Information

Dear Colleagues,

The advent of high-throughput technologies has significantly contributed to expanding our knowledge on the composition of the resident microbiota of different human niches, including the gut, skin, and genital tract, in health as well as disease conditions. In this regard, in recent years, the microbiota has been involved in several pathologies, such as bacterial as well as viral infections (e.g., Chlamydia trachomatis and/or HPV in the female genital tract) or chronic inflammatory conditions (e.g., diabetes, obesity, chronic atrophic gastritis or non-atrophic pangastritis). The growing body of data provided by the different approaches for microbiota investigation, such as DNA sequences from next-generation sequencing techniques, can be analyzed via several powerful computational methods to provide a comprehensive description of the bacterial composition as well as a functional characterization via the prediction of metabolic pathways. In the present topic collection, we welcome innovative articles on the interrelationship between the different microbial communities and the pathophysiology of human diseases. We are interested in full-length manuscripts based on original research, systematic reviews and/or meta-analyses, and methodological advances.

Dr. Simone Filardo
Dr. Rosa Sessa
Prof. Andrea Carolina Entrocassi
Topic Editors

Keywords

  • human microbiota
  • high throughput techniques
  • computational analysis
  • chronic diseases
  • infectious diseases

Participating Journals

Journal Name Impact Factor CiteScore Launched Year First Decision (median) APC
Gastroenterology Insights
gastroent
2.9 2.7 2009 32.6 Days CHF 1600 Submit
Infectious Disease Reports
idr
3.2 3.2 2009 27.2 Days CHF 1800 Submit
Life
life
3.2 2.7 2011 17.5 Days CHF 2600 Submit
Microbiology Research
microbiolres
1.5 1.3 2010 16.6 Days CHF 1600 Submit
Microorganisms
microorganisms
4.5 6.4 2013 15.1 Days CHF 2700 Submit

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Published Papers (1 paper)

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17 pages, 2431 KiB  
Article
Automated Protocol for Monitoring Droplets and Fomites on Surfaces
by Federica Valeriani, Lory Marika Margarucci, Francesca Ubaldi, Gianluca Gianfranceschi and Vincenzo Romano Spica
Microbiol. Res. 2024, 15(1), 120-136; https://doi.org/10.3390/microbiolres15010008 - 27 Dec 2023
Viewed by 799
Abstract
During the COVID-19 pandemic, extensive efforts focused on developing a better understanding of indirect transmission routes, environmental monitoring of fomites, and suitable surveillance strategies, providing new perspectives to also face other communicable diseases. Rapid methods for monitoring environmental contamination are strongly needed to [...] Read more.
During the COVID-19 pandemic, extensive efforts focused on developing a better understanding of indirect transmission routes, environmental monitoring of fomites, and suitable surveillance strategies, providing new perspectives to also face other communicable diseases. Rapid methods for monitoring environmental contamination are strongly needed to support risk assessment, epidemiological surveillance and prevent infections from spreading. We optimized and automatized a protocol based on fomite detection by qPCR, using a microbial-signature approach based on marker genes belonging to the microbiota of droplets or different biological fluids. The procedure was implemented by exploiting the available tools developed for SARS-CoV-2 tracing, such as flocked swab sampling, real-time PCR equipment and automatic extraction of nucleic acids. This approach allowed scaling up, simplifying, and speeding up the extraction step of environmental swabs, processing at least 48 samples within 45 min vs. 90 min for about 24 samples by manual protocols. A comparison of microflora data by Next-Generation Sequencing (NGS) strongly supports the effectiveness of this semiautomated extraction procedure, providing good quality DNA with comparable representation of species as shown by biodiversity indexes. Today, equipment for qPCR is widely available and relatively inexpensive; therefore this approach may represent a promising tool for hospital hygiene in surveilling fomites associated with SARS-CoV-2 or other pathogen’s transmission. Full article
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