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

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

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

MDPI Topics is cooperating with Preprints.org and has built a direct connection between MDPI journals and Preprints.org. Authors are encouraged to enjoy the benefits by posting a preprint at Preprints.org prior to publication:

1. Immediately share your ideas ahead of publication and establish your research priority;
2. Protect your idea from being stolen with this time-stamped preprint article;
3. Enhance the exposure and impact of your research;
4. Receive feedback from your peers in advance;
5. Have it indexed in Web of Science (Preprint Citation Index), Google Scholar, Crossref, SHARE, PrePubMed, Scilit and Europe PMC.

Published Papers (1 paper)

Order results

Content type Publication Date

Result details

Normal Extended Compact

Journals

All Gastroenterology Insights Infectious Disease Reports Life Microbiology Research Microorganisms

Show export options expand_more Show export options expand_less

Select all

Export citation of selected articles as:

Plain Text BibTeX BibTeX (without abstracts) Endnote Endnote (without abstracts) Tab-delimited RIS

Error

Oops... you haven't selected anything for export.

Ok

clear

attachment

Supplementary material:
Supplementary File 1 (ZIP, 105 KiB)

17 pages, 2431 KiB  

Open AccessArticle

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 810

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

(This article belongs to the Topic High-Throughput Analyses as a Multi-Faceted Approach for Characterizing the Human Microbiota)

►▼ Show Figures

Figure 1

Show export options expand_more Show export options expand_less

Select all

Export citation of selected articles as:

Plain Text BibTeX BibTeX (without abstracts) Endnote Endnote (without abstracts) Tab-delimited RIS

 

Error

Oops... you haven't selected anything for export.

Ok

clear

Displaying articles 1-1