Microbial Evolutionary Genomics and Bioinformatics

A special issue of Applied Microbiology (ISSN 2673-8007).

Deadline for manuscript submissions: 30 September 2025 | Viewed by 1281

Special Issue Editor


E-Mail Website
Guest Editor
1. CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixoes, Av. General Norton de Matos, s/n, 4450-208 Porto, Portugal
2. Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
Interests: genomics (from animals to microorganisms); evolution, molecular ecology; conservation; biotechnology; bioinformatics
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

This Special Issue is a curated collection that brings together the latest research at the intersection of microbial evolution, genomics, and bioinformatics. This issue aims to provide a comprehensive overview of how advanced computational methods and genomic data are revolutionizing our understanding of microbial life and its evolutionary history. The key themes and topics covered in this Special Issue include, but are not limited to:

  1. Microbiomes genomics;
  2. Bacteria genomics diversity and evolution;
  3. Virus genomics and evolution;
  4. Microbial pathogenicity genomics;
  5. Bioinformatics advances in microbial research;
  6. Microbial-genome-encoded bioactive molecules. 

Research articles and comprehensive reviews are also welcome.

You may choose our Joint Special Issue in Microorganisms.

Prof. Dr. Agostinho Antunes
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Applied Microbiology is an international peer-reviewed open access quarterly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1000 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • microbiomes genomics
  • bacteria genomics diversity and evolution
  • irus genomics and evolution
  • microbial pathogenicity genomics
  • bioinformatics advances in microbial research
  • microbial-genome-encoded bioactive molecules

Benefits of Publishing in a Special Issue

  • Ease of navigation: Grouping papers by topic helps scholars navigate broad scope journals more efficiently.
  • Greater discoverability: Special Issues support the reach and impact of scientific research. Articles in Special Issues are more discoverable and cited more frequently.
  • Expansion of research network: Special Issues facilitate connections among authors, fostering scientific collaborations.
  • External promotion: Articles in Special Issues are often promoted through the journal's social media, increasing their visibility.
  • e-Book format: Special Issues with more than 10 articles can be published as dedicated e-books, ensuring wide and rapid dissemination.

Further information on MDPI's Special Issue policies can be found here.

Published Papers (1 paper)

Order results
Result details
Select all
Export citation of selected articles as:

Research

13 pages, 2923 KiB  
Article
In Silico Identification of Banana High-Confidence MicroRNA Binding Sites Targeting Banana Streak GF Virus
by Muhammad Aleem Ashraf, Babar Ali, Maryam Fareed, Ahsan Sardar, Eisha Saeed, Samaa Islam, Shaher Bano and Naitong Yu
Appl. Microbiol. 2025, 5(1), 13; https://doi.org/10.3390/applmicrobiol5010013 - 27 Jan 2025
Viewed by 892
Abstract
Banana streak GF virus (BSGFV) is the extremely dangerous monopartite badnavirus (genus, Badnavirus; family, Caulimoviridae) of banana (Musa acuminata AAA Group) that imposes a serious threat to global banana production. The BSGFV causes a devastating pandemic in banana crops, transmitted by [...] Read more.
Banana streak GF virus (BSGFV) is the extremely dangerous monopartite badnavirus (genus, Badnavirus; family, Caulimoviridae) of banana (Musa acuminata AAA Group) that imposes a serious threat to global banana production. The BSGFV causes a devastating pandemic in banana crops, transmitted by deadly insect pest mealybug vectors and replicated through an RNA intermediate. The BSGFV is a reverse-transcribing DNA virus that has a monopartite open circular double-stranded DNA (dsDNA) genome with a length of 7325 bp. RNA interference (RNAi) is a natural mechanism that has revolutionized the target gene regulation of various organisms to combat virus infection. The current study aims to locate the potential target binding sites of banana-encoded microRNAs (mac-miRNAs) on the BSGFV-dsDNA-encoded mRNAs based on three algorithms, RNA22, RNAhybrid and TAPIR. Mature banana (2n = 3x = 33) miRNAs (n = 32) were selected and hybridized to the BSGFV genome (MN296502). Among the 32 targeted mature locus-derived mac-miRNAs investigated, two banana mac-miRNA homologs (mac-miR162a and mac-miR172b) were identified as promising naturally occurring biomolecules to have binding affinity at nucleotide positions 5502 and 9 of the BSGFV genome. The in silico banana-genome-encoded mac-miRNA/mbg-miRNA-regulatory network was developed with the BSGFV—ORFs using Circos software (version 0.69-9) to identify potential therapeutic target proteins. Therefore, the current work provides useful biological material and opens a new range of opportunities for generating BSGFV-resistant banana plants through the genetic manipulation of the selected miRNAs. Full article
(This article belongs to the Special Issue Microbial Evolutionary Genomics and Bioinformatics)
Show Figures

Figure 1

Back to TopTop