The Evolution and Adaptation of Microbes in the Environment

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Environmental Microbiology".

Deadline for manuscript submissions: closed (15 March 2024) | Viewed by 3300

Special Issue Editors


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Guest Editor
Laboratori de Microbiologia Molecular i Antimicrobians, Departament de Patologia i Experimental Terapèutica, Facultat de Medicina, University of Barcelona, Barcelona, Spain
Interests: microbial ecology; minimal ecosystems; early microbial life

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Guest Editor
Faculty of Pharmacy, University of Barcelona, Barcelona, Spain
Interests: microbial ecology; multi-species biofilms; microbial mats

Special Issue Information

Dear Colleagues,

Microorganisms constantly interact with their habitats, selectively taking up compounds from their surroundings to meet their needs, but also excreting metabolic products and thus modifying their environment. Communication and cooperation, both within and among microbial species, is thought to have produced the properties that give some microbes a selective advantage over others. Symbiosis can play an essential role in determining evolution and adaptation to new habitats. On the other hand, the conditions to modulate microbial activities have been altered by human intervention. The use of antibiotics has produced microbes that have evolved multiresistance to normally prescribed drugs. We know that our symbiotic microbes help us to maintain our healthy bodies. In addition, our species has created new conditions for microbial expansion, especially significant for dispersing or controlling human and animal infectious diseases. Could these modern human activities represent a challenge to microorganisms? The history of life on Earth is mostly the dominance of single-celled prokaryotes. The small size, ubiquity, metabolic versatility and genetic plasticity (horizontal transfer) of microbes allow them to tolerate and quickly adapt to unfavorable and/or changing environmental conditions.

Call for papers: This Special Issue entitled ”The Evolution and Adaptation of Microbes in the Environment“ aims to present recent research on any aspect of the adaptation of microbial communities to different environments, from those considered “habitable” to those considered “extreme” (from the human point of view). Its focal points include, but are not limited to, the following:

  • Adaptation of microbial communities to different environments. Marine and terrestrial habitats and biotopes.
  • Adaptation of microbes to extreme environmental conditions. What is really an “extremophile”? Acido- and alkaliphile, adaptation to high (60 °C to 96 °C) or low temperatures (4 °C to -12 °C), adaptation to high salinity, oligotrophy, and other adaptations.
  • Evolution of microbes to form communities and occupy new habitats. Genome modification and adaptation. Horizontal gene transfer.
  • Symbiosis as an evolutionary force. Role of symbiosis (intracellular or extracellular, and among microbial populations and communities) in evolution.
  • History of the microbial life on Earth. How microbes evolved and thrived in the different ages of our planet.
  • The microbiomes of animals. Normal and dystopic human microbiomes. The holobiont concept and its implications. Microbial multiresistance to antibiotics and chemotherapeutics.

Reviews, original research papers, communications and translational articles are welcome.

Prof. Dr. Ricardo Guerrero
Dr. Mercedes Berlanga
Guest Editors

Manuscript Submission Information

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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. Microorganisms is an international peer-reviewed open access monthly journal published by MDPI.

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Published Papers (2 papers)

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Research

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17 pages, 3001 KiB  
Article
Three Novel Marine Species of Paracoccus, P. aerodenitrificans sp. nov., P. sediminicola sp. nov. and P. albus sp. nov., and the Characterization of Their Capability to Perform Heterotrophic Nitrification and Aerobic Denitrification
by Kun Zhang, Qi Zeng, Rouyun Jiang, Songbiao Shi, Jian Yang, Lijuan Long and Xinpeng Tian
Microorganisms 2023, 11(6), 1532; https://doi.org/10.3390/microorganisms11061532 - 9 Jun 2023
Cited by 3 | Viewed by 1366
Abstract
Heterotrophic nitrification–aerobic denitrification (HN-AD) is an efficient nitrogen removal process and the genus Paracoccus is one important group of the HN-AD bacteria. During an investigation of the microbial diversity in marine ranching of the Pearl River Estuary (PR China), three bacterial strains, designated [...] Read more.
Heterotrophic nitrification–aerobic denitrification (HN-AD) is an efficient nitrogen removal process and the genus Paracoccus is one important group of the HN-AD bacteria. During an investigation of the microbial diversity in marine ranching of the Pearl River Estuary (PR China), three bacterial strains, designated SCSIO 75817T, SCSIO 76264T and SCSIO 80058T, were isolated from sediments. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the three strains belonged to the genus Paracoccus and their closest neighbors were P. isoporae DSM 22220T (97.6–98.0%), P. aurantiacus CGMCC 1.13898T (97.3–97.6%) and P. xiamenensis MCCC 1A16381T (97.1–97.4%), respectively. The analysis results of 16S rRNA gene similarity, ANI, AAI and dDDH showed that the pairwise similarities between these three strains and their closest neighbors were 97.4–98.5%, 76.9–81.0%, 75.5–79.6% and 20.3–23.3%, respectively. Polyphasic taxonomic data of the phylogenetic, phenotypic and chemotaxonomic analyses indicate that these strains represent three novel species in the genus Paracoccus, for which the names Paracoccus aerodenitrificans sp. nov., Paracoccus sediminicola sp. nov. and Paracoccus albus sp. nov. are proposed, respectively. The study also demonstrated the heterotrophic nitrification–aerobic denitrification (HN-AD) ability of the novel species P. aerodenitrificans SCSIO 75817T. When it was aerobically cultivated at 28 °C using NH4+-N, NO3-N and NO2-N as the sole nitrogen sources, the nitrogen removal efficiencies were 73.4, 55.27 and 49.2%, respectively, and the maximum removal rates were 3.05, 1.82 and 1.63 mg/L/h, respectively. The results suggest that it has promising potential for wastewater treatment. Full article
(This article belongs to the Special Issue The Evolution and Adaptation of Microbes in the Environment)
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Review

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16 pages, 1187 KiB  
Review
The Microevolution of Antifungal Drug Resistance in Pathogenic Fungi
by Kylie J. Boyce
Microorganisms 2023, 11(11), 2757; https://doi.org/10.3390/microorganisms11112757 - 13 Nov 2023
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Abstract
The mortality rates of invasive fungal infections remain high because of the limited number of antifungal drugs available and antifungal drug resistance, which can rapidly evolve during treatment. Mutations in key resistance genes such as ERG11 were postulated to be the predominant cause [...] Read more.
The mortality rates of invasive fungal infections remain high because of the limited number of antifungal drugs available and antifungal drug resistance, which can rapidly evolve during treatment. Mutations in key resistance genes such as ERG11 were postulated to be the predominant cause of antifungal drug resistance in the clinic. However, recent advances in whole genome sequencing have revealed that there are multiple mechanisms leading to the microevolution of resistance. In many fungal species, resistance can emerge through ERG11-independent mechanisms and through the accumulation of mutations in many genes to generate a polygenic resistance phenotype. In addition, genome sequencing has revealed that full or partial aneuploidy commonly occurs in clinical or microevolved in vitro isolates to confer antifungal resistance. This review will provide an overview of the mutations known to be selected during the adaptive microevolution of antifungal drug resistance and focus on how recent advances in genome sequencing technology have enhanced our understanding of this process. Full article
(This article belongs to the Special Issue The Evolution and Adaptation of Microbes in the Environment)
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