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Microorganisms
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Microorganisms in Biogeotechnology, Biocorrosion and Remediation
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Microorganisms in Biogeotechnology, Biocorrosion and Remediation

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

Deadline for manuscript submissions: closed (31 October 2023) | Viewed by 13477

Special Issue Editors

Prof. Dr. Mikhail Vainshtein

E-Mail Website
Guest Editor
G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Russia
Interests: environmental microbiology; biogeotechnology; physiology of bacteria
Dr. Tatiana Abashina

E-Mail Website
Guest Editor
Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Science, 142290 Pushchino, Russia
Interests: bacteria; antimicrobial activity; microbe-microbe interaction; secondary metabolites
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Microbiology is a multidisciplinary science which can be subdivided into many categories depending on various perspectives (specific groups of organisms, methods of study, fields of application, etc.). Consequently, microbiologist researchers must look through a huge variety of papers to find necessary data; therefore, we hope that the theme of this Special Issue will help researchers with this process. Microorganisms that are capable of destroying refractory ores, durable materials and persistent pollutants are usually represented by specific groups. When studying these processes, specialized methods are used. The practical significance of these results has an economic value. We are sure that new data on the topic of this Special Issue will be of interest to many professionals and can help the international scientific community share their latest findings. We are pleased to invite you to submit articles that focus on the areas of microbial biogeotechnology, biocorrosion, and remediation.

We look forward to receiving your contributions.

Prof. Dr. Mikhail Vainshtein
Dr. Tatiana Abashina
Guest Editors

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. Microorganisms is an international peer-reviewed open access monthly 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 2700 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

  • biogeotechnology
  • biocorrosion
  • remediation

Published Papers (7 papers)

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Editorial

Jump to: Research, Review

3 pages, 175 KiB  
Editorial
Biogeotechnology, Biocorrosion, and Remediation—Three Areas of Modern Applied Environmental Microbiology
by Mikhail Vainshtein and Tatiana Abashina
Microorganisms 2022, 10(8), 1611; https://doi.org/10.3390/microorganisms10081611 - 09 Aug 2022
Viewed by 1296
Abstract
For many years, medical microbiology and food microbiology have been the most studied areas of microbial biology [...] Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)

Research

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14 pages, 2560 KiB  
Article
The Isolation of Anaerobic and Facultative Anaerobic Sulfate-Reducing Bacteria (SRB) and a Comparison of Related Enzymes in Their Sulfate Reduction Pathways
by Jing Wang, Xiaohong Li, Fang Guan, Zhibo Yang, Xiaofan Zhai, Yimeng Zhang, Xuexi Tang, Jizhou Duan and Hui Xiao
Microorganisms 2023, 11(8), 2019; https://doi.org/10.3390/microorganisms11082019 - 06 Aug 2023
Cited by 1 | Viewed by 1333
Abstract
Sulfate-reducing bacteria (SRB) are an important group of microorganisms that cause microbial corrosion. In this study, culturable SRB were isolated and identified from the inner rust layer of three kinds of steel and from sediments, and a comparison of amino acid sequences encoding [...] Read more.
Sulfate-reducing bacteria (SRB) are an important group of microorganisms that cause microbial corrosion. In this study, culturable SRB were isolated and identified from the inner rust layer of three kinds of steel and from sediments, and a comparison of amino acid sequences encoding related enzymes in the sulfate reduction pathway between anaerobic and facultative anaerobic SRB strains was carried out. The main results are as follows. (1) Seventy-seven strains were isolated, belonging to five genera and seven species, with the majority being Desulfovibrio marinisediminis. For the first time, Holodesulfovibrio spirochaetisodalis and Acinetobacter bereziniae were separated from the inner rust layer of metal, and sulfate reduction by A. bereziniae, Virgibacillus dokdonensis, and Virgibacillus chiguensis, etc., was also demonstrated for the first time. (2) Three strains of strictly anaerobic bacteria and four strains of facultative anaerobic bacteria were screened from seven bacterial strains. (3) Most of the anaerobic SRB only contained enzymes for the dissimilatory sulfate reduction pathway, while those of facultative anaerobic bacteria capable of producing hydrogen sulfide included two possible ways: containing the related enzymes from the dissimilatory pathway only, or containing enzymes from both dissimilatory and assimilation pathways. This study newly discovered that some bacterial genera exhibit sulfate reduction ability and found that there are differences in the distribution of enzymes related to the sulfate reduction pathway between anaerobic and facultative anaerobic SRB type trains, providing a basis for the development and utilization of sulfate-reducing bacterial resources and furthering our understanding of the metabolic mechanisms of SRB. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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15 pages, 948 KiB  
Article
The Contribution of Actinobacteria to the Degradation of Chlorinated Compounds: Variations in the Activity of Key Degradation Enzymes
by Elena V. Emelyanova, Sudarsu V. Ramanaiah, Nataliya V. Prisyazhnaya, Ekaterina S. Shumkova, Elena G. Plotnikova, Yonghong Wu and Inna P. Solyanikova
Microorganisms 2023, 11(1), 141; https://doi.org/10.3390/microorganisms11010141 - 05 Jan 2023
Cited by 2 | Viewed by 1720
Abstract
Bacteria make a huge contribution to the purification of the environment from toxic stable pollutants of anthropogenic and natural origin due to the diversity of their enzyme systems. For example, the ability to decompose 3-chlorobenzoate (3CBA) by the four representative genera of Actinobacteria, [...] Read more.
Bacteria make a huge contribution to the purification of the environment from toxic stable pollutants of anthropogenic and natural origin due to the diversity of their enzyme systems. For example, the ability to decompose 3-chlorobenzoate (3CBA) by the four representative genera of Actinobacteria, such as Rhodococcus, Gordonia, Microbacterium, and Arthrobacter, was studied. In most cases, the formation of 4-chlorocatechol as the only key intermediate during the decomposition of 3CBA was observed. However, Rhodococcus opacus strain 1CP was an exception, whose cells decomposed 3CBA via both 3-chloro- and 4-chlorocatechol. The enzyme 3-Chlorobenzoate 1,2-dioxygenase (3CBDO) induced during the growth of these bacteria in the presence of 3CBA differed significantly in substrate specificity from the benzoate dioxygenases induced upon growth in the presence of benzoate. The R. opacus 6a strain was found to contain genes encoding chlorocatechol 1,2-dioxygenase, chloromuconate cycloisomerase, and dienelactone hydrolase, whose nucleotide sequence was 100% consistent with the sequences of the corresponding genes encoding the enzymes of the modified 4-chlorocatechol ortho-cleavage pathway of the strain R. opacus 1CP. However, the gene encoding chloromuconolactone dehalogenase (clcF) was not found in the representatives of the actinomycete genera, including Gordonia and Arthrobacter. A linear mega-plasmid carrying 3-chlorocatechol degradation genes remained stable after maintaining the R. opacus 1CP strain on an agar-rich medium for 25 years. In general, a similar plasmid was absent in actinobacteria of other genera, as well as in closely related species of R. opacus 6a. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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16 pages, 2100 KiB  
Article
Two-Stage Oxidative Leaching of Low-Grade Copper–Zinc Sulfide Concentrate
by Aleksandr Bulaev and Vitaliy Melamud
Microorganisms 2022, 10(9), 1781; https://doi.org/10.3390/microorganisms10091781 - 03 Sep 2022
Cited by 3 | Viewed by 1714
Abstract
Bioleaching may be effectively used to extract nonferrous metals from sulfide ores and concentrates. At the same time, some minerals are refractory and their bioleaching rate is often comparatively low that does not allow the required metal extraction rate to be achieved. In [...] Read more.
Bioleaching may be effectively used to extract nonferrous metals from sulfide ores and concentrates. At the same time, some minerals are refractory and their bioleaching rate is often comparatively low that does not allow the required metal extraction rate to be achieved. In the present work, we studied the two-stage process, which included stages of biological and chemical leaching, to improve copper extraction from low grade Cu–Zn sulfide concentrate containing chalcopyrite, tennantite, pyrite, and sphalerite. Bioleaching was conducted in the continuous mode in three laboratory scale reactors connected in series. The pulp density was 10% and the residence time was 7 days. The temperature was 40 °C in the 1st reactor and 50 °C in the 2nd and 3rd reactors. Bioleaching allowed the extraction of 29.5 and 78% of Cu and Zn, respectively. The solid bioleach residue obtained was then treated for additional Cu and Zn recovery using high temperature leaching at 90 °C for 25 h. The liquid phase of the bioleaching pulp contained Fe3+ ions, which is the strong oxidant, and the leach solution was supplemented with NaCl. In the presence of the maximal NaCl concentration (1 M), Cu and Zn extraction reached 48 and 84%. Thus, two-stage leaching may allow to increase bioleaching efficiency and may be used to improve the bioleaching rate of refractory minerals, such as chalcopyrite. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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Review

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17 pages, 11906 KiB  
Review
The Use of Mycelial Fungi to Test the Fungal Resistance of Polymeric Materials
by Natalya Ivanushkina, Kristine Aleksanyan, Svetlana Rogovina and Galina Kochkina
Microorganisms 2023, 11(2), 251; https://doi.org/10.3390/microorganisms11020251 - 19 Jan 2023
Viewed by 1729
Abstract
There are two main themes in the research on the biodegradation of industrial materials by mycelial fungi. The challenge of reducing environmental pollution necessitates the creation of biodegradable polymers that allow microorganisms, including mycelial fungi, to degrade them to low-molecule soluble substances. Additionally, [...] Read more.
There are two main themes in the research on the biodegradation of industrial materials by mycelial fungi. The challenge of reducing environmental pollution necessitates the creation of biodegradable polymers that allow microorganisms, including mycelial fungi, to degrade them to low-molecule soluble substances. Additionally, to minimize the biodegradation of industrial materials while they are operating in the environment, there is a need to produce fungi-resistant polymer compositions. The fungal resistance of industrial materials and products can be assessed using a specific set of mycelial fungi cultures. Test cultures selected for this purpose are supported in the All-Russian Collection of Microorganisms (VKM). This review addresses the principle of culture selection to assess the fungal resistance of industrial materials and evaluates the results of the tests using these cultures. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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23 pages, 4135 KiB  
Review
Current Trends in Metal Biomining with a Focus on Genomics Aspects and Attention to Arsenopyrite Leaching—A Review
by Tatiana Abashina and Mikhail Vainshtein
Microorganisms 2023, 11(1), 186; https://doi.org/10.3390/microorganisms11010186 - 11 Jan 2023
Cited by 4 | Viewed by 1883
Abstract
The presented review is based on scientific microbiological articles and patents in the field of biomining valuable metals. The main attention is paid to publications of the last two decades, which illustrate some shifts in objects of interest and modern trends both in [...] Read more.
The presented review is based on scientific microbiological articles and patents in the field of biomining valuable metals. The main attention is paid to publications of the last two decades, which illustrate some shifts in objects of interest and modern trends both in general and applied microbiology. The review demonstrates that microbial bioleaching continues to develop actively, despite various problems in its industrial application. The previous classic trends in the microbial bioleaching persist and remain unchanged, including (i) the search for and selection of new effective species and strains and (ii) technical optimization of the bioleaching process. Moreover, new trends were formed during the last decades with an emphasis on the phylogeny of leaching microbiota and on genomes of the leaching microorganisms. This area of genomics provides new, interesting information and forms a basis for the subsequent construction of new leaching strains. For example, this review mentions some changed strains with increased resistance to toxic compounds. Additionally, the review considers some problems of bioleaching valuable metals from toxic arsenopyrite. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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23 pages, 3118 KiB  
Review
Relationship between Bacterial Contribution and Self-Healing Effect of Cement-Based Materials
by Olja Šovljanski, Ana Tomić and Siniša Markov
Microorganisms 2022, 10(7), 1399; https://doi.org/10.3390/microorganisms10071399 - 11 Jul 2022
Cited by 12 | Viewed by 2504
Abstract
The civil research community has been attracted to self-healing bacterial-based concrete as a potential solution in the economy 4.0 era. This concept provides more sustainable material with a longer lifetime due to the reduction of crack appearance and the need for anthropogenic impact. [...] Read more.
The civil research community has been attracted to self-healing bacterial-based concrete as a potential solution in the economy 4.0 era. This concept provides more sustainable material with a longer lifetime due to the reduction of crack appearance and the need for anthropogenic impact. Regardless of the achievements in this field, the gap in the understanding of the importance of the bacterial role in self-healing concrete remains. Therefore, understanding the bacterial life cycle in the self-healing effect of cement-based materials and selecting the most important relationship between bacterial contribution, self-healing effect, and material characteristics through the process of microbiologically (bacterially) induced carbonate precipitation is just the initial phase for potential applications in real environmental conditions. The concept of this study offers the possibility to recognize the importance of the bacterial life cycle in terms of application in extreme conditions of cement-based materials and maintaining bacterial roles during the self-healing effect. Full article
(This article belongs to the Special Issue Microorganisms in Biogeotechnology, Biocorrosion and Remediation)
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