Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria
Sensing surface topography, an upsurge of signaling biomolecules, and upholding cellular homeostasis are the rate-limiting spatio-temporal events in microbial attachment and biofilm formation. Initially, a set of highly specialized proteins, viz. conditioning protein, directs the irreversible attach...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2022.1008536/full |
| _version_ | 1811192331335892992 |
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| author | Dheeraj Raya Dheeraj Raya Aritree Shreya Aritree Shreya Anil Kumar Shiv Kumar Giri David R. Salem Etienne Z. Gnimpieba Etienne Z. Gnimpieba Venkataramana Gadhamshetty Venkataramana Gadhamshetty Saurabh Sudha Dhiman Saurabh Sudha Dhiman Saurabh Sudha Dhiman |
| author_facet | Dheeraj Raya Dheeraj Raya Aritree Shreya Aritree Shreya Anil Kumar Shiv Kumar Giri David R. Salem Etienne Z. Gnimpieba Etienne Z. Gnimpieba Venkataramana Gadhamshetty Venkataramana Gadhamshetty Saurabh Sudha Dhiman Saurabh Sudha Dhiman Saurabh Sudha Dhiman |
| author_sort | Dheeraj Raya |
| collection | DOAJ |
| description | Sensing surface topography, an upsurge of signaling biomolecules, and upholding cellular homeostasis are the rate-limiting spatio-temporal events in microbial attachment and biofilm formation. Initially, a set of highly specialized proteins, viz. conditioning protein, directs the irreversible attachment of the microbes. Later signaling molecules, viz. autoinducer, take over the cellular communication phenomenon, resulting in a mature microbial biofilm. The mandatory release of conditioning proteins and autoinducers corroborated the existence of two independent mechanisms operating sequentially for biofilm development. However, both these mechanisms are significantly affected by the availability of the cofactor, e.g., Copper (Cu). Generally, the Cu concentration beyond threshold levels is detrimental to the anaerobes except for a few species of sulfate-reducing bacteria (SRB). Remarkably SRB has developed intricate ways to resist and thrive in the presence of Cu by activating numerous genes responsible for modifying the presence of more toxic Cu(I) to Cu(II) within the periplasm, followed by their export through the outer membrane. Therefore, the determinants of Cu toxicity, sequestration, and transportation are reconnoitered for their contribution towards microbial adaptations and biofilm formation. The mechanistic details revealing Cu as a quorum quencher (QQ) are provided in addition to the three pathways involved in the dissolution of cellular communications. This review articulates the Machine Learning based data curing and data processing for designing novel anti-biofilm peptides and for an in-depth understanding of QQ mechanisms. A pioneering data set has been mined and presented on the functional properties of the QQ homolog in Oleidesulfovibrio alaskensis G20 and residues regulating the multicopper oxidase properties in SRB. |
| first_indexed | 2024-04-11T23:50:55Z |
| format | Article |
| id | doaj.art-51dedbd0d2f4486aa73064b7ea6dc5b7 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-04-11T23:50:55Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-51dedbd0d2f4486aa73064b7ea6dc5b72022-12-22T03:56:30ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2022-10-011310.3389/fmicb.2022.10085361008536Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteriaDheeraj Raya0Dheeraj Raya1Aritree Shreya2Aritree Shreya3Anil Kumar4Shiv Kumar Giri5David R. Salem6Etienne Z. Gnimpieba7Etienne Z. Gnimpieba8Venkataramana Gadhamshetty9Venkataramana Gadhamshetty10Saurabh Sudha Dhiman11Saurabh Sudha Dhiman12Saurabh Sudha Dhiman13Department of Civil and Environmental Engineering, South Dakota Mines, Rapid City, SD, United States2DBEST Research Center, South Dakota Mines, Rapid City, SD, United StatesDepartment of Civil and Environmental Engineering, South Dakota Mines, Rapid City, SD, United States2DBEST Research Center, South Dakota Mines, Rapid City, SD, United StatesCentre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, Haryana, IndiaDepartment of Biotechnology, Maharaja Agrasen University, Baddi, Himachal Pradesh, IndiaChemical and Biological Engineering, South Dakota Mines, Rapid City, SD, United States2DBEST Research Center, South Dakota Mines, Rapid City, SD, United StatesDepartment of Biomedical Engineering, University of South Dakota, Vermillion, SD, United StatesDepartment of Civil and Environmental Engineering, South Dakota Mines, Rapid City, SD, United States2DBEST Research Center, South Dakota Mines, Rapid City, SD, United StatesDepartment of Civil and Environmental Engineering, South Dakota Mines, Rapid City, SD, United States2DBEST Research Center, South Dakota Mines, Rapid City, SD, United StatesDepartment of Chemistry, Biology and Health Sciences, South Dakota Mines, Rapid City, SD, United StatesSensing surface topography, an upsurge of signaling biomolecules, and upholding cellular homeostasis are the rate-limiting spatio-temporal events in microbial attachment and biofilm formation. Initially, a set of highly specialized proteins, viz. conditioning protein, directs the irreversible attachment of the microbes. Later signaling molecules, viz. autoinducer, take over the cellular communication phenomenon, resulting in a mature microbial biofilm. The mandatory release of conditioning proteins and autoinducers corroborated the existence of two independent mechanisms operating sequentially for biofilm development. However, both these mechanisms are significantly affected by the availability of the cofactor, e.g., Copper (Cu). Generally, the Cu concentration beyond threshold levels is detrimental to the anaerobes except for a few species of sulfate-reducing bacteria (SRB). Remarkably SRB has developed intricate ways to resist and thrive in the presence of Cu by activating numerous genes responsible for modifying the presence of more toxic Cu(I) to Cu(II) within the periplasm, followed by their export through the outer membrane. Therefore, the determinants of Cu toxicity, sequestration, and transportation are reconnoitered for their contribution towards microbial adaptations and biofilm formation. The mechanistic details revealing Cu as a quorum quencher (QQ) are provided in addition to the three pathways involved in the dissolution of cellular communications. This review articulates the Machine Learning based data curing and data processing for designing novel anti-biofilm peptides and for an in-depth understanding of QQ mechanisms. A pioneering data set has been mined and presented on the functional properties of the QQ homolog in Oleidesulfovibrio alaskensis G20 and residues regulating the multicopper oxidase properties in SRB.https://www.frontiersin.org/articles/10.3389/fmicb.2022.1008536/fullcopper toxicitymachine learningquorum sensingconditioning proteinhomology modelingmetabolic flux |
| spellingShingle | Dheeraj Raya Dheeraj Raya Aritree Shreya Aritree Shreya Anil Kumar Shiv Kumar Giri David R. Salem Etienne Z. Gnimpieba Etienne Z. Gnimpieba Venkataramana Gadhamshetty Venkataramana Gadhamshetty Saurabh Sudha Dhiman Saurabh Sudha Dhiman Saurabh Sudha Dhiman Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria Frontiers in Microbiology copper toxicity machine learning quorum sensing conditioning protein homology modeling metabolic flux |
| title | Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| title_full | Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| title_fullStr | Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| title_full_unstemmed | Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| title_short | Molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| title_sort | molecular regulation of conditioning film formation and quorum quenching in sulfate reducing bacteria |
| topic | copper toxicity machine learning quorum sensing conditioning protein homology modeling metabolic flux |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2022.1008536/full |
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