1
|
Tao L, Chiarelli MP, Pavlova S, Kolokythas A, Schwartz J, DeFrancesco J, Salameh B, Green SJ, Adami G. Enrichment of polycyclic aromatic hydrocarbon metabolizing microorganisms on the oral mucosa of tobacco users. PeerJ 2024; 12:e16626. [PMID: 38188172 PMCID: PMC10771095 DOI: 10.7717/peerj.16626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2023] [Accepted: 11/16/2023] [Indexed: 01/09/2024] Open
Abstract
Certain soil microbes resist and metabolize polycyclic aromatic hydrocarbons (PAHs). The same is true for a subset of skin microbes. In the human mouth, oral microbes have the potential to oxidize tobacco PAHs, thereby increasing these chemicals' ability to cause cancer of adjacent epithelium. We hypothesized that we could identify, in smokers, the oral mucosal microbes that can metabolize PAH. We isolated bacteria and fungi that survived long-term in minimal media with PAHs as the sole carbon source, under aerobic conditions, from the oral mucosa in 17 of 26 smokers and two of 14 nonsmokers. Of bacteria genera that survived harsh PAH exposure in vitro, most were found at trace levels, except for Staphylococcus, Actinomyces, and Kingella, which were more abundant. Two PAH-resistant strains of Candida albicans (C. albicans) were isolated from smokers. C. albicans was a prime candidate to contribute to carcinogenesis in tobacco users as it is found orally at high levels in tobacco users on the mucosa, and some Candida species can metabolize PAHs. However, when C. albicans isolates were tested for metabolism of two model PAH substrates, pyrene and phenanthrene, they were not capable, suggesting they cannot metabolize PAH under the conditions used. In conclusion, evidence for large scale microbial degradation of tobacco PAHs under aerobic conditions on the oral mucosa remains lacking, though nonabundant PAH metabolizers are certainly present.
Collapse
Affiliation(s)
- Lin Tao
- Department of Oral Biology, College of Dentistry, University of Illinois Chicago, Chicago, IL, United States of America
| | - M Paul Chiarelli
- Department of Chemistry and Biochemistry, Loyola University of Chicago, Chicago, IL, United States of America
| | - Sylvia Pavlova
- Department of Oral Biology, College of Dentistry, University of Illinois Chicago, Chicago, IL, United States of America
| | - Antonia Kolokythas
- Department of Oral and Maxillofacial Surgery, Eastman Institute for Oral Health, University of Rochester, Rochester, NY, United States of America
| | - Joel Schwartz
- Oral Medicine and Diagnostic Sciences, University of Illinois Chicago, Chicago, IL, United States of America
| | - James DeFrancesco
- Forensic Science Program — Department of Criminal Justice, Loyola University of Chicago, Chicago, IL, United States of America
| | - Benjamin Salameh
- Oral Medicine and Diagnostic Sciences, University of Illinois Chicago, Chicago, IL, United States of America
| | - Stefan J. Green
- DNA Sequencing Core, Research Resources Center, University of Illinois Chicago, Chicago, IL, United States of America
| | - Guy Adami
- Oral Medicine and Diagnostic Sciences, University of Illinois Chicago, Chicago, IL, United States of America
| |
Collapse
|
2
|
Cockell CS. Bridging the gap between microbial limits and extremes in space: space microbial biotechnology in the next 15 years. Microb Biotechnol 2022; 15:29-41. [PMID: 34534397 PMCID: PMC8719799 DOI: 10.1111/1751-7915.13927] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2021] [Accepted: 09/05/2021] [Indexed: 12/01/2022] Open
Abstract
The establishment of a permanent human settlement in space is one of humanity's ambitions. To achieve this, microorganisms will be used to carry out many functions such as recycling, food and pharmaceutical production, mining and other processes. However, the physical and chemical extremes in all locations beyond Earth exceed known growth limits of microbial life. Making microbes more tolerant of a greater range of extraterrestrial extremes will not produce organisms that can grow in unmodified extraterrestrial environments since in many of them not even liquid water can exist. However, by narrowing the gap, the engineering demands on bioindustrial processes can be reduced and greater robustness can be incorporated into the biological component. I identify and describe these required microbial biotechnological modifications and speculate on long-term possibilities such as microbial biotechnology on Saturn's moon Titan to support a human presence in the outer Solar System and bioprocessing of asteroids. A challenge for space microbial biotechnology in the coming decades is to narrow the microbial gap by systemically identifying the genes required to do this and incorporating them into microbial systems that can be used to carry out bioindustrial processes of interest.
Collapse
Affiliation(s)
- Charles S. Cockell
- UK Centre for AstrobiologySchool of Physics and AstronomyUniversity of EdinburghEdinburghUK
| |
Collapse
|
3
|
Nzila A, Musa MM, Sankara S, Al-Momani M, Xiang L, Li QX. Degradation of benzo[a]pyrene by halophilic bacterial strain Staphylococcus haemoliticus strain 10SBZ1A. PLoS One 2021; 16:e0247723. [PMID: 33630955 PMCID: PMC7939701 DOI: 10.1371/journal.pone.0247723] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2020] [Accepted: 02/11/2021] [Indexed: 11/21/2022] Open
Abstract
The exploitation of petroleum oil generates a considerable amount of “produced water or petroleum waste effluent (PWE)” that is contaminated with polycyclic aromatic hydrocarbons (PAHs), including Benzo[a]pyrene (BaP). PWE is characterised by its high salinity, which can be as high as 30% NaCl, thus the exploitation of biodegradation to remove PAHs necessitates the use of active halophilic microbes. The strain 10SBZ1A was isolated from oil contaminated soils, by enrichment experiment in medium containing 10% NaCl (w/v). Homology analyses of 16S rRNA sequences identified 10SBZ1A as a Staphylococcus haemoliticus species, based on 99.99% homology (NCBI, accession number GI: MN388897). The strain could grow in the presence of 4–200 μmol l-1 of BaP as the sole source of carbon, with a doubling time of 17–42 h. This strain optimum conditions for growth were 37 oC, 10% NaCl (w/v) and pH 7, and under these conditions, it degraded BaP at a rate of 0.8 μmol l-1 per day. The strain 10SBZ1A actively degraded PAHs of lower molecular weights than that of BaP, including pyrene, phenanthrene, anthracene. This strain was also capable of removing 80% of BaP in the context of soil spiked with BaP (10 μmol l-1 in 100 g of soil) within 30 days. Finally, a metabolic pathway of BaP was proposed, based on the identified metabolites using liquid chromatography-high resolution tandem mass spectrometry. To the best of our knowledge, this is the first report of a halophilic BaP degrading bacterial strain at salinity > 5% NaCl.
Collapse
Affiliation(s)
- Alexis Nzila
- Department of Life Sciences, King Fahd University of Petroleum and Minerals, Dhahran, Saudi Arabia
- * E-mail:
| | - Musa M. Musa
- Department of Chemistry, King Fahd University of Petroleum and Minerals, Dhahran, Saudi Arabia
| | - Saravanan Sankara
- Department of Life Sciences, King Fahd University of Petroleum and Minerals, Dhahran, Saudi Arabia
| | - Marwan Al-Momani
- Department of Mathematics, King Fahd University of Petroleum and Minerals, Dhahran, Saudi Arabia
| | - Lei Xiang
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, China
| | - Qing X. Li
- Department of Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, Honolulu, Hawaii, United States of America
| |
Collapse
|
4
|
Effect of manure and mineral fertilisers on the content of light and heavy polycyclic aromatic hydrocarbons in soil. Sci Rep 2020; 10:4573. [PMID: 32165651 PMCID: PMC7067873 DOI: 10.1038/s41598-020-61574-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2019] [Accepted: 02/22/2020] [Indexed: 11/24/2022] Open
Abstract
A study was conducted to explore the effects of fertilisation with farmyard manure (FYM) and mineral fertilisers on the content of PAHs in soil. The analyses were made on soil samples (collected in 1998–2009) from a long-term field experiment set up in 1986 in Bałcyny near Ostróda. The content of light and heavy polycyclic aromatic hydrocarbons was determined on a gas chromatograph coupled with an FID detector. The analytical data were processed statistically according to an analysis of variance with repeated measurements. The content of light and heavy polycyclic aromatic hydrocarbons was significantly higher in soil fertilised with FYM than in soil nourished only with mineral fertilisers. The effect of increasing doses of potassium on total light PAHs in soil depended on a fertilisation system – there was either a distinct decrease in soil fertilised with mineral substances alone or a slight increase in soil fertilised with manure. Regular soil liming significantly raised the ∑ of heavy PAHs in soil treated with manure but significantly decreased it in soil supplied only mineral fertilisers.
Collapse
|
5
|
A Comprehensive Review of Aliphatic Hydrocarbon Biodegradation by Bacteria. Appl Biochem Biotechnol 2015; 176:670-99. [PMID: 25935219 DOI: 10.1007/s12010-015-1603-5] [Citation(s) in RCA: 159] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2014] [Accepted: 03/31/2015] [Indexed: 02/07/2023]
Abstract
Hydrocarbons are relatively recalcitrant compounds and are classified as high-priority pollutants. However, these compounds are slowly degraded by a large variety of microorganisms. Bacteria are able to degrade aliphatic saturated and unsaturated hydrocarbons via both aerobic and anaerobic pathways. Branched hydrocarbons and cyclic hydrocarbons are also degraded by bacteria. The aerobic bacteria use different types of oxygenases, including monooxygenase, cytochrome-dependent oxygenase and dioxygenase, to insert one or two atoms of oxygen into their targets. Anaerobic bacteria, on the other hand, employ a variety of simple organic and inorganic molecules, including sulphate, nitrate, carbonate and metals, for hydrocarbon oxidation.
Collapse
|
6
|
Sowada J, Schmalenberger A, Ebner I, Luch A, Tralau T. Degradation of benzo[a]pyrene by bacterial isolates from human skin. FEMS Microbiol Ecol 2014; 88:129-39. [DOI: 10.1111/1574-6941.12276] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2013] [Revised: 12/12/2013] [Accepted: 12/20/2013] [Indexed: 11/29/2022] Open
Affiliation(s)
- Juliane Sowada
- Department for Product Safety; German Federal Institute of Risk Assessment (BfR); Berlin Germany
| | | | - Ingo Ebner
- Department for Product Safety; German Federal Institute of Risk Assessment (BfR); Berlin Germany
| | - Andreas Luch
- Department for Product Safety; German Federal Institute of Risk Assessment (BfR); Berlin Germany
| | - Tewes Tralau
- Department for Product Safety; German Federal Institute of Risk Assessment (BfR); Berlin Germany
| |
Collapse
|
7
|
Ortega-Calvo JJ, Tejeda-Agredano MC, Jimenez-Sanchez C, Congiu E, Sungthong R, Niqui-Arroyo JL, Cantos M. Is it possible to increase bioavailability but not environmental risk of PAHs in bioremediation? JOURNAL OF HAZARDOUS MATERIALS 2013; 261:733-45. [PMID: 23583067 DOI: 10.1016/j.jhazmat.2013.03.042] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2012] [Revised: 02/28/2013] [Accepted: 03/16/2013] [Indexed: 05/21/2023]
Abstract
The current poor predictability of end points associated with the bioremediation of polycyclic aromatic hydrocarbons (PAHs) is a large limitation when evaluating its viability for treating contaminated soils and sediments. However, we have seen a wide range of innovations in recent years, such as an the improved use of surfactants, the chemotactic mobilization of bacterial inoculants, the selective biostimulation at pollutant interfaces, rhizoremediation and electrobioremediation, which increase the bioavailability of PAHs but do not necessarily increase the risk to the environment. The integration of these strategies into practical remediation protocols would be beneficial to the bioremediation industry, as well as improve the quality of the environment.
Collapse
Affiliation(s)
- J J Ortega-Calvo
- Instituto de Recursos Naturales y Agrobiología de Sevilla (IRNAS-CSIC), Apartado 1052, E-41080 Seville, Spain.
| | | | | | | | | | | | | |
Collapse
|
8
|
Nzila A. Update on the cometabolism of organic pollutants by bacteria. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2013; 178:474-82. [PMID: 23570949 DOI: 10.1016/j.envpol.2013.03.042] [Citation(s) in RCA: 96] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2012] [Revised: 03/17/2013] [Accepted: 03/19/2013] [Indexed: 05/20/2023]
Abstract
Each year, tons of various types of molecules pollute our environment, and their elimination is one of the major challenges human kind is facing. Among the strategies to eliminate these pollutants is their biodegradation by microorganisms. However, many pollutants cannot be used efficiently as growth substrates by microorganisms. Biodegradation of such molecules by cometabolism has been reported, which is the ability of a microorganism to biodegrade a pollutant without using it as a growth-substrate (non-growth-substrate), while sustaining its own growth by assimilating a different substrate (growth-substrate). This approach has been used in the field of bioremediation, however, its potential has not been fully exploited yet. This review summarises the work carried out on the cometabolism of important recalcitrant pollutants, and presents strategies that can be used to improve ways of identifying microorganisms that can cometabolise such recalcitrant pollutants.
Collapse
Affiliation(s)
- Alexis Nzila
- King Fahd University of Petroleum and Minerals, Department of Biology, PO Box 468, Dhahran 31261, Saudi Arabia.
| |
Collapse
|
9
|
Potential applications of bioprocess technology in petroleum industry. Biodegradation 2012; 23:865-80. [DOI: 10.1007/s10532-012-9577-2] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2012] [Accepted: 07/17/2012] [Indexed: 11/25/2022]
|
10
|
Reddy MV, Devi MP, Chandrasekhar K, Goud RK, Mohan SV. Aerobic remediation of petroleum sludge through soil supplementation: microbial community analysis. JOURNAL OF HAZARDOUS MATERIALS 2011; 197:80-87. [PMID: 22019106 DOI: 10.1016/j.jhazmat.2011.09.061] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2011] [Revised: 08/08/2011] [Accepted: 09/15/2011] [Indexed: 05/31/2023]
Abstract
The effect of soil concentration on the aerobic degradation of real-field petroleum sludge was studied in slurry phase reactor. Total petroleum hydrocarbons (TPH) and polycyclic aromatic hydrocarbons (PAHs) showed effective removal but found to depend on the soil concentration. Aromatic fraction (48.12%) documented effective degradation compared to aliphatics (47.31%), NSO (28.69%) and asphaltenes (26.66%). PAHs profile showed efficient degradation of twelve individual aromatic compounds where lower ring compounds showed relatively higher degradation efficiency compared to the higher ring compounds. The redox behaviour and dehydrogenase activity showed a linear increment with the degradation pattern. Microbial community composition and changes during bioremediation were studied using denaturing gradient gel electrophoresis (DGGE). Among the 12 organisms identified, Proteobacteria was found to be dominant representing 50% of the total population (25% of γ-proteobacteria; 16.6% of β-proteobacteria; 8.3% of α-proteobacteria), while 33.3% were of uncultured bacteria and 16.6% were of firmicutes.
Collapse
Affiliation(s)
- M Venkateswar Reddy
- Bioengineering and Environmental Centre (BEEC), Indian Institute of Chemical Technology CSIR-IICT, Hyderabad, India
| | | | | | | | | |
Collapse
|
11
|
Cerqueira VS, Hollenbach EB, Maboni F, Camargo FAO, Peralba MDCR, Bento FM. Bioprospection and selection of bacteria isolated from environments contaminated with petrochemical residues for application in bioremediation. World J Microbiol Biotechnol 2011; 28:1203-22. [PMID: 22805841 DOI: 10.1007/s11274-011-0923-z] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2011] [Accepted: 10/14/2011] [Indexed: 10/16/2022]
Abstract
The use of microorganisms with hydrocarbon degrading capability and biosurfactant producers have emerged as an alternative for sustainable treatment of environmental passives. In this study 45 bacteria were isolated from samples contaminated with petrochemical residues, from which 21 were obtained from Landfarming soil contaminated with oily sludge, 11 were obtained from petrochemical industry effluents and 13 were originated directly from oily sludge. The metabolization capability of different carbon sources, growth capacity and tolerance, biosurfactant production and enzymes detection were determined. A preliminary selection carried out through the analysis of capability for degrading hydrocarbons showed that 22% of the isolates were able to degrade all carbon sources employed. On the other hand, in 36% of the isolates, the degradation of the oily sludge started within 18-48 h. Those isolates were considered as the most efficient ones. Twenty isolates, identified based on partial sequencing of the 16S rRNA gene, were pre-selected. These isolates showed ability for growing in a medium containing 1% of oily sludge as the sole carbon source, tolerance in a medium containing up to 30% of oily sludge, ability for biosurfactant production, and expression of enzymes involved in degradation of aliphatic and aromatic compounds. Five bacteria, identified as Stenotrophomonas acidaminiphila BB5, Bacillus megaterium BB6, Bacillus cibi, Pseudomonas aeruginosa, and Bacillus cereus BS20 were shown to be promising for use as inoculum in bioremediation processes (bioaugmentation) of areas contaminated with petrochemical residues since they can use oily sludge as the sole carbon source and produce biosurfactants.
Collapse
Affiliation(s)
- Vanessa S Cerqueira
- Department of Microbiology, Federal University of Rio Grande Do Sul, Sarmento Leite, 500, CEP 90050-170 Porto Alegre, RS, Brazil.
| | | | | | | | | | | |
Collapse
|
12
|
Mallick S, Chakraborty J, Dutta TK. Role of oxygenases in guiding diverse metabolic pathways in the bacterial degradation of low-molecular-weight polycyclic aromatic hydrocarbons: a review. Crit Rev Microbiol 2010; 37:64-90. [PMID: 20846026 DOI: 10.3109/1040841x.2010.512268] [Citation(s) in RCA: 96] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Widespread environmental pollution by polycyclic aromatic hydrocarbons (PAHs) poses an immense risk to the environment. Bacteria-mediated attenuation has a great potential for the restoration of PAH-contaminated environment in an ecologically accepted manner. Bacterial degradation of PAHs has been extensively studied and mining of biodiversity is ever expanding the biodegradative potentials with intelligent manipulation of catabolic genes and adaptive evolution to generate multiple catabolic pathways. The present review of bacterial degradation of low-molecular-weight (LMW) PAHs describes the current knowledge about the diverse metabolic pathways depicting novel metabolites, enzyme-substrate/metabolite relationships, the role of oxygenases and their distribution in phylogenetically diverse bacterial species.
Collapse
Affiliation(s)
- Somnath Mallick
- Department of Chemistry, Saldiha College, Bankura, West Bengal, India
| | | | | |
Collapse
|
13
|
|
14
|
Nolan LC, O'Connor KE. Dioxygenase- and monooxygenase-catalysed synthesis of cis-dihydrodiols, catechols, epoxides and other oxygenated products. Biotechnol Lett 2008; 30:1879-91. [PMID: 18612597 DOI: 10.1007/s10529-008-9791-5] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2008] [Revised: 06/20/2008] [Accepted: 06/24/2008] [Indexed: 11/29/2022]
Affiliation(s)
- Louise C Nolan
- School of Biomolecular and Biomedical Science, Centre for Synthesis and Chemical Biology, Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
| | | |
Collapse
|
15
|
Identification of pyrene‐degradation pathways: Bench‐scale studies usingPseudomonas fluorescens 29L. ACTA ACUST UNITED AC 2008. [DOI: 10.1002/rem.20176] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|