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Dos Santos ES, de Azevedo Santos Ferreira J, Dos Santos JN, Chinalia FA, Matos JL, Coqueiro G, Ramos-de-Souza E, de Almeida PF. Screening and testing potential inhibitors of sulphide gas production by sulphate-reducing bacteria. J Mol Model 2021; 27:189. [PMID: 34046767 DOI: 10.1007/s00894-021-04801-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Accepted: 05/17/2021] [Indexed: 11/28/2022]
Abstract
Sulphate-reducing bacteria are commonly associated with biological causes of oil well souring. Biosulphetogenesis can directly affect oil quality and storage due to the accumulation of sulphides. In addition, these microorganisms can create bio-incrustation that can clog pipes. Sulphite reductase (SIR) is the enzyme responsible for converting ion sulphite into sulphide and several substances may interfere or control such activity. This interference can hinder growth of the sulphate-reducing bacteria and, consequently, it reduces sulphide accumulation in situ. This work focuses on molecular modelling techniques along with in vitro experiments in order to investigate the potential of two essential oils and one vegetable oil as main inhibitors of sulphite reductase activity. Docking simulation identified several substances present in Rosmarinus officinalis, Tea tree and Neem extractable oils as potential inhibitors of SIR. Substances present in Neem vegetable oil are the most potent inhibitors, followed by Rosmarinus officinalis and Tea tree essential oils. The Neem oil mixture showed a superior effectiveness in intracellular SIR inhibitory effects.
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Affiliation(s)
- Elias Silva Dos Santos
- Instituto de Física, Universidade Federal da Bahia, Rua Barão de Geremoabo s/n - Ondina, Salvador, BA, 40.300-000, Brazil.
| | - Joalene de Azevedo Santos Ferreira
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
| | - Jacson Nunes Dos Santos
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
| | - Fábio Alexandre Chinalia
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
| | - Josilene Lima Matos
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
| | - Gustavo Coqueiro
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
| | - Elias Ramos-de-Souza
- Instituto Federal de Educação, Ciência e Tecnologia da Bahia, Rua Emídio dos Santos, s/n, Barbalho, Salvador, BA, 40.301-015, Brazil
| | - Paulo Fernando de Almeida
- Instituto de Ciências da Saúde, Universidade Federal da Bahia, Av. Reitor Miguel Calmon, s/n - Vale do Canela, Salvador, BA, 40.231-300, Brazil
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Fan F, Zhang B, Liu J, Cai Q, Lin W, Chen B. Towards sulfide removal and sulfate reducing bacteria inhibition: Function of biosurfactants produced by indigenous isolated nitrate reducing bacteria. CHEMOSPHERE 2020; 238:124655. [PMID: 31472344 DOI: 10.1016/j.chemosphere.2019.124655] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2019] [Revised: 08/21/2019] [Accepted: 08/23/2019] [Indexed: 06/10/2023]
Abstract
The effectiveness of nitrate-mediated souring control highly depends on the interactions of sulfate reducing bacteria (SRB) and nitrate reducing bacteria (NRB). Biosurfactants produced by natural NRB are promising bio-agents for enhancing NRB competence towards SRB. However, the function of NRB-produced biosurfactants in NRB-SRB interactions remains unexplored due to the rarely successful isolation of natural biosurfactant-producing NRB. Hereby, biosurfactant-aided inhibitory control of SRB strain Desulfomicrobium escambiense ATCC 51164 by biosurfactant-producing NRB strain Pseudomonas stutzeri CX3, reported in our previous work, was investigated. Under non-sour conditions, insufficient nitrate injection resulted in limited SRB inhibition. Phospholipid fatty acid (PLFA) biomarkers traced the overall bacterial responses. Compositional PLFA patterns revealed biosurfactant addition benefitted both SRB and NRB towards stressful conditions. Under sour conditions, nitrite oxidation of sulfide proved to be the primary mechanism for sulfide removal. The subsequent elevation of redox potential and pH inhibited SRB activities. NRB-produced biosurfactants significantly enhanced SRB inhibition by NRB through more efficient sulfide removal and effective duration of nitrate in the microcosms. Biosurfactants specially produced by the NRB strain are for the first time reported to significantly strengthen SRB inhibition by NRB via reduced nitrate usage and prolonged effective duration of nitrate, which has encouraging potential in nitrate-dependent souring control.
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Affiliation(s)
- Fuqiang Fan
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
| | - Baiyu Zhang
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
| | - Jiabin Liu
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
| | - Qinhong Cai
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
| | - Weiyun Lin
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
| | - Bing Chen
- Northern Region Persistent Organic Pollution Control (NRPOP) Laboratory, Faculty of Engineering and Applied Science, Memorial University of Newfoundland, St. John's, NL, A1B 3X5, Canada.
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Nesbø CL, Charchuk R, Pollo SMJ, Budwill K, Kublanov IV, Haverkamp THA, Foght J. Genomic analysis of the mesophilic Thermotogae genusMesotogareveals phylogeographic structure and genomic determinants of its distinct metabolism. Environ Microbiol 2018; 21:456-470. [DOI: 10.1111/1462-2920.14477] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Revised: 10/15/2018] [Accepted: 11/06/2018] [Indexed: 11/28/2022]
Affiliation(s)
- Camilla L. Nesbø
- Department of Biological Sciences; University of Alberta; Edmonton AB Canada
- BioZone, Department of Chemical Engineering and Applied Chemistry; Wallberg Building, University of Toronto; Toronto ON Canada
- Centre for Ecological and Evolutionary Synthesis, Department of Biosciences; University of Oslo; Blindern, Oslo Norway
| | - Rhianna Charchuk
- Department of Biological Sciences; University of Alberta; Edmonton AB Canada
| | - Stephen M. J. Pollo
- Department of Biological Sciences; University of Alberta; Edmonton AB Canada
| | | | - Ilya V. Kublanov
- Winogradsky Institute of Microbiology, Federal Research Center of Biotechnology; Russian Academy of Sciences; Moscow Russia
| | - Thomas H. A. Haverkamp
- Centre for Ecological and Evolutionary Synthesis, Department of Biosciences; University of Oslo; Blindern, Oslo Norway
- Norwegian Veterinary Institute; Oslo Norway
| | - Julia Foght
- Department of Biological Sciences; University of Alberta; Edmonton AB Canada
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Zhao F, Zhou JD, Ma F, Shi RJ, Han SQ, Zhang J, Zhang Y. Simultaneous inhibition of sulfate-reducing bacteria, removal of H2S and production of rhamnolipid by recombinant Pseudomonas stutzeri Rhl: Applications for microbial enhanced oil recovery. BIORESOURCE TECHNOLOGY 2016; 207:24-30. [PMID: 26868152 DOI: 10.1016/j.biortech.2016.01.126] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Revised: 01/29/2016] [Accepted: 01/30/2016] [Indexed: 06/05/2023]
Abstract
Sulfate-reducing bacteria (SRB) are widely existed in oil production system, and its H2S product inhibits rhamnolipid producing bacteria. In-situ production of rhamnolipid is promising for microbial enhanced oil recovery. Inhibition of SRB, removal of H2S and production of rhamnolipid by recombinant Pseudomonas stutzeri Rhl were investigated. Strain Rhl can simultaneously remove S(2-) (>92%) and produce rhamnolipid (>136mg/l) under S(2-) stress below 33.3mg/l. Rhl reduced the SRB numbers from 10(9) to 10(5)cells/ml, and the production of H2S was delayed and decreased to below 2mg/l. Rhl also produced rhamnolipid and removed S(2-) under laboratory simulated oil reservoir conditions. High-throughput sequencing data demonstrated that addition of strain Rhl significantly changed the original microbial communities of oilfield production water and decreased the species and abundance of SRB. Bioaugmentation of strain Rhl in oilfield is promising for simultaneous control of SRB, removal of S(2-) and enhance oil recovery.
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Affiliation(s)
- Feng Zhao
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, Liaoning Province 110016, China; State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, Harbin 150090, China
| | - Ji-Dong Zhou
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, Liaoning Province 110016, China
| | - Fang Ma
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, Harbin 150090, China
| | - Rong-Jiu Shi
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, Liaoning Province 110016, China
| | - Si-Qin Han
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, Liaoning Province 110016, China
| | - Jie Zhang
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, Harbin 150090, China
| | - Ying Zhang
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, Liaoning Province 110016, China.
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da Silva MLB, Soares HM, Furigo A, Schmidell W, Corseuil HX. Effects of Nitrate Injection on Microbial Enhanced Oil Recovery and Oilfield Reservoir Souring. Appl Biochem Biotechnol 2014; 174:1810-21. [DOI: 10.1007/s12010-014-1161-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2014] [Accepted: 08/15/2014] [Indexed: 10/24/2022]
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Stasik S, Wendt-Potthoff K. Interaction of microbial sulphate reduction and methanogenesis in oil sands tailings ponds. CHEMOSPHERE 2014; 103:59-66. [PMID: 24325799 DOI: 10.1016/j.chemosphere.2013.11.025] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2013] [Revised: 10/29/2013] [Accepted: 11/08/2013] [Indexed: 06/03/2023]
Abstract
Anaerobic turnover of organic compounds in oil sands tailings ponds is accomplished by a complex microbial consortium. We examined major electron accepting processes in mature fine tailings (MFT). Beside methanogenesis and sulphate reduction, microbial iron reduction was an important process of anaerobic respiration. Microbial numbers and activity were comparable to those reported for natural lakes. To understand metabolic interactions of indigenous methanogenic and sulphate-reducing communities, we conducted a 6 month microcosm experiment with MFT supplemented with easily available carbon sources and molybdate and/or 2-bromoethane sulphonate (BES) as specific inhibitors for sulphate reduction and methanogenesis. Methanogenesis increased when microcosms were supplemented with extra carbon, but was completely inhibited by the addition of BES. Molybdate not only inhibited sulphate reduction, but also methanogenesis, indicating a positive relation between the two processes. The turnover of extra carbon sources differed between microcosms treated with molybdate and BES. Acetate and propionate were not consumed in microcosms amended with molybdate, indicating that sulphate-reducing bacteria (SRB) were responsible for their metabolisation, and that methane was rather produced by hydrogenotrophic methanogens. In microcosms without molybdate, acetate transiently accumulated, indicating the activity of both incomplete and complete oxidizing SRB. Ethanol and lactate were also consumed in the simultaneous presence of BES and molybdate, demonstrating the occurrence of other anaerobic processes. Biomass increased by the addition of extra carbon, mainly due to a relative increase in the proportion of SRB. The addition of extra carbon lowered the degradation of BTEX compounds.
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Affiliation(s)
- Sebastian Stasik
- UFZ Helmholtz Centre for Environmental Research, Department Lake Research, Brückstraße 3a, 39114 Magdeburg, Germany.
| | - Katrin Wendt-Potthoff
- UFZ Helmholtz Centre for Environmental Research, Department Lake Research, Brückstraße 3a, 39114 Magdeburg, Germany
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Foght JM, Siddique T, Gieg LM. Protocols for Handling, Storing, and Cultivating Oil Sands Tailings Ponds Materials for Microbial and Molecular Biological Study. SPRINGER PROTOCOLS HANDBOOKS 2014. [DOI: 10.1007/8623_2014_26] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
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8
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Biological souring and mitigation in oil reservoirs. Appl Microbiol Biotechnol 2011; 92:263-82. [DOI: 10.1007/s00253-011-3542-6] [Citation(s) in RCA: 211] [Impact Index Per Article: 16.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2011] [Revised: 07/29/2011] [Accepted: 08/05/2011] [Indexed: 02/07/2023]
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Harner NK, Richardson TL, Thompson KA, Best RJ, Best AS, Trevors JT. Microbial processes in the Athabasca Oil Sands and their potential applications in microbial enhanced oil recovery. J Ind Microbiol Biotechnol 2011; 38:1761-75. [DOI: 10.1007/s10295-011-1024-6] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2011] [Accepted: 07/24/2011] [Indexed: 11/29/2022]
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Kumaraswamy R, Ebert S, Gray MR, Fedorak PM, Foght JM. Molecular- and cultivation-based analyses of microbial communities in oil field water and in microcosms amended with nitrate to control H2S production. Appl Microbiol Biotechnol 2010; 89:2027-38. [DOI: 10.1007/s00253-010-2974-8] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2010] [Revised: 10/18/2010] [Accepted: 10/18/2010] [Indexed: 11/29/2022]
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11
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Hulecki JC, Foght JM, Fedorak PM. Storage of oil field-produced waters alters their chemical and microbiological characteristics. J Ind Microbiol Biotechnol 2010; 37:471-81. [DOI: 10.1007/s10295-010-0693-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2009] [Accepted: 01/28/2010] [Indexed: 10/19/2022]
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