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Abdullah K, Wilkins D, Ferrari BC. Utilization of-Omic technologies in cold climate hydrocarbon bioremediation: a text-mining approach. Front Microbiol 2023; 14:1113102. [PMID: 37396353 PMCID: PMC10313077 DOI: 10.3389/fmicb.2023.1113102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Accepted: 05/02/2023] [Indexed: 07/04/2023] Open
Abstract
Hydrocarbon spills in cold climates are a prominent and enduring form of anthropogenic contamination. Bioremediation is one of a suite of remediation tools that has emerged as a cost-effective strategy for transforming these contaminants in soil, ideally into less harmful products. However, little is understood about the molecular mechanisms driving these complex, microbially mediated processes. The emergence of -omic technologies has led to a revolution within the sphere of environmental microbiology allowing for the identification and study of so called 'unculturable' organisms. In the last decade, -omic technologies have emerged as a powerful tool in filling this gap in our knowledge on the interactions between these organisms and their environment in vivo. Here, we utilize the text mining software Vosviewer to process meta-data and visualize key trends relating to cold climate bioremediation projects. The results of text mining of the literature revealed a shift over time from optimizing bioremediation experiments on the macro/community level to, in more recent years focusing on individual organisms of interest, interactions within the microbiome and the investigation of novel metabolic degradation pathways. This shift in research focus was made possible in large part by the rise of omics studies allowing research to focus not only what organisms/metabolic pathways are present but those which are functional. However, all is not harmonious, as the development of downstream analytical methods and associated processing tools have outpaced sample preparation methods, especially when dealing with the unique challenges posed when analyzing soil-based samples.
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Affiliation(s)
- Kristopher Abdullah
- Faculty of Science, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Daniel Wilkins
- Environmental Stewardship Program, Australian Antarctic Division, Department of Climate Change, Energy, Environment and Water, Kingston, TAS, Australia
| | - Belinda C. Ferrari
- Faculty of Science, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia
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2
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Xu Y, Jing Y, Zhang Q, Xiu J, Tian M, Cui Q, Ma Y, Yi L, Han L, Qian Y, Zhang Y, Nie Y, Wu XL. Improving Rhamnolipids Biosynthesis in Pseudomonas sp. L01 through Atmospheric and Room-Temperature Plasma (ARTP) Mutagenesis. Microorganisms 2023; 11:1182. [PMID: 37317155 DOI: 10.3390/microorganisms11051182] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Revised: 04/28/2023] [Accepted: 04/28/2023] [Indexed: 06/16/2023] Open
Abstract
Biosurfactants have significant applications in various industries, including microbial-enhanced oil recovery (MEOR). While the state-of-the-art genetic approaches can generate high-yield strains for biosurfactant production in fermenters, there remains a critical challenge in enhancing biosurfactant-producing strains for use in natural environments with minimal ecological risks. The objectives of this work are enhancing the strain's capacity for rhamnolipids production and exploring the genetic mechanisms for its improvement. In this study, we employed atmospheric and room-temperature plasma (ARTP) mutagenesis to enhance the biosynthesis of rhamnolipids in Pseudomonas sp. L01, a biosurfactant-producing strain isolated from petroleum-contaminated soil. Following ARTP treatment, we identified 13 high-yield mutants, with the highest yield of 3.45 ± 0.09 g/L, representing a 2.7-fold increase compared to the parent strain. To determine the genetic mechanisms behind the enhanced rhamnolipids biosynthesis, we sequenced the genomes of the strain L01 and five high-yield mutants. A comparative genomic analysis suggested that mutations in genes related to the synthesis of lipopolysaccharides (LPS) and the transport of rhamnolipids may contribute to the improved biosynthesis. To the best of our knowledge, this is the first instance of utilizing the ARTP approach to improve rhamnolipid production in Pseudomonas strains. Our study provides valuable insights into the enhancement of biosurfactant-producing strains and the regulatory mechanisms of rhamnolipids biosynthesis.
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Affiliation(s)
- Ying Xu
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Yali Jing
- College of Chemical Engineering and Environment, China University of Petroleum-Beijing, Beijing 102249, China
| | - Qun Zhang
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Jianlong Xiu
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Maozhang Tian
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Qingfeng Cui
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Yuandong Ma
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Lina Yi
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Lu Han
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Yuchen Qian
- State Key Laboratory of Enhanced Oil Recovery, PetroChina Research Institute of Petroleum Exploration & Development, Beijing 100083, China
| | - Yaqian Zhang
- College of Chemical Engineering and Environment, China University of Petroleum-Beijing, Beijing 102249, China
| | - Yong Nie
- College of Engineering, Peking University, Beijing 100871, China
| | - Xiao-Lei Wu
- College of Engineering, Peking University, Beijing 100871, China
- Institute of Ocean Research, Peking University, Beijing 100871, China
- Institute of Ecology, Peking University, Beijing 100871, China
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3
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Stancu MM. Characterization of new diesel-degrading bacteria isolated from freshwater sediments. INTERNATIONAL MICROBIOLOGY : THE OFFICIAL JOURNAL OF THE SPANISH SOCIETY FOR MICROBIOLOGY 2023; 26:109-122. [PMID: 36156170 DOI: 10.1007/s10123-022-00277-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 08/29/2022] [Accepted: 09/01/2022] [Indexed: 01/06/2023]
Abstract
As the result of diesel's extensive production and use as fuel for transportation, pollution with such complex mixtures of hydrocarbons is a major concern worldwide. The present study's focus was to investigate the presence of diesel-degrading bacteria in different Danube Delta freshwater sediments. Ten bacterial strains capable to grow in a minimal medium with diesel as the sole carbon source were isolated and characterized in this study. Based on the phenotypic and molecular characteristics, the ten strains belong to four genera and seven species, such as Pseudomonas (P. aeruginosa, P. nitroreducens, P. resinovorans, P. multiresinivorans), Acinetobacter (A. tandoii), Bacillus (B. marisflavi), and Stenotrophomonas (S. maltophilia). All these bacteria were excellent biosurfactant producers, and they were able to tolerate saturated hydrocarbons, like n-heptane, n-decane, n-pentadecane, and n-hexadecane. The ten strains possess at least one alkane hydroxylase gene in their genome, and they were also able to tolerate and degrade diesel. Higher biodegradation rates of diesel were acquired for the strains from the genera Pseudomonas, Acinetobacter, and Stenotrophomonas, compared with that obtained for the Bacillus strain. Due to their remarkable potential to degrade diesel and produce biosurfactants, the ten isolated bacteria are attractive candidates for bioremediation of diesel-polluted environments.
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Affiliation(s)
- Mihaela Marilena Stancu
- Institute of Biology Bucharest of Romanian Academy, 296 Splaiul Independentei, P.O. Box 56-53, 060031, Bucharest, Romania.
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Góngora E, Chen YJ, Ellis M, Okshevsky M, Whyte L. Hydrocarbon bioremediation on Arctic shorelines: Historic perspective and roadway to the future. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 305:119247. [PMID: 35390417 DOI: 10.1016/j.envpol.2022.119247] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Revised: 02/26/2022] [Accepted: 03/30/2022] [Indexed: 06/14/2023]
Abstract
Climate change has become one of the greatest concerns of the past few decades. In particular, global warming is a growing threat to the Canadian high Arctic and other polar regions. By the middle of this century, an increase in the annual mean temperature of 1.8 °C-2.7 °C for the Canadian North is predicted. Rising temperatures lead to a significant decrease of the sea ice area covered in the Northwest Passage. As a consequence, a surge of maritime activity in that region increases the risk of hydrocarbon pollution due to accidental fuel spills. In this review, we focus on bioremediation approaches on Arctic shorelines. We summarize historical experimental spill studies conducted at Svalbard, Baffin Island, and the Kerguelen Archipelago, and review contemporary studies that used modern omics techniques in various environments. We discuss how omics approaches can facilitate our understanding of Arctic shoreline bioremediation and identify promising research areas that should be further explored. We conclude that specific environmental conditions strongly alter bioremediation outcomes in Arctic environments and future studies must therefore focus on correlating these diverse parameters with the efficacy of hydrocarbon biodegradation.
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Affiliation(s)
- Esteban Góngora
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Quebec, H9X 3V9, Canada.
| | - Ya-Jou Chen
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Madison Ellis
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Mira Okshevsky
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
| | - Lyle Whyte
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Quebec, H9X 3V9, Canada
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5
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A comprehensive review on natural occurrence, synthesis and biological activities of glycolipids. Carbohydr Res 2022; 516:108556. [DOI: 10.1016/j.carres.2022.108556] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Revised: 03/30/2022] [Accepted: 04/05/2022] [Indexed: 01/10/2023]
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Jimoh AA, Ikhimiukor OO, Adeleke R. Prospects in the bioremediation of petroleum hydrocarbon contaminants from hypersaline environments: A review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:35615-35642. [PMID: 35247173 DOI: 10.1007/s11356-022-19299-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Accepted: 02/15/2022] [Indexed: 06/14/2023]
Abstract
Hypersaline environments are underappreciated and are frequently exposed to pollution from petroleum hydrocarbons. Unlike other environs, the high salinity conditions present are a deterrent to various remediation techniques. There is also production of hypersaline waters from oil-polluted ecosystems which contain toxic hydrophobic pollutants that are threat to public health, environmental protection, and sustainability. Currently, innovative advances are being proposed for the remediation of oil-contaminated hypersaline regions. Such advancements include the exploration and stimulation of native microbial communities capable of utilizing and degrading petroleum hydrocarbons. However, prevailing salinity in these environments is unfavourable for the growth of non-halophylic microorganisms, thus limiting effective bioremediation options. An in-depth understanding of the potentials of various remediation technologies of hydrocarbon-polluted hypersaline environments is lacking. Thus, we present an overview of petroleum hydrocarbon pollution in hypersaline ecosystems and discuss the challenges and prospects associated with several technologies that may be employed in remediation of hydrocarbon pollution in the presence of delimiting high salinities. The application of biological remediation technologies including the utilization of halophilic and halotolerant microorganisms is also discussed.
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Affiliation(s)
- Abdullahi Adekilekun Jimoh
- Unit for Environmental Sciences and Management, North-West University (Potchefstroom Campus), Potchefstroom, 2520, South Africa.
- Institute for Microbial Biotechnology and Metagenomics, Department of Biotechnology, University of the Western Cape, Bellville, Cape Town, 7535, South Africa.
| | - Odion Osebhahiemen Ikhimiukor
- Environmental Microbiology and Biotechnology Laboratory, Department of Microbiology, University of Ibadan, Ibadan, Nigeria
| | - Rasheed Adeleke
- Unit for Environmental Sciences and Management, North-West University (Potchefstroom Campus), Potchefstroom, 2520, South Africa
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Mezzasoma A, Coleine C, Sannino C, Selbmann L. Endolithic Bacterial Diversity in Lichen-Dominated Communities Is Shaped by Sun Exposure in McMurdo Dry Valleys, Antarctica. MICROBIAL ECOLOGY 2022; 83:328-339. [PMID: 34081148 PMCID: PMC8891110 DOI: 10.1007/s00248-021-01769-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Accepted: 05/05/2021] [Indexed: 06/12/2023]
Abstract
The diversity and composition of endolithic bacterial diversity of several locations in McMurdo Dry Valleys (Continental Antarctica) were explored using amplicon sequencing, targeting the V3 and V4 of the 16S region. Despite the increasing interest in edaphic factors that drive bacterial community composition in Antarctic rocky communities, few researchers focused attention on the direct effects of sun exposure on bacterial diversity; we herein reported significant differences in the northern and southern communities. The analysis of β-diversity showed significant differences among sampled localities. For instance, the most abundant genera found in the north-exposed rocks were Rhodococcus and Blastococcus in Knobhead Mt.; Ktedonobacter and Cyanobacteria Family I Group I in Finger Mt.; Rhodococcus and Endobacter in University Valley; and Segetibacter and Tetrasphaera in Siegfried Peak samples. In south-exposed rocks, instead, the most abundant genera were Escherichia/Shigella and Streptococcus in Knobhead Mt.; Ktedonobacter and Rhodococcus in Finger Mt.; Ktedonobacter and Roseomonas in University Valley; and Blastocatella, Cyanobacteria Family I Group I and Segetibacter in Siegfried Peak. Significant biomarkers, detected by the Linear discriminant analysis Effect Size, were also found among north- and south-exposed communities. Besides, the large number of positive significant co-occurrences may suggest a crucial role of positive associations over competitions under the harsher conditions where these rock-inhabiting microorganisms spread. Although the effect of geographic distances in these extreme environments play a significant role in shaping biodiversity, the study of an edaphic factor, such as solar exposure, adds an important contribution to the mosaic of microbial biodiversity of Antarctic bacterial cryptoendolithic communities.
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Affiliation(s)
- Ambra Mezzasoma
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy
| | - Claudia Coleine
- Department of Ecological and Biological Sciences, University of Tuscia, Viterbo, Italy
| | - Ciro Sannino
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.
| | - Laura Selbmann
- Department of Ecological and Biological Sciences, University of Tuscia, Viterbo, Italy
- Italian Antarctic National Museum (MNA), Mycological Section, Genoa, Italy
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Nikolova C, Gutierrez T. Biosurfactants and Their Applications in the Oil and Gas Industry: Current State of Knowledge and Future Perspectives. Front Bioeng Biotechnol 2021; 9:626639. [PMID: 33659240 PMCID: PMC7917263 DOI: 10.3389/fbioe.2021.626639] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2020] [Accepted: 01/13/2021] [Indexed: 11/13/2022] Open
Abstract
Surfactants are a group of amphiphilic chemical compounds (i.e., having both hydrophobic and hydrophilic domains) that form an indispensable component in almost every sector of modern industry. Their significance is evidenced from the enormous volumes that are used and wide diversity of applications they are used in, ranging from food and beverage, agriculture, public health, healthcare/medicine, textiles, and bioremediation. A major drive in recent decades has been toward the discovery of surfactants from biological/natural sources-namely bio-surfactants-as most surfactants that are used today for industrial applications are synthetically-manufactured via organo-chemical synthesis using petrochemicals as precursors. This is problematic, not only because they are derived from non-renewable resources, but also because of their environmental incompatibility and potential toxicological effects to humans and other organisms. This is timely as one of today's key challenges is to reduce our reliance on fossil fuels (oil, coal, gas) and to move toward using renewable and sustainable sources. Considering the enormous genetic diversity that microorganisms possess, they offer considerable promise in producing novel types of biosurfactants for replacing those that are produced from organo-chemical synthesis, and the marine environment offers enormous potential in this respect. In this review, we begin with an overview of the different types of microbial-produced biosurfactants and their applications. The remainder of this review discusses the current state of knowledge and trends in the usage of biosurfactants by the Oil and Gas industry for enhancing oil recovery from exhausted oil fields and as dispersants for combatting oil spills.
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Affiliation(s)
| | - Tony Gutierrez
- School of Engineering and Physical Sciences, Institute of Mechanical, Process and Energy Engineering, Heriot-Watt University, Edinburgh, United Kingdom
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Rizzo C, Lo Giudice A. The Variety and Inscrutability of Polar Environments as a Resource of Biotechnologically Relevant Molecules. Microorganisms 2020; 8:microorganisms8091422. [PMID: 32947905 PMCID: PMC7564310 DOI: 10.3390/microorganisms8091422] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Revised: 09/11/2020] [Accepted: 09/14/2020] [Indexed: 11/16/2022] Open
Abstract
The application of an ever-increasing number of methodological approaches and tools is positively contributing to the development and yield of bioprospecting procedures. In this context, cold-adapted bacteria from polar environments are becoming more and more intriguing as valuable sources of novel biomolecules, with peculiar properties to be exploited in a number of biotechnological fields. This review aims at highlighting the biotechnological potentialities of bacteria from Arctic and Antarctic habitats, both biotic and abiotic. In addition to cold-enzymes, which have been intensively analysed, relevance is given to recent advances in the search for less investigated biomolecules, such as biosurfactants, exopolysaccharides and antibiotics.
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Affiliation(s)
- Carmen Rizzo
- Stazione Zoologica Anton Dohrn, Department Marine Biotechnology, National Institute of Biology, Villa Pace, Contrada Porticatello 29, 98167 Messina, Italy
- Correspondence:
| | - Angelina Lo Giudice
- Institute of Polar Sciences, National Research Council (CNR-ISP), Spianata San Raineri 86, 98122 Messina, Italy;
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Habib S, Ahmad SA, Wan Johari WL, Abd Shukor MY, Alias SA, Smykla J, Saruni NH, Abdul Razak NS, Yasid NA. Production of Lipopeptide Biosurfactant by a Hydrocarbon-Degrading Antarctic Rhodococcus. Int J Mol Sci 2020; 21:ijms21176138. [PMID: 32858859 PMCID: PMC7504157 DOI: 10.3390/ijms21176138] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Revised: 08/05/2020] [Accepted: 08/08/2020] [Indexed: 12/19/2022] Open
Abstract
Rhodococci are renowned for their great metabolic repertoire partly because of their numerous putative pathways for large number of specialized metabolites such as biosurfactant. Screening and genome-based assessment for the capacity to produce surface-active molecules was conducted on Rhodococcus sp. ADL36, a diesel-degrading Antarctic bacterium. The strain showed a positive bacterial adhesion to hydrocarbon (BATH) assay, drop collapse test, oil displacement activity, microplate assay, maximal emulsification index at 45% and ability to reduce water surface tension to < 30 mN/m. The evaluation of the cell-free supernatant demonstrated its high stability across the temperature, pH and salinity gradient although no correlation was found between the surface and emulsification activity. Based on the positive relationship between the assessment of macromolecules content and infrared analysis, the extracted biosurfactant synthesized was classified as a lipopeptide. Prediction of the secondary metabolites in the non-ribosomal peptide synthetase (NRPS) clusters suggested the likelihood of the surface-active lipopeptide production in the strain’s genomic data. This is the third report of surface-active lipopeptide producers from this phylotype and the first from the polar region. The lipopeptide synthesized by ADL36 has the prospect to be an Antarctic remediation tool while furnishing a distinctive natural product for biotechnological application and research.
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Affiliation(s)
- Syahir Habib
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
| | - Siti Aqlima Ahmad
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
| | - Wan Lutfi Wan Johari
- Department of Environment, Faculty of Forestry and Environment, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia;
| | - Mohd Yunus Abd Shukor
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
| | - Siti Aisyah Alias
- Institute of Ocean and Earth Sciences, C308 Institute of Postgraduate Studies, University of Malaya, Kuala Lumpur 50603, Malaysia;
| | - Jerzy Smykla
- Institute of Nature Conservation, Polish Academy of Sciences, Mickiewicza 33, 31-120 Kraków, Poland;
| | - Nurul Hani Saruni
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
| | - Nur Syafiqah Abdul Razak
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
| | - Nur Adeela Yasid
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, Serdang, Selangor 43400, Malaysia; (S.H.); (S.A.A.); (M.Y.A.S.); (N.H.S.); (N.S.A.R.)
- Correspondence: ; Tel.: +603-9769-8297
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Abstract
Abstract
Purpose
The aim of the present study was to investigate the tolerance of five new Achromobacter and Pseudomonas strains to kerosene and to establish if the production of several secondary metabolites increases or not when these bacteria were grown in the presence of kerosene. The biodegradation of kerosene by isolated bacteria was also investigated in this study.
Methods
Five Proteobacteria were isolated from different samples polluted with petroleum and petroleum products. Based on their morphological, biochemical, and molecular characteristics, isolated bacteria were identified as Achromobacter spanius IBBPo18 and IBBPo21, Pseudomonas putida IBBPo19, and Pseudomonas aeruginosa IBBPo20 and IBBPo22.
Results
All these bacteria were able to tolerate and degrade kerosene. Higher tolerance to kerosene and degradation rates were observed for P. aeruginosa IBBPo20 and IBBPo22, compared with that observed for A. spanius IBBPo18 and IBBPo21, and P. putida IBBPo19. All these bacteria were able to produce several secondary metabolites, such as surfactants and pigments. Glycolipid surfactants produced by P. aeruginosa IBBPo20 and IBBPo22, A. spanius IBBPo18 and IBBPo21, and P. putida IBBPo19 have a very good emulsification activity, and their activity increased when they were grown in the presence of kerosene. The production of rhamnolipid surfactants by P. aeruginosa IBBPo20 and IBBPo22 was confirmed by detection of rhlAB gene involved in their biosynthesis. Pyocyanin and pyoverdin pigments were produced only by P. aeruginosa IBBPo20 and IBBPo22, while carotenoid pigments were produced by all the isolated bacteria. Significant changes in pigments production were observed when P. aeruginosa IBBPo20 and IBBPo22, A. spanius IBBPo18 and IBBPo21, and P. putida IBBPo19 were grown in the presence of kerosene.
Conclusion
Due to their ability to tolerate and degrade kerosene, and also to produce several secondary metabolites, the isolated bacteria could be used in the bioremediation of kerosene-polluted environments.
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Extreme environments: a source of biosurfactants for biotechnological applications. Extremophiles 2019; 24:189-206. [PMID: 31823065 DOI: 10.1007/s00792-019-01151-2] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Accepted: 12/03/2019] [Indexed: 02/07/2023]
Abstract
The surfactant industry moves billions of dollars a year and consists of chemically synthesized molecules usually derived from petroleum. Surfactant is a versatile molecule that is widely used in different industrial areas, with an emphasis on the petroleum, biomedical and detergent industries. Recently, interest in environmentally friendly surfactants that are resistant to extreme conditions has increased because of consumers' appeal for sustainable products and industrial processes that often require these characteristics. With this context, the need arises to search for surfactants produced by microorganisms coming from extreme environments and to mine their unique biotechnological potential. The production of biosurfactants is still incipient and presents challenges regarding economic viability due to the high costs of cultivation, production, recovery and purification. Advances can be made by exploring the extreme biosphere and bioinformatics tools. This review focuses on biosurfactants produced by microorganisms from different extreme environments, presenting a complete overview of what information is available in the literature, including the advances, challenges and future perspectives, as well as showing the possible applications of extreme biosurfactants.
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Pourbabaee AA, Shahriari MH, Garousin H. Biodegradation of phenanthrene as a model hydrocarbon: Power display of a super-hydrophobic halotolerant enriched culture derived from a saline-sodic soil. ACTA ACUST UNITED AC 2019; 24:e00388. [PMID: 31763200 PMCID: PMC6864168 DOI: 10.1016/j.btre.2019.e00388] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2019] [Revised: 10/12/2019] [Accepted: 10/13/2019] [Indexed: 11/26/2022]
Abstract
Bacterial isolates are found to be both hydrophobe and halotolerant. This bacterial enriched culture degraded 87.66% of the phenanthrene after 10 days. The high hydrophobicity of cells is the main rationale behind phenanthrene degradation. Both alfalfa and barley seeds can germinate after biodegradation of phenanthrene in the contaminated soil.
In this study, after evaluating the degradation activity of enriched cultures from four crude oil-contaminated soils in mineral salt medium, the most efficient ones were selected for further studies. The chemical analysis of cell-free extract containing phenanthrene by HPLC suggested the superior enriched culture was able to degrade 87.66% of phenanthrene at the concentration of 40 mg L-1 within 10 days. This experiment was done under optimal conditions (37 °C, 10% salinity, and pH around 7 to 7.5). The 16S rRNA sequencing of isolates from this superior enriched culture indicated the highest similarity to Acidovorax delafieldii (Q-SH3), Bacillus hwajinpoensis (Q-SH12), and Bacillus rhizosphaerae (Q-SH14). After biodegradation of phenanthrene in liquid medium, the extracts were analyzed to measure barley and alfalfa germination. Results showed a lower level of toxicity to the seeds, hence this enriched culture could be used for bioremediation of saline environments contaminated by phenanthrene and other similar compounds.
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Affiliation(s)
- Ahmad Ali Pourbabaee
- Biotechnology Lab, Department of Soil Science, University College of Agriculture and Natural Resources, University of Tehran, Iran
| | | | - Hamidreza Garousin
- Biotechnology Lab, Department of Soil Science, University College of Agriculture and Natural Resources, University of Tehran, Iran
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Kim CH, Lee DW, Heo YM, Lee H, Yoo Y, Kim GH, Kim JJ. Desorption and solubilization of anthracene by a rhamnolipid biosurfactant from Rhodococcus fascians. WATER ENVIRONMENT RESEARCH : A RESEARCH PUBLICATION OF THE WATER ENVIRONMENT FEDERATION 2019; 91:739-747. [PMID: 30874337 DOI: 10.1002/wer.1103] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 02/28/2019] [Accepted: 03/11/2019] [Indexed: 05/05/2023]
Abstract
The rhamnolipid biosurfactant-producing bacterium, strain SDRB-G7, was isolated from the sediment of Sindu-ri beach and identified as Rhodococcus fascians based on a phylogenetic analysis. Optimal activity, with the highest yield (2.441 g/L) and surface tension-reducing activity (24.38 mN/m), was observed when the cells were grown on olive oil as their sole source of carbon at pH 8.0. The rhamnolipid biosurfactant showed environmental stability at a variety of NaCl concentrations (2-20%) and pH values (2-12) even under acidic conditions. Of the initial anthracene, 66% was solubilized by 100% crude biosurfactant. Furthermore, 100% crude biosurfactant desorbed 81% of the anthracene in sediment into the aqueous phase. These results suggest that the rhamnolipid biosurfactant produced from R. fascians SDRB-G7 is a promising candidate for polycyclic aromatic hydrocarbon (PAH) removal from the sediment and can be an effective agent for processes that bioremediate PAHs such as surfactant-enhanced remediation. PRACTITIONER POINTS: Biosurfactants can accelerate desorption of PAHs and improve their solubility. BS-producing R. fascians SDRB-G7 was selected by screening of biochemical tests. Solubility of anthracene was enhanced by rhamnolipid produced by strain SDRB-G7. Microbial surfactant is a promising alternative for bioremediation of PAH-polluted sites.
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Affiliation(s)
- Chul-Hwan Kim
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Dong Wan Lee
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Young Mok Heo
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Hanbyul Lee
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Yeonjae Yoo
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Gyu-Hyeok Kim
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
| | - Jae-Jin Kim
- Division of Environmental Science & Ecological Engineering, College of Life Science & Biotechnology, Korea University, Seoul, Korea
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Pessôa MG, Vespermann KA, Paulino BN, Barcelos MC, Pastore GM, Molina G. Newly isolated microorganisms with potential application in biotechnology. Biotechnol Adv 2019; 37:319-339. [DOI: 10.1016/j.biotechadv.2019.01.007] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Revised: 01/15/2019] [Accepted: 01/15/2019] [Indexed: 12/23/2022]
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Psychrophilic lifestyles: mechanisms of adaptation and biotechnological tools. Appl Microbiol Biotechnol 2019; 103:2857-2871. [PMID: 30729286 DOI: 10.1007/s00253-019-09659-5] [Citation(s) in RCA: 124] [Impact Index Per Article: 24.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2018] [Revised: 01/21/2019] [Accepted: 01/22/2019] [Indexed: 12/22/2022]
Abstract
Cold-adapted microorganisms inhabiting permanently low-temperature environments were initially just a biological curiosity but have emerged as rich sources of numerous valuable tools for application in a broad spectrum of innovative technologies. To overcome the multiple challenges inherent to life in their cold habitats, these microorganisms have developed a diverse array of highly sophisticated synergistic adaptations at all levels within their cells: from cell envelope and enzyme adaptation, to cryoprotectant and chaperone production, and novel metabolic capabilities. Basic research has provided valuable insights into how these microorganisms can thrive in their challenging habitat conditions and into the mechanisms of action of the various adaptive features employed, and such insights have served as a foundation for the knowledge-based development of numerous novel biotechnological tools. In this review, we describe the current knowledge of the adaptation strategies of cold-adapted microorganisms and the biotechnological perspectives and commercial tools emerging from this knowledge. Adaptive features and, where possible, applications, in relation to membrane fatty acids, membrane pigments, the cell wall peptidoglycan layer, the lipopolysaccharide component of the outer cell membrane, compatible solutes, antifreeze and ice-nucleating proteins, extracellular polymeric substances, biosurfactants, chaperones, storage materials such as polyhydroxyalkanoates and cyanophycins and metabolic adjustments are presented and discussed.
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Kuyukina MS, Ivshina IB. Production of Trehalolipid Biosurfactants by Rhodococcus. BIOLOGY OF RHODOCOCCUS 2019. [DOI: 10.1007/978-3-030-11461-9_10] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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Lamilla C, Braga D, Castro R, Guimarães C, V. A. de Castilho L, Freire DMG, Barrientos L. Streptomyces luridus So3.2 from Antarctic soil as a novel producer of compounds with bioemulsification potential. PLoS One 2018; 13:e0196054. [PMID: 29684071 PMCID: PMC5912782 DOI: 10.1371/journal.pone.0196054] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Accepted: 04/05/2018] [Indexed: 11/18/2022] Open
Abstract
The present study aimed to identify novel microbial producers of bioemulsificant compounds from Antarctic soils. Fifty-nine microbial strains were isolated from five different locations at South Shetland Islands, Antarctica, and screened for biosurfactant production by β-hemolytic activity. Strain So 3.2 was determined as bioemulsifier-producer and identified by phenotypic and molecular characterization as Streptomyces luridus. Emulsification activity, oil displacement method and drop-collapsing test were performed to evaluate the biosurfactant activity with different oils and hydrocarbons using two different culture media (Luria Bertani and Bushnell Haas in the presence of different carbon sources: glucose, glycerol, olive oil and n-Hexadecane). Cell free supernatant of Bushnell Haas culture supplemented with n-Hexadecane showed the best results for all tests. Emulsification of hydrocarbons exceeded 60%, reaching up to 90% on oil with high API grade, while displacement tests ranged from 8 cm to 4 cm in diameter according the culture media and tested oils. Our results revealed that Streptomyces luridus So3.2 is able to produce bioemulsifiers capable of emulsifying hydrocarbons and oils, which could be used in different biotechnological applications, particularly for bioremediation of environments contaminated by oil leaks.
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Affiliation(s)
- Claudio Lamilla
- Laboratory of Applied Molecular Biology, Center of Excellence in Translational Medicine, Temuco, Chile
- Scientific and Technological Bioresource Nucleus (BIOREN), Universidad de La Frontera, Temuco, Chile
| | - Douglas Braga
- Laboratório de Biotecnologia Microbiana, Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Av. Athos da Silveira Ramos, Centro de Tecnologia, Cidade Universitária, Rio de Janeiro RJ, Brasil
| | - Rui Castro
- Laboratório de Biotecnologia Microbiana, Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Av. Athos da Silveira Ramos, Centro de Tecnologia, Cidade Universitária, Rio de Janeiro RJ, Brasil
| | - Carolina Guimarães
- Laboratório de Biotecnologia Microbiana, Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Av. Athos da Silveira Ramos, Centro de Tecnologia, Cidade Universitária, Rio de Janeiro RJ, Brasil
| | - Livia V. A. de Castilho
- Laboratório de Biotecnologia Microbiana, Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Av. Athos da Silveira Ramos, Centro de Tecnologia, Cidade Universitária, Rio de Janeiro RJ, Brasil
| | - Denise M. G. Freire
- Laboratório de Biotecnologia Microbiana, Departamento de Bioquímica, Instituto de Química, Universidade Federal do Rio de Janeiro, Av. Athos da Silveira Ramos, Centro de Tecnologia, Cidade Universitária, Rio de Janeiro RJ, Brasil
- * E-mail: (LB); (DMGF)
| | - Leticia Barrientos
- Laboratory of Applied Molecular Biology, Center of Excellence in Translational Medicine, Temuco, Chile
- Scientific and Technological Bioresource Nucleus (BIOREN), Universidad de La Frontera, Temuco, Chile
- * E-mail: (LB); (DMGF)
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Habib S, Ahmad SA, Johari WLW, Shukor MYA, Alias SA, Khalil KA, Yasid NA. Evaluation of conventional and response surface level optimisation of n-dodecane (n-C12) mineralisation by psychrotolerant strains isolated from pristine soil at Southern Victoria Island, Antarctica. Microb Cell Fact 2018; 17:44. [PMID: 29549881 PMCID: PMC5857080 DOI: 10.1186/s12934-018-0889-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Accepted: 03/08/2018] [Indexed: 11/23/2022] Open
Abstract
Background Biodegradation of hydrocarbons in Antarctic soil has been reported to be achieved through the utilisation of indigenous cold-adapted microorganisms. Although numerous bacteria isolated from hydrocarbon-contaminated sites in Antarctica were able to demonstrate promising outcomes in utilising hydrocarbon components as their energy source, reports on the utilisation of hydrocarbons by strains isolated from pristine Antarctic soil are scarce. In the present work, two psychrotolerant strains isolated from Antarctic pristine soil with the competency to utilise diesel fuel as the sole carbon source were identified and optimised through conventional and response surface method. Results Two potent hydrocarbon-degraders (ADL15 and ADL36) were identified via partial 16S rRNA gene sequence analysis, and revealed to be closely related to the genus Pseudomonas and Rhodococcus sp., respectively. Factors affecting diesel degradation such as temperature, hydrocarbon concentration, pH and salt tolerance were studied. Although strain ADL36 was able to withstand a higher concentration of diesel than strain ADL15, both strains showed similar optimal condition for the cell’s growth at pH 7.0 and 1.0% (w/v) NaCl at the conventional ‘one-factor-at-a-time’ level. Both strains were observed to be psychrotrophs with optimal temperatures of 20 °C. Qualitative and quantitative analysis were performed with a gas chromatograph equipped with a flame ionisation detector to measure the reduction of n-alkane components in diesel. In the pre-screening medium, strain ADL36 showed 83.75% of n-dodecane mineralisation while the reduction of n-dodecane by strain ADL15 was merely at 22.39%. The optimised condition for n-dodecane mineralisation predicted through response surface methodology enhanced the reduction of n-dodecane to 99.89 and 38.32% for strain ADL36 and strain ADL15, respectively. Conclusions Strain ADL36 proves to be a better candidate for bioaugmentation operations on sites contaminated with aliphatic hydrocarbons especially in the Antarctic and other cold regions. The results obtained throughout strongly supports the use of RSM for medium optimisation.
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Affiliation(s)
- Syahir Habib
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | - Siti Aqlima Ahmad
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | - Wan Lutfi Wan Johari
- Department of Environmental Sciences, Faculty of Environmental Studies, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | - Mohd Yunus Abd Shukor
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia
| | - Siti Aisyah Alias
- Institute of Ocean and Earth Sciences, C308 Institute of Postgraduate Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Khalilah Abdul Khalil
- Department of Biomolecular Sciences, Faculty of Applied Sciences, Universiti Teknologi MARA, 40450, Shah Alam, Selangor, Malaysia
| | - Nur Adeela Yasid
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, 43400, Serdang, Selangor, Malaysia.
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Perfumo A, Banat IM, Marchant R. Going Green and Cold: Biosurfactants from Low-Temperature Environments to Biotechnology Applications. Trends Biotechnol 2018; 36:277-289. [PMID: 29428461 DOI: 10.1016/j.tibtech.2017.10.016] [Citation(s) in RCA: 82] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Revised: 10/23/2017] [Accepted: 10/24/2017] [Indexed: 11/17/2022]
Abstract
Approximately 80% of the Earth's biosphere is cold, at an average temperature of 5°C, and is populated by a diversity of microorganisms that are a precious source of molecules with high biotechnological potential. Biosurfactants from cold-adapted organisms can interact with multiple physical phases - water, ice, hydrophobic compounds, and gases - at low and freezing temperatures and be used in sustainable (green) and low-energy-impact (cold) products and processes. We review the biodiversity of microbial biosurfactants produced in cold habitats and provide a perspective on the most promising future applications in environmental and industrial technologies. Finally, we encourage exploring the cryosphere for novel types of biosurfactants via both culture screening and functional metagenomics.
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Affiliation(s)
- Amedea Perfumo
- GFZ German Research Centre for Geosciences, Helmholtz Centre Potsdam, Section 5.3 Geomicrobiology, Telegrafenberg, 14473 Potsdam, Germany.
| | - Ibrahim M Banat
- School of Biomedical Sciences, Faculty of Life and Health Sciences, Ulster University, Coleraine, UK
| | - Roger Marchant
- School of Biomedical Sciences, Faculty of Life and Health Sciences, Ulster University, Coleraine, UK
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21
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22
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Stancu MM. Response of Rhodococcus erythropolis strain IBBPo1 to toxic organic solvents. Braz J Microbiol 2016; 46:1009-18. [PMID: 26691458 PMCID: PMC4704635 DOI: 10.1590/s1517-838246420140462] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Accepted: 03/11/2015] [Indexed: 11/22/2022] Open
Abstract
Recently, there has been a lot of interest in the utilization of rhodococci in the
bioremediation of petroleum contaminated environments. This study investigates the
response of Rhodococcus erythropolis IBBPo1 cells to 1%
organic solvents (alkanes, aromatics). A combination of microbiology, biochemical,
and molecular approaches were used to examine cell adaptation mechanisms likely to be
pursued by this strain after 1% organic solvent exposure. R.
erythropolis IBBPo1 was found to utilize 1% alkanes
(cyclohexane, n-hexane, n-decane) and aromatics (toluene, styrene,
ethylbenzene) as the sole carbon source. Modifications in cell viability, cell
morphology, membrane permeability, lipid profile, carotenoid pigments profile and 16S
rRNA gene were revealed in R. erythropolis IBBPo1 cells
grown 1 and 24 h on minimal medium in the presence of 1% alkanes (cyclohexane,
n-hexane, n-decane) and aromatics (toluene, styrene, ethylbenzene).
Due to its environmental origin and its metabolic potential, R.
erythropolis IBBPo1 is an excellent candidate for the
bioremediation of soils contaminated with crude oils and other toxic compounds.
Moreover, the carotenoid pigments produced by this nonpathogenic Gram-positive
bacterium have a variety of other potential applications.
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Response Mechanisms in Serratia marcescens IBB Po15 During Organic Solvents Exposure. Curr Microbiol 2016; 73:755-765. [PMID: 27538581 DOI: 10.1007/s00284-016-1108-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Accepted: 07/20/2016] [Indexed: 10/21/2022]
Abstract
Serratia marcescens strain IBBPo15 (KT315653) which possesses serratiopeptidase (ser) gene (KT894207) exhibited good solvent tolerance. During the exposure of S. marcescens IBBPo15 cells to 5 % organic solvents, n-decane was less toxic for this bacterium, compared with n-hexane, cyclohexane, ethylbenzene, toluene, and styrene. The exposure of the S. marcescens IBBPo15 cells to n-hexane, cyclohexane, ethylbenzene, toluene, and styrene induced the formation of large clusters, while in control and n-decane-exposed cells, only organization into small clusters was observed. The data obtained suggested that S. marcescens IBBPo15 cells produced some secondary metabolites (i.e., surfactant serrawettin, red pigment prodigiosin) which are well known as valuable molecules due to their large applications. The exposure of the bacterial cells to organic solvents induced secondary metabolites profile modifications. However, S. marcescens IBBPo15 possesses only alkB1, todM, rhlAB, pswP, mpr, and ser genes, the unspecific amplification of other fragments being acquired also when the primers for alkM1, xylM, ndoM, and C23DO genes were used. Modifications of DNA patterns were not depicted in S. marcescens IBBPo15 cells exposed to organic solvents.
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Priji P, Sajith S, Unni KN, Anderson RC, Benjamin S. Pseudomonas sp. BUP6, a novel isolate from Malabari goat produces an efficient rhamnolipid type biosurfactant. J Basic Microbiol 2016; 57:21-33. [PMID: 27400277 DOI: 10.1002/jobm.201600158] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2016] [Accepted: 06/20/2016] [Indexed: 01/02/2023]
Abstract
This study describes the characteristics of a biosurfactant produced by Pseudomonas sp. BUP6, a rumen bacterium, and optimization of parameters required for its production. Initial screening of five parameters (pH, temperature, agitation, incubation, and substrate concentration) was carried out employing Plackett-Burman design, which reduced the number of parameters to 3 (pH, temperature, and incubation) according to their significance on the yield of biosurfactant. A suitable statistical model for the production of biosurfactant by Pseudomonas sp. BUP6 was established according to Box-Behnken design, which resulted in 11% increase (at pH 7, 35 °C, incubation 75 h) in the yield (2070 mg L-1 ) of biosurfactant. The biosurfactant was found stable at a wide range of pH (3-9) with 48 mg L-1 critical micelle concentration; and maintained over 90% of its emulsification ability even after boiling and in presence of sodium chloride (0.5%). The highest cell hydrophobicity (37%) and emulsification (69%) indices were determined with groundnut oil and kerosene, respectively. The biosurfactant was found to inhibit the growth and adhesion of E. coli and S. aureus significantly. From the phytotoxicity studies, the biosurfactant did not show any adverse effect on the germinating seeds of rice and green gram. The structural characterization of biosurfactant employing orcinol method, thin layer chromatography and FT-IR indicated that it is a rhamnolipid (glycolipid). Thus, Pseudomonas sp. BUP6, a novel isolate from Malabari goat is demonstrated as a producer of an efficient rhamnolipid type biosurfactant suitable for application in various industries.
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Affiliation(s)
- Prakasan Priji
- Enzyme Technology Laboratory, Biotechnology Division, Department of Botany, University of Calicut, Kerala, India
| | - Sreedharan Sajith
- Enzyme Technology Laboratory, Biotechnology Division, Department of Botany, University of Calicut, Kerala, India
| | - Kizhakkepowathial Nair Unni
- Enzyme Technology Laboratory, Biotechnology Division, Department of Botany, University of Calicut, Kerala, India
| | - Robin C Anderson
- United States Department of Agriculture, Agricultural Research Service, College Station, TX 77845, USA
| | - Sailas Benjamin
- Enzyme Technology Laboratory, Biotechnology Division, Department of Botany, University of Calicut, Kerala, India
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Mining the genome of Rhodococcus fascians, a plant growth-promoting bacterium gone astray. N Biotechnol 2016; 33:706-717. [PMID: 26877150 DOI: 10.1016/j.nbt.2016.01.009] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2015] [Revised: 12/16/2015] [Accepted: 01/05/2016] [Indexed: 11/21/2022]
Abstract
Rhodococcus fascians is a phytopathogenic Gram-positive Actinomycete with a very broad host range encompassing especially dicotyledonous herbaceous perennials, but also some monocots, such as the Liliaceae and, recently, the woody crop pistachio. The pathogenicity of R. fascians strain D188 is known to be encoded by the linear plasmid pFiD188 and to be dictated by its capacity to produce a mixture of cytokinins. Here, we show that D188-5, the nonpathogenic plasmid-free derivative of the wild-type strain D188 actually has a plant growth-promoting effect. With the availability of the genome sequence of R. fascians, the chromosome of strain D188 was mined for putative plant growth-promoting functions and the functionality of some of these activities was tested. This analysis together with previous results suggests that the plant growth-promoting activity of R. fascians is due to production of plant growth modulators, such as auxin and cytokinin, combined with degradation of ethylene through 1-amino-cyclopropane-1-carboxylic acid deaminase. Moreover, R. fascians has several functions that could contribute to efficient colonization and competitiveness, but there is little evidence for a strong impact on plant nutrition. Possibly, the plant growth promotion encoded by the D188 chromosome is imperative for the epiphytic phase of the life cycle of R. fascians and prepares the plant to host the bacteria, thus ensuring proper continuation into the pathogenic phase.
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Kügler JH, Le Roes-Hill M, Syldatk C, Hausmann R. Surfactants tailored by the class Actinobacteria. Front Microbiol 2015; 6:212. [PMID: 25852670 PMCID: PMC4365757 DOI: 10.3389/fmicb.2015.00212] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2015] [Accepted: 03/02/2015] [Indexed: 12/20/2022] Open
Abstract
Globally the change towards the establishment of a bio-based economy has resulted in an increased need for bio-based applications. This, in turn, has served as a driving force for the discovery and application of novel biosurfactants. The class Actinobacteria represents a vast group of microorganisms with the ability to produce a diverse range of secondary metabolites, including surfactants. Understanding the extensive nature of the biosurfactants produced by actinobacterial strains can assist in finding novel biosurfactants with new potential applications. This review therefore presents a comprehensive overview of the knowledge available on actinobacterial surfactants, the chemical structures that have been completely or partly elucidated, as well as the identity of the biosurfactant-producing strains. Producer strains of not yet elucidated compounds are discussed, as well as the original habitats of all the producer strains, which seems to indicate that biosurfactant production is environmentally driven. Methodology applied in the isolation, purification and structural elucidation of the different types of surface active compounds, as well as surfactant activity tests, are also discussed. Overall, actinobacterial surfactants can be summarized to include the dominantly occurring trehalose-comprising surfactants, other non-trehalose containing glycolipids, lipopeptides and the more rare actinobacterial surfactants. The lack of structural information on a large proportion of actinobacterial surfactants should be considered as a driving force to further explore the abundance and diversity of these compounds. This would allow for a better understanding of actinobacterial surface active compounds and their potential for biotechnological application.
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Affiliation(s)
- Johannes H. Kügler
- Technical Biology, Institute of Process Engineering in Life Sciences, Karlsruhe Institute of TechnologyKarlsruhe, Germany
| | - Marilize Le Roes-Hill
- Biocatalysis and Technical Biology Research Group, Institute of Biomedical and Microbial Biotechnology, Cape Peninsula University of TechnologyBellville, South Africa
| | - Christoph Syldatk
- Technical Biology, Institute of Process Engineering in Life Sciences, Karlsruhe Institute of TechnologyKarlsruhe, Germany
| | - Rudolf Hausmann
- Bioprocess Engineering, Institute of Food Science and Biotechnology, University of HohenheimStuttgart, Germany
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Hamedi J, Mohammadipanah F, Panahi HKS. Biotechnological Exploitation of Actinobacterial Members. SUSTAINABLE DEVELOPMENT AND BIODIVERSITY 2015. [DOI: 10.1007/978-3-319-14595-2_3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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Stancu MM. Physiological cellular responses and adaptations of Rhodococcus erythropolis IBBPo1 to toxic organic solvents. J Environ Sci (China) 2014; 26:2065-2075. [PMID: 25288551 DOI: 10.1016/j.jes.2014.08.006] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2013] [Revised: 03/11/2014] [Accepted: 03/19/2014] [Indexed: 06/03/2023]
Abstract
A new Gram-positive bacterium, Rhodococcus erythropolis IBBPo1 (KF059972.1) was isolated from a crude oil-contaminated soil sample by enrichment culture method. R. erythropolis IBBPo1 was able to tolerate a wide range of toxic compounds, such as antibiotics (800-1000μg/mL), synthetic surfactants (50-200μg/mL), and organic solvents (40%-100%). R. erythropolis IBBPo1 showed good tolerance to both alkanes (cyclohexane, n-hexane, n-decane) and aromatics (toluene, styrene, ethylbenzene) with logPOW (logarithm of the partition coefficient of the solvent in octanol-water mixture) values between 2.64 and 5.98. However, alkanes were less toxic for R. erythropolis IBBPo1 cells, compared with aromatics. The high organic solvent tolerance of R. erythropolis IBBPo1 could be due to the presence in their large genome of some catabolic (alkB, alkB1, todC1, todM, xylM), transporter (HAE1) and trehalose-6-phosphate synthase (otsA1, KF059973.1) genes. Numerous and complex physiological cellular responses and adaptations involved in organic solvent tolerance were revealed in R. erythropolis IBBPo1 cells exposed 1 and 24hr to 1% organic solvents. R. erythropolis IBBPo1 cells adapt to 1% organic solvents by changing surface hydrophobicity, morphology and their metabolic fingerprinting. Considerable modifications in otsA1 gene sequence were also observed in cells exposed to organic solvents (except ethylbenzene).
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Affiliation(s)
- Mihaela Marilena Stancu
- Institute of Biology Bucharest of Romanian Academy, Bucharest 060031, P.O. Box 56-53, Romania.
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Konishi M, Nishi S, Fukuoka T, Kitamoto D, Watsuji TO, Nagano Y, Yabuki A, Nakagawa S, Hatada Y, Horiuchi JI. Deep-sea Rhodococcus sp. BS-15, lacking the phytopathogenic fas genes, produces a novel glucotriose lipid biosurfactant. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2014; 16:484-493. [PMID: 24510374 DOI: 10.1007/s10126-014-9568-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2013] [Accepted: 01/21/2014] [Indexed: 06/03/2023]
Abstract
Glycolipid biosurfactant-producing bacteria were isolated from deep-sea sediment collected from the Okinawa Trough. Isolate BS15 produced the largest amount of the glycolipid, generating up to 6.31 ± 1.15 g l(-1) after 4 days at 20 °C. Glucose was identified in the hydrolysate of the purified major component of the biosurfactant glycolipid. According to gas chromatography/mass spectrometry analysis, the hydrophobic moieties in the major component were hexadecanoate, octadecanoate, 3-hydroxyhexadecanoate, 2-hydroxyoctanoate, and succinate. The molecular weight of the purified major glycolipid was calculated to be 1,211, while (1)H and (13)C nuclear magnetic resonance spectra confirmed that the major component consisted of 2 mol of α-glucoside and 1 mol of β-glucoside. The molecular structure was assigned as novel trisaccharide-type glycolipid biosurfactant, glucotriose lipids. The critical micelle concentration of the purified major glycolipid was 2.3 × 10(-6) M, with a surface tension of 29.5 mN m(-1). Phylogenetic analysis showed isolate BS15 was closely related to a Rhodococcus strains isolated from Antarctica, and to Rhodococcus fascians, a phytopathogen. PCR analysis showed that the fasA, fasB, fasC, fasD, fasE, and fasF genes, which are involved in phytohormone-like cytokinin production, were not present in the genome of BS15; however, analysis of a draft genome sequence of BS15 (5.5 Mb) identified regions with 31 %, 53 %, 46 %, 30 %, and 31 % DNA sequence identity to the fasA, fasB, fasC, and fasD genes, respectively.
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Affiliation(s)
- Masaaki Konishi
- Department of Biotechnology and Environmental Chemistry, Kitami Institute of Technology, 165 Koen-cho, Kitami, Hokkaido, 090-8507, Japan,
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Tarkowski P, Vereecke D. Threats and opportunities of plant pathogenic bacteria. Biotechnol Adv 2013; 32:215-29. [PMID: 24216222 DOI: 10.1016/j.biotechadv.2013.11.001] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Revised: 10/22/2013] [Accepted: 11/03/2013] [Indexed: 02/08/2023]
Abstract
Plant pathogenic bacteria can have devastating effects on plant productivity and yield. Nevertheless, because these often soil-dwelling bacteria have evolved to interact with eukaryotes, they generally exhibit a strong adaptivity, a versatile metabolism, and ingenious mechanisms tailored to modify the development of their hosts. Consequently, besides being a threat for agricultural practices, phytopathogens may also represent opportunities for plant production or be useful for specific biotechnological applications. Here, we illustrate this idea by reviewing the pathogenic strategies and the (potential) uses of five very different (hemi)biotrophic plant pathogenic bacteria: Agrobacterium tumefaciens, A. rhizogenes, Rhodococcus fascians, scab-inducing Streptomyces spp., and Pseudomonas syringae.
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Affiliation(s)
- Petr Tarkowski
- Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Šlechtitelů 11, CZ-78371 Olomouc, Czech Republic.
| | - Danny Vereecke
- Department of Applied Biosciences, Faculty of Bioscience Engineering, Ghent University, Valentin Vaerwyckweg 1, BE-9000 Ghent, Belgium.
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An efficient biosurfactant-producing and crude-oil emulsifying bacterium Bacillus methylotrophicus USTBa isolated from petroleum reservoir. Biochem Eng J 2013. [DOI: 10.1016/j.bej.2013.02.018] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Biosurfactants of Rhodococcus erythropolis IMV Ас-5017: Synthesis Intensification and Practical Application. Appl Biochem Biotechnol 2013; 170:880-94. [DOI: 10.1007/s12010-013-0246-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2012] [Accepted: 04/15/2013] [Indexed: 10/26/2022]
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Biosurfactants in agriculture. Appl Microbiol Biotechnol 2013; 97:1005-16. [PMID: 23280539 PMCID: PMC3555348 DOI: 10.1007/s00253-012-4641-8] [Citation(s) in RCA: 195] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2012] [Revised: 12/03/2012] [Accepted: 12/05/2012] [Indexed: 12/02/2022]
Abstract
Agricultural productivity to meet growing demands of human population is a matter of great concern for all countries. Use of green compounds to achieve the sustainable agriculture is the present necessity. This review highlights the enormous use of harsh surfactants in agricultural soil and agrochemical industries. Biosurfactants which are reported to be produced by bacteria, yeasts, and fungi can serve as green surfactants. Biosurfactants are considered to be less toxic and eco-friendly and thus several types of biosurfactants have the potential to be commercially produced for extensive applications in pharmaceutical, cosmetics, and food industries. The biosurfactants synthesized by environmental isolates also has promising role in the agricultural industry. Many rhizosphere and plant associated microbes produce biosurfactant; these biomolecules play vital role in motility, signaling, and biofilm formation, indicating that biosurfactant governs plant–microbe interaction. In agriculture, biosurfactants can be used for plant pathogen elimination and for increasing the bioavailability of nutrient for beneficial plant associated microbes. Biosurfactants can widely be applied for improving the agricultural soil quality by soil remediation. These biomolecules can replace the harsh surfactant presently being used in million dollar pesticide industries. Thus, exploring biosurfactants from environmental isolates for investigating their potential role in plant growth promotion and other related agricultural applications warrants details research. Conventional methods are followed for screening the microbial population for production of biosurfactant. However, molecular methods are fewer in reaching biosurfactants from diverse microbial population and there is need to explore novel biosurfactant from uncultured microbes in soil biosphere by using advanced methodologies like functional metagenomics.
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Gesheva V, Vasileva-Tonkova E. Production of enzymes and antimicrobial compounds by halophilic Antarctic Nocardioides sp. grown on different carbon sources. World J Microbiol Biotechnol 2012; 28:2069-76. [PMID: 22806028 DOI: 10.1007/s11274-012-1009-2] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2011] [Accepted: 01/27/2012] [Indexed: 01/26/2023]
Abstract
This study demonstrated the potential of microbial isolates from Antarctic soils to produce hydrolytic enzymes by using specific substrates. The results revealed potential of the strains to produce a broad spectrum of hydrolytic enzymes. Strain A-1 isolated from soil samples in Casey Station, Wilkes Land, was identified as Nocardioides sp. on the basis of morphological, biochemical, physiological observations and also chemotaxonomy analysis. Enzymatic and antimicrobial activities of the cell-free supernatants were explored after growth of strain A-1 in mineral salts medium supplemented with different carbon sources. It was found that the carbon sources favored the production of a broad spectrum of enzymes as well as compounds with antimicrobial activity against Gram-positive and Gram-negative bacteria, especially Staphylococcus aureus and Xanthomonas oryzae. Preliminary analysis showed that the compounds with antimicrobial activity produced by the strain A-1 are mainly glycolipids and/or lipopeptides depending on the used carbon source. The results revealed a great potential of the Antarctic Nocardioides sp. strain A-1 for biotechnological, biopharmaceutical and biocontrol applications as a source of industrially important enzymes and antimicrobial/antifungal compounds.
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Affiliation(s)
- Victoria Gesheva
- Bulgarian Academy of Sciences, The Stephan Angeloff Institute of Microbiology, Acad. G. Bonchev Str., Bl. 26, 1113 Sofia, Bulgaria
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Psychrotrophic microorganism communities in soils of Haswell Island, Antarctica, and their biosynthetic potential. Polar Biol 2011. [DOI: 10.1007/s00300-011-1052-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Production of antibiotics and enzymes by soil microorganisms from the windmill islands region, Wilkes Land, East Antarctica. Polar Biol 2010. [DOI: 10.1007/s00300-010-0824-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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