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Dantas CWD, Martins DT, Nogueira WG, Alegria OVC, Ramos RTJ. Tools and methodology to in silico phage discovery in freshwater environments. Front Microbiol 2024; 15:1390726. [PMID: 38881659 PMCID: PMC11176557 DOI: 10.3389/fmicb.2024.1390726] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 05/16/2024] [Indexed: 06/18/2024] Open
Abstract
Freshwater availability is essential, and its maintenance has become an enormous challenge. Due to population growth and climate changes, freshwater sources are becoming scarce, imposing the need for strategies for its reuse. Currently, the constant discharge of waste into water bodies from human activities leads to the dissemination of pathogenic bacteria, negatively impacting water quality from the source to the infrastructure required for treatment, such as the accumulation of biofilms. Current water treatment methods cannot keep pace with bacterial evolution, which increasingly exhibits a profile of multidrug resistance to antibiotics. Furthermore, using more powerful disinfectants may affect the balance of aquatic ecosystems. Therefore, there is a need to explore sustainable ways to control the spreading of pathogenic bacteria. Bacteriophages can infect bacteria and archaea, hijacking their host machinery to favor their replication. They are widely abundant globally and provide a biological alternative to bacterial treatment with antibiotics. In contrast to common disinfectants and antibiotics, bacteriophages are highly specific, minimizing adverse effects on aquatic microbial communities and offering a lower cost-benefit ratio in production compared to antibiotics. However, due to the difficulty involving cultivating and identifying environmental bacteriophages, alternative approaches using NGS metagenomics in combination with some bioinformatic tools can help identify new bacteriophages that can be useful as an alternative treatment against resistant bacteria. In this review, we discuss advances in exploring the virome of freshwater, as well as current applications of bacteriophages in freshwater treatment, along with current challenges and future perspectives.
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Affiliation(s)
- Carlos Willian Dias Dantas
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
- Laboratory of Simulation and Computational Biology - SIMBIC, High Performance Computing Center - CCAD, Federal University of Pará, Belém, Pará, Brazil
- Laboratory of Bioinformatics and Genomics of Microorganisms, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - David Tavares Martins
- Laboratory of Simulation and Computational Biology - SIMBIC, High Performance Computing Center - CCAD, Federal University of Pará, Belém, Pará, Brazil
- Laboratory of Bioinformatics and Genomics of Microorganisms, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Wylerson Guimarães Nogueira
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Oscar Victor Cardenas Alegria
- Laboratory of Simulation and Computational Biology - SIMBIC, High Performance Computing Center - CCAD, Federal University of Pará, Belém, Pará, Brazil
- Laboratory of Bioinformatics and Genomics of Microorganisms, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Rommel Thiago Jucá Ramos
- Laboratory of Simulation and Computational Biology - SIMBIC, High Performance Computing Center - CCAD, Federal University of Pará, Belém, Pará, Brazil
- Laboratory of Bioinformatics and Genomics of Microorganisms, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
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Chen JS, Hsu BM, Ko WC, Wang JL. Comparison of antibiotic-resistant Escherichia coli and extra-intestinal pathogenic E. coli from main river basins under different levels of the sewer system development. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 263:115372. [PMID: 37619401 DOI: 10.1016/j.ecoenv.2023.115372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2023] [Revised: 06/30/2023] [Accepted: 08/13/2023] [Indexed: 08/26/2023]
Abstract
Antimicrobial-resistant Escherichia coli in the aquatic environments is considered a strong indicator of sewage or animal waste contamination and antibiotic pollution. Sewer construction and wastewater treatment plant (WWTP) infrastructure may serve as concentrated point sources of contamination of antibiotic-resistant bacteria and antibiotic resistance genes. In this study, we focused on the distribution of antimicrobial-resistant E. coli in two rivers with large drainage areas and different urbanisation levels. E. coli from Kaoping River with drainage mainly from livestock farming had higher resistance to antibiotics (e.g. penicillins, tetracyclines, phenicols, aminoglycosides, and sulpha drugs) and presented more positive detection of antibiotic-resistance genes (e.g. ampC, blaTEM, tetA, and cmlA1) than that from Tamsui River. In Kaoping River with a lower percentage of sewer construction nearby (0-30%) in contrast to a higher percentage of sewer construction (55-92%) in Tamsui River, antimicrobial-resistant E. coli distribution was related to livestock farming waste. In Tamsui River, antimicrobial resistant E. coli isolates were found more frequently in the downstream drainage area of WWTPs with secondary water treatment than that of WWTPs with tertiary water treatment. The Enterobacterial Repetitive Intergenic Consensus (ERIC) PCR showed that the fingerprinting group was significantly related to the sampling site (p < 0.01) and sampling date (p < 0.05). By utilising ERIC-PCR in conjunction with antibiotic susceptibility and antibiotic-resistance gene detection, the relationship among different strains of E. coli could be elucidated. Furthermore, we identified the presence of six extra-intestinal pathogenic E. coli isolates and antibiotic-resistant E. coli isolates near drinking water sources, posing a potential risk to public health through community transmission. In conclusion, this study identified environmental factors related to antibiotic-resistant bacteria and antibiotic-resistance gene contamination in rivers during urban development. The results facilitate the understanding of specific management of different waste streams across different urban areas. Periodic surveillance of the effects of WWTPs and livestock waste containing antibiotic-resistant bacteria and antibiotic-resistance genes on river contamination is necessary.
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Affiliation(s)
- Jung-Sheng Chen
- Department of Medical Research, E-Da Hospital, I-Shou University, Kaohsiung, Taiwan
| | - Bing-Mu Hsu
- Department of Earth and Environmental Sciences, National Chung Cheng University, Chiayi, Taiwan
| | - Wen-Chien Ko
- Department of Medicine, College of Medicine, National Cheng Kung University, Tainan, Taiwan; Department of Internal Medicine, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan, Taiwan
| | - Jiun-Ling Wang
- Department of Medicine, College of Medicine, National Cheng Kung University, Tainan, Taiwan; Department of Internal Medicine, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan, Taiwan.
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Segaran TC, Azra MN, Lananan F, Wang Y. Microbe, climate change and marine environment: Linking trends and research hotspots. MARINE ENVIRONMENTAL RESEARCH 2023:106015. [PMID: 37291004 DOI: 10.1016/j.marenvres.2023.106015] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 04/26/2023] [Accepted: 04/30/2023] [Indexed: 06/10/2023]
Abstract
Microbes, or microorganisms, have been the foundation of the biosphere for over 3 billion years and have played an essential role in shaping our planet. The available knowledge on the topic of microbes associated with climate change has the potential to reshape upcoming research trends globally. As climate change impacts the ocean or marine ecosystem, the responses of these "unseen life" will heavily influence the achievement of a sustainable evolutionary environment. The present study aims to identify microbial-related research under changing climate within the marine environment through the mapping of visualized graphs of the available literature. We used scientometric methods to retrieve documents from the Web of Science platform in the Core Collection (WOSCC) database, analyzing a total of 2767 documents based on scientometric indicators. Our findings show that this research area is growing exponentially, with the most influential keywords being "microbial diversity," "bacteria," and "ocean acidification," and the most cited being "microorganism" and "diversity." The identification of influential clusters in the field of marine science provides insight into the hot spots and frontiers of research in this area. Prominent clusters include "coral microbiome," "hypoxic zone," "novel Thermoplasmatota clade," "marine dinoflagellate bloom," and "human health." Analyzing emerging trends and transformative changes in this field can inform the creation of special issues or research topics in selected journals, thus increasing visibility and engagement among the scientific community.
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Affiliation(s)
- Thirukanthan Chandra Segaran
- Climate Change Adaptation Laboratory, Institute of Marine Biotechnology (IMB), Universiti Malaysia Terengganu (UMT), 21030, Kuala Nerus, Terengganu, Malaysia.
| | - Mohamad Nor Azra
- Climate Change Adaptation Laboratory, Institute of Marine Biotechnology (IMB), Universiti Malaysia Terengganu (UMT), 21030, Kuala Nerus, Terengganu, Malaysia; Research Center for Marine and Land Bioindustry, Earth Sciences and Maritime Organization, National Research and Innovation Agency (BRIN), Pemenang, West Nusa Tenggara, 83352, Indonesia.
| | - Fathurrahman Lananan
- East Coast Environmental Research Institute, Universiti Sultan Zainal Abidin, Gong Badak Campus, 21300, Kuala Nerus, Terengganu, Malaysia.
| | - Youji Wang
- International Research Center for Marine Biosciences at Shanghai Ocean University, Ministry of Science and Technology, Shanghai, China.
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Bhattacharya S, Das A, Krishnan K, Patil NA, Sadique J. Co-substrate-mediated utilization of high concentration of phenol by Aspergillus niger FP7 and reduction of its phytotoxicity on Vigna radiata L. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:64030-64038. [PMID: 33890222 DOI: 10.1007/s11356-021-13947-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Accepted: 04/12/2021] [Indexed: 06/12/2023]
Abstract
Phenol and its derivatives behave as mutagens, teratogens and carcinogens inducing adverse physiological effects and are considered environmental hazards. The present study focuses on high concentration phenol utilization by Aspergillus niger FP7 under various physicochemical parameters. The soil remediation potential of the culture for reducing phenol toxicity against Vigna radiata L. seed germination was also evaluated along with the extent of phenol utilization using high-performance liquid chromatography. Aspergillus niger FP7 showed phenol tolerance up to 1000 mg/l, beyond which there was a sharp reduction in phenol utilization. Supplementation of the mineral salt medium with glucose and peptone and application of a 100 rpm agitation rate enhanced phenol utilization (up to 88.3%). Phenol utilization efficiency decreased (up to 29.6%) when cadmium and mercury salts were present, but the same improved (59.4-75.5%) by the incorporation of cobalt, copper and zinc salts. Vigna radiata L. seeds sown in the non-augmented soil revealed a 3.27% germination index, and with fungal augmentation, the germination index improved (97.3%). The non-augmented soil demonstrated 3.1% phenol utilization, while for the augmented soil, the utilization was 79.3%. Based on the phytotoxicity study and chromatographic analysis, it could be inferred that Aspergillus niger FP7 significantly enhanced phenol utilization in soil. In the future, Aspergillus niger FP7 could be of potential use in bioremediation of sites polluted with high concentrations of phenol.
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Affiliation(s)
- Sourav Bhattacharya
- Department of Microbiology, School of Sciences, JAIN (Deemed-to-be University), 18/3, 9th Main, 3rd Block, Jayanagar, Bangalore, Karnataka, 560011, India.
| | - Arijit Das
- Department of Microbiology, School of Sciences, JAIN (Deemed-to-be University), 18/3, 9th Main, 3rd Block, Jayanagar, Bangalore, Karnataka, 560011, India
| | - Kavitha Krishnan
- Department of Microbiology, School of Sciences, JAIN (Deemed-to-be University), 18/3, 9th Main, 3rd Block, Jayanagar, Bangalore, Karnataka, 560011, India
| | - Nischita A Patil
- Department of Microbiology, School of Sciences, JAIN (Deemed-to-be University), 18/3, 9th Main, 3rd Block, Jayanagar, Bangalore, Karnataka, 560011, India
| | - Jaffar Sadique
- Department of Microbiology, School of Sciences, JAIN (Deemed-to-be University), 18/3, 9th Main, 3rd Block, Jayanagar, Bangalore, Karnataka, 560011, India
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Ji M, Liu Z, Sun K, Li Z, Fan X, Li Q. Bacteriophages in water pollution control: Advantages and limitations. FRONTIERS OF ENVIRONMENTAL SCIENCE & ENGINEERING 2021; 15:84. [PMID: 33294248 PMCID: PMC7716794 DOI: 10.1007/s11783-020-1378-y] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 09/11/2020] [Accepted: 09/29/2020] [Indexed: 05/11/2023]
Abstract
Wastewater is a breeding ground for many pathogens, which may pose a threat to human health through various water transmission pathways. Therefore, a simple and effective method is urgently required to monitor and treat wastewater. As bacterial viruses, bacteriophages (phages) are the most widely distributed and abundant organisms in the biosphere. Owing to their capacity to specifically infect bacterial hosts, they have recently been used as novel tools in water pollution control. The purpose of this review is to summarize and evaluate the roles of phages in monitoring pathogens, tracking pollution sources, treating pathogenic bacteria, infecting bloom-forming cyanobacteria, and controlling bulking sludge and biofilm pollution in wastewater treatment systems. We also discuss the limitations of phage usage in water pollution control, including phage-mediated horizontal gene transfer, the evolution of bacterial resistance, and phage concentration decrease. This review provides an integrated outlook on the use of phages in water pollution control.
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Affiliation(s)
- Mengzhi Ji
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
| | - Zichen Liu
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
| | - Kaili Sun
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
| | - Zhongfang Li
- College of Food and Bioengineering, Hezhou University, Hezhou, 542899 China
| | - Xiangyu Fan
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
| | - Qiang Li
- School of Biological Science and Technology, University of Jinan, Jinan, 250022 China
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Stathoulias A, Milioni A, Kritikou S, Karmakolia A, Goudoudaki S, Siamoglou S, Chassomeris C, Vassilakis S, Karamperis K, Velegraki A, Anastassopoulou C, Manoussopoulos Y, Patrinos GP, Kambouris ME. Toward High-Throughput Fungal Electroculturomics and New Omics Methodologies in 21st-Century Microbiology and Ecology. ACTA ACUST UNITED AC 2020; 24:493-504. [DOI: 10.1089/omi.2020.0012] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Andreas Stathoulias
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Aphroditi Milioni
- Department of Microbiology, School of Medicine, National and Kapodistrian University of Athens, Athens, Greece
| | - Stavroula Kritikou
- Department of Microbiology, School of Medicine, National and Kapodistrian University of Athens, Athens, Greece
| | - Aikaterini Karmakolia
- Laboratory of Virology, Plant Protection Division of Patras, ELGO-Demeter, Patras, Greece
| | - Stavroula Goudoudaki
- Laboratory of Virology, Plant Protection Division of Patras, ELGO-Demeter, Patras, Greece
| | - Stavroula Siamoglou
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Constantinos Chassomeris
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Stamatis Vassilakis
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Kariofyllis Karamperis
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Aristea Velegraki
- Department of Microbiology, School of Medicine, National and Kapodistrian University of Athens, Athens, Greece
| | - Cleo Anastassopoulou
- Department of Microbiology, School of Medicine, National and Kapodistrian University of Athens, Athens, Greece
| | - Yiannis Manoussopoulos
- Laboratory of Virology, Plant Protection Division of Patras, ELGO-Demeter, Patras, Greece
| | - George P. Patrinos
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
| | - Manousos E. Kambouris
- Laboratory of Pharmacogenomics and Individualized Therapy, Department of Pharmacy, School of Health Sciences, University of Patras, Patras, Greece
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Gül ÜD, İlhan S, İşçen CF. Optimization of Biosorption Conditions for Surfactant Induced Decolorization by Anaerobic Sludge Granules. TENSIDE SURFACT DET 2019. [DOI: 10.3139/113.110619] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
AbstractThe sorption of Remazol Black B (RBB) by dried anaerobic sludge granules (ASG) was examined in this study. The biosorption process was monitored based on the statistical optimization data of the batch reactor studies. In the factorial tests, 36 different tests were established by considering the variables such as temperature (25°C, 50°C), pH (1, 3, 5), dye concentration (100, 150, 200 mg/L) and cationic surfactant concentration (0, 0.5 mM). Also, it was intended to investigate the effect of cationic surfactant dodecyl trimethylammonium bromide (DTAB) on decolorization of the anionic dye RBB by ASG. The sorption isotherms and kinetics were determined for RBB removal. The biosorption of RBB was fitted with Langmuir isotherm and pseudo-second-order kinetic models. The oppositely charged dye and surfactant molecules interacted electrostatically. These electrostatic interactions improved the dye biosorption properties of ASG. Our results indicate that a surfactant can be used as an inducer in the treatment of dye-contaminated water. This is the first paper combining factorial experiment design and surfactant-accelerated decolorization to achieve more effective biosorption conditions.
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Affiliation(s)
- Ülküye Dudu Gül
- 1Vocational School of Health Services, University of Bilecik Seyh Edebali, Bilecik/Turkey
- 2Biotechnology Application and Research Center, Bilecik Seyh Edebali University 11230, Gülümbe, Bilecik, Turkey
| | - Semra İlhan
- 3Eskisehir Osmangazi University, Faculty of Sciences and Letter Department of Biology Eskisehir/Turkey
| | - Cansu Filik İşçen
- 4Eskisehir Osmangazi University, Faculty of Education, Department of Mathematical and Science Education, Eskisehir/Turkey
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Costeira R, Doherty R, Allen CCR, Larkin MJ, Kulakov LA. Analysis of viral and bacterial communities in groundwater associated with contaminated land. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 656:1413-1426. [PMID: 30625669 DOI: 10.1016/j.scitotenv.2018.11.429] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2018] [Revised: 11/24/2018] [Accepted: 11/28/2018] [Indexed: 06/09/2023]
Abstract
This work aimed at the comprehensive analysis of total microbial communities inhabiting a typical hydrocarbon-polluted site, where chemical characteristics of the groundwater were readily available. To achieve this, a joint metagenomic characterization of bacteria and viruses surrounding a contaminant plume was performed over a one-year period. The results presented demonstrated that both potential hydrocarbon degraders and their bacteriophages were dominant around the plume, and that the viral and bacterial diversities found at the site were probably influenced by the pH of the groundwater. Niche-specific and dispersed associations between phages and bacteria were identified. The niche phage-host associations were found at the edge of the site and at the core of the plume where pH was the highest (9.52). The identified host populations included several classes of bacteria (e.g. Clostridia and Proteobacteria). Thirty-six viral generalists were also discovered, with BGW-G9 having the broadest host range across 23 taxa, including Pseudomonas, Polycyclovorans, Methylocaldum and Candidatus Magnetobacterium species. The phages with broad host ranges are presumed to have significant effects on prokaryotic production and horizontal gene transfer, and therefore impact the biodegradation processes conducted by various bacteria of the environment studied. This study for the first time characterized the phages and their bacterial hosts associated with a contaminant plume.
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Affiliation(s)
| | - Rory Doherty
- School of the Natural and Built Environment, Queen's University Belfast, UK
| | - Christopher C R Allen
- School of Biological Sciences, Queen's University Belfast, UK; Institute for Global Food Security, Queen's University Belfast, UK
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Goold HD, Wright P, Hailstones D. Emerging Opportunities for Synthetic Biology in Agriculture. Genes (Basel) 2018; 9:E341. [PMID: 29986428 PMCID: PMC6071285 DOI: 10.3390/genes9070341] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2018] [Revised: 06/27/2018] [Accepted: 07/03/2018] [Indexed: 12/11/2022] Open
Abstract
Rapid expansion in the emerging field of synthetic biology has to date mainly focused on the microbial sciences and human health. However, the zeitgeist is that synthetic biology will also shortly deliver major outcomes for agriculture. The primary industries of agriculture, fisheries and forestry, face significant and global challenges; addressing them will be assisted by the sector’s strong history of early adoption of transformative innovation, such as the genetic technologies that underlie synthetic biology. The implementation of synthetic biology within agriculture may, however, be hampered given the industry is dominated by higher plants and mammals, where large and often polyploid genomes and the lack of adequate tools challenge the ability to deliver outcomes in the short term. However, synthetic biology is a rapidly growing field, new techniques in genome design and synthesis, and more efficient molecular tools such as CRISPR/Cas9 may harbor opportunities more broadly than the development of new cultivars and breeds. In particular, the ability to use synthetic biology to engineer biosensors, synthetic speciation, microbial metabolic engineering, mammalian multiplexed CRISPR, novel anti microbials, and projects such as Yeast 2.0 all have significant potential to deliver transformative changes to agriculture in the short, medium and longer term. Specifically, synthetic biology promises to deliver benefits that increase productivity and sustainability across primary industries, underpinning the industry’s prosperity in the face of global challenges.
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Affiliation(s)
- Hugh Douglas Goold
- Department of Molecular Sciences, Macquarie University, North Ryde, NSW 2109, Australia.
- New South Wales Department of Primary Industries, Elizabeth Macarthur Agricultural Institute, Woodbridge Road, Menangle, NSW 2568, Australia.
| | - Philip Wright
- New South Wales Department of Primary Industries, Locked Bag 21, 161 Kite St, Orange, NSW 2800, Australia.
| | - Deborah Hailstones
- New South Wales Department of Primary Industries, Elizabeth Macarthur Agricultural Institute, Woodbridge Road, Menangle, NSW 2568, Australia.
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Advanced microbial analysis for wastewater quality monitoring: metagenomics trend. Appl Microbiol Biotechnol 2017; 101:7445-7458. [DOI: 10.1007/s00253-017-8490-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2017] [Accepted: 08/19/2017] [Indexed: 12/20/2022]
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Wang W, Yao L, Cheng CY, Zhang T, Atsumi H, Wang L, Wang G, Anilionyte O, Steiner H, Ou J, Zhou K, Wawrousek C, Petrecca K, Belcher AM, Karnik R, Zhao X, Wang DIC, Ishii H. Harnessing the hygroscopic and biofluorescent behaviors of genetically tractable microbial cells to design biohybrid wearables. SCIENCE ADVANCES 2017; 3:e1601984. [PMID: 28560325 PMCID: PMC5438213 DOI: 10.1126/sciadv.1601984] [Citation(s) in RCA: 67] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2016] [Accepted: 03/22/2017] [Indexed: 05/24/2023]
Abstract
Cells' biomechanical responses to external stimuli have been intensively studied but rarely implemented into devices that interact with the human body. We demonstrate that the hygroscopic and biofluorescent behaviors of living cells can be engineered to design biohybrid wearables, which give multifunctional responsiveness to human sweat. By depositing genetically tractable microbes on a humidity-inert material to form a heterogeneous multilayered structure, we obtained biohybrid films that can reversibly change shape and biofluorescence intensity within a few seconds in response to environmental humidity gradients. Experimental characterization and mechanical modeling of the film were performed to guide the design of a wearable running suit and a fluorescent shoe prototype with bio-flaps that dynamically modulates ventilation in synergy with the body's need for cooling.
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Affiliation(s)
- Wen Wang
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Lining Yao
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Chin-Yi Cheng
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
- Department of Architecture, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Teng Zhang
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Hiroshi Atsumi
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Luda Wang
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Guanyun Wang
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Oksana Anilionyte
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Helene Steiner
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Jifei Ou
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Kang Zhou
- Department of Chemical and Biomolecular Engineering, National University of Singapore, Singapore 117585, Singapore
| | - Chris Wawrousek
- New Balance Athletics, 190 Merrimack Street, Lawrence, MA 01843, USA
| | | | - Angela M. Belcher
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Rohit Karnik
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Xuanhe Zhao
- Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Daniel I. C. Wang
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Hiroshi Ishii
- MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
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Pathak M, Sarma HK, Bhattacharyya KG, Subudhi S, Bisht V, Lal B, Devi A. Characterization of a Novel Polymeric Bioflocculant Produced from Bacterial Utilization of n-Hexadecane and Its Application in Removal of Heavy Metals. Front Microbiol 2017; 8:170. [PMID: 28223975 PMCID: PMC5293801 DOI: 10.3389/fmicb.2017.00170] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2016] [Accepted: 01/24/2017] [Indexed: 11/13/2022] Open
Abstract
A novel polymeric bioflocculant was produced by a bacterium utilizing degradation of n-hexadecane as the energy source. The bioflocculant was produced with a bioflocculating activity of 87.8%. The hydrocarbon degradation was confirmed by gas chromatography-mass spectrometry analysis and was further supported with contact angle measurements for the changes in hydrophobic nature of the culture medium. A specific aerobic degradation pathway followed by the bacterium during the bioflocculant production and hydrocarbon utilization process has been proposed. FT-IR, SEM-EDX, LC/MS, and 1H NMR measurements indicated the presence of carbohydrates and proteins as the major components of the bioflocculant. The bioflocculant was characterized for its carbohydrate monomer constituents and its practical applicability was established for removing the heavy metals (Ni2+, Zn2+, Cd2+, Cu2+, and Pb2+) from aqueous solutions at concentrations of 1–50 mg L-1. The highest activity of the bioflocculant was observed with Ni2+ with 79.29 ± 0.12% bioflocculation efficiency.
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Affiliation(s)
- Mihirjyoti Pathak
- Environmental Chemistry Laboratory, Resource Management and Environment Section, Life Science Division, Institute of Advanced Study in Science and Technology Guwahati, India
| | - Hridip K Sarma
- Department of Biotechnology, Gauhati University Guwahati, India
| | | | - Sanjukta Subudhi
- Environmental and Industrial Biotechnology Division, The Energy and Resources Institute New Delhi, India
| | - Varsha Bisht
- Environmental and Industrial Biotechnology Division, The Energy and Resources Institute New Delhi, India
| | - Banwari Lal
- Environmental and Industrial Biotechnology Division, The Energy and Resources Institute New Delhi, India
| | - Arundhuti Devi
- Environmental Chemistry Laboratory, Resource Management and Environment Section, Life Science Division, Institute of Advanced Study in Science and Technology Guwahati, India
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Sivasubramaniam D, Franks AE. Bioengineering microbial communities: Their potential to help, hinder and disgust. Bioengineered 2017; 7:137-44. [PMID: 27221461 PMCID: PMC4927200 DOI: 10.1080/21655979.2016.1187346] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
The bioengineering of individual microbial organisms or microbial communities has great potential in agriculture, bioremediation and industry. Understanding community level drivers can improve community level functions to enhance desired outcomes in complex environments, whereas individual microbes can be reduced to a programmable biological unit for specific output goals. While understanding the bioengineering potential of both approaches leads to a wide range of potential uses, public acceptance of such technology may be the greatest hindrance to its application. Public perceptions and expectations of “naturalness,” as well as notions of disgust and dread, may delay the development of such technologies to their full benefit. We discuss these bioengineering approaches and draw on the psychological literature to suggest strategies that scientists can use to allay public concerns over the implementation of this technology.
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Affiliation(s)
- Diane Sivasubramaniam
- a Department of Psychological Sciences , Swinburne University , Melbourne , Victoria , Australia
| | - Ashley E Franks
- b Department of Physiology , Anatomy and Microbiology, La Trobe University , Melbourne , Victoria , Australia
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15
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Kou S, Yang Z, Luo J, Sun F. Entirely recombinant protein-based hydrogels for selective heavy metal sequestration. Polym Chem 2017. [DOI: 10.1039/c7py01206c] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Green mining and heavy metal remediation enabled by metalloprotein hydrogels.
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Affiliation(s)
- Songzi Kou
- Department of Chemical and Biological Engineering
- The Hong Kong University of Science and Technology
- Kowloon
- Hong Kong
| | - Zhongguang Yang
- Department of Chemical and Biological Engineering
- The Hong Kong University of Science and Technology
- Kowloon
- Hong Kong
| | - Jiren Luo
- Department of Chemical and Biological Engineering
- The Hong Kong University of Science and Technology
- Kowloon
- Hong Kong
| | - Fei Sun
- Department of Chemical and Biological Engineering
- The Hong Kong University of Science and Technology
- Kowloon
- Hong Kong
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16
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Wagner HJ, Sprenger A, Rebmann B, Weber W. Upgrading biomaterials with synthetic biological modules for advanced medical applications. Adv Drug Deliv Rev 2016; 105:77-95. [PMID: 27179764 DOI: 10.1016/j.addr.2016.05.004] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2015] [Revised: 03/02/2016] [Accepted: 05/04/2016] [Indexed: 02/04/2023]
Abstract
One key aspect of synthetic biology is the development and characterization of modular biological building blocks that can be assembled to construct integrated cell-based circuits performing computational functions. Likewise, the idea of extracting biological modules from the cellular context has led to the development of in vitro operating systems. This principle has attracted substantial interest to extend the repertoire of functional materials by connecting them with modules derived from synthetic biology. In this respect, synthetic biological switches and sensors, as well as biological targeting or structure modules, have been employed to upgrade functions of polymers and solid inorganic material. The resulting systems hold great promise for a variety of applications in diagnosis, tissue engineering, and drug delivery. This review reflects on the most recent developments and critically discusses challenges concerning in vivo functionality and tolerance that must be addressed to allow the future translation of such synthetic biology-upgraded materials from the bench to the bedside.
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