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Yayanos AA. Evolutional and ecological implications of the properties of deep-sea barophilic bacteria. Proc Natl Acad Sci U S A 2010; 83:9542-6. [PMID: 16593790 PMCID: PMC387176 DOI: 10.1073/pnas.83.24.9542] [Citation(s) in RCA: 90] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The rate of reproduction of deep-sea bacteria from six different capture depths between 1957 and 10,476 meters was studied as a function of temperature and pressure. The results showed the following: the true deep-sea bacteria of different depths have several characteristics, presumably evolutionally derived, distinguishing them from each other and from bacteria of atmospheric-pressure environments; pressure plays a significant role in determining the distribution of oceanic life; and pressure-adapted bacteria are easily recovered from and ubiquitous in the deep ocean. Organisms evolving in habitats of different temperatures and pressures need to be studied to understand the physical limits of life, the distribution of life within the earth and its oceans, the role of organisms in organic diagenesis and petroleum formation, and the possible existence of life on and within other planets.
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Affiliation(s)
- A A Yayanos
- Scripps Institution of Oceanography (A-002), University of California at San Diego, La Jolla, CA 92093
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Khosravi-Darani K, Vasheghani-Farahani E. Application of Supercritical Fluid Extraction in Biotechnology. Crit Rev Biotechnol 2008; 25:231-42. [PMID: 16419619 DOI: 10.1080/07388550500354841] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
In the present paper recent investigations on the applications of supercritical fluid extraction (SCE) from post fermentation biomass or in situ extraction of inhibitory fermentation products as a promising method for increasing the yield of extraction have been reviewed. Although supercritical CO2 (SC-CO2) is unfriendly, or even toxic, for some living cells and precludes direct fermentation in dense CO2, it does not rule out other useful applications for in situ extraction of inhibitory fermentation products and fractional extraction of biomass constituents. This technique is a highly desirable method for fractional extraction of biomass constituents, and intracellular metabolites due to the potential of system modification by physical parameters and addition of co-solvents to selectively extract compounds of different polarity, volatility and hydrophilicity without any contamination.
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Affiliation(s)
- K Khosravi-Darani
- Department of Chemical Engineering, Tarbiat Modarres University, Tehran, IR Iran
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Paul CJ, Tran S, Tam KJ, Austin JW. A unique restriction site in the flaA gene allows rapid differentiation of group I and group II Clostridium botulinum strains by PCR-restriction fragment length polymorphism analysis. J Food Prot 2007; 70:2133-9. [PMID: 17900093 DOI: 10.4315/0362-028x-70.9.2133] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Clostridium botulinum produces the potent botulinum neurotoxin, the causative agent of botulism. Based on distinctive physiological traits, strains of C. botulinum can be divided into four groups: however, only groups I and II are associated with human illness. Alignment of the flaA gene sequences from 40 group I and 40 group II strains identified a single BsrG1 restriction cut site that was present at base pair 283 in all group II flaA sequences and was not found in any group I sequence. The flaA gene was amplified by rapid colony PCR from 22 group I strains and 18 group II strains and digested with BsrGI restriction enzyme. Standard agarose gel electrophoresis with ethidium bromide staining showed two fragments, following restriction digestion of group II flaA gene amplicons with BsrGI, but only a single band of uncut flaA from group I strains. Combining rapid colony PCR with BsrGI restriction digest of the flaA gene at 60 degrees C is a significant improvement over current methods, such as meat digestion or amplified fragment length polymorphism, as a strain can be identified as either group I or group II in under 5 h when starting with a visible plated C. botulinum colony.
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Affiliation(s)
- Catherine J Paul
- Bureau of Microbial Hazards, Health Products and Food Branch, Health Canada, Sir Frederick G. Banting Research Centre, 251 Sir Frederick Banting Driveway, Ottawa, Ontario, Canada K0A 0K9
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Onken U, Liefke E. Effect of total and partial pressure (oxygen and carbon dioxide) on aerobic microbial processes. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2005; 40:137-69. [PMID: 2515758 DOI: 10.1007/bfb0009830] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
In industrial bioreactors, levels and gradients of total and partial pressures are considerably higher than on the laboratory scale. In the relevant range (in general up to 2 or 3 bar, maximum approx. 10 bar), effects of total pressure on aerobic cultures are negligibly small. CO2 partial pressures of more than approx. 100 mbar may have inhibitory effects on aerobic cultures. Growth of aerobic cultures can be enhanced by O2 partial pressures higher than 210 mbar (corresponding to air at 1 bar), if oxygen transfer is limited. In many cases, however, increased O2 partial pressure (higher than approx. 1 bar) is toxic to aerobic cultures and inhibits microbial growth and product formation. Stepwise and cyclic variations of O2 partial pressure may have positive or negative effects, depending on strain of microorganism, culturing conditions, and range of dissolved oxygen concentration. Knowledge of these effects is required in process development and bioreactor scale-up.
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Michels PC, Hei D, Clark DS. Pressure effects on enzyme activity and stability at high temperatures. ADVANCES IN PROTEIN CHEMISTRY 1996; 48:341-76. [PMID: 8791629 DOI: 10.1016/s0065-3233(08)60366-6] [Citation(s) in RCA: 42] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
- P C Michels
- Department of Chemical Engineering, University of California, Berkeley 94720, USA
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Pledger RJ, Crump BC, Baross JA. A barophilic response by two hyperthermophilic, hydrothermal vent Archaea: An upward shift in the optimal temperature and acceleration of growth rate at supra-optimal temperatures by elevated pressure. FEMS Microbiol Ecol 1994. [DOI: 10.1111/j.1574-6941.1994.tb00109.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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Welch TJ, Farewell A, Neidhardt FC, Bartlett DH. Stress response of Escherichia coli to elevated hydrostatic pressure. J Bacteriol 1993; 175:7170-7. [PMID: 8226663 PMCID: PMC206858 DOI: 10.1128/jb.175.22.7170-7177.1993] [Citation(s) in RCA: 154] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023] Open
Abstract
The response of exponentially growing cultures of Escherichia coli to abrupt shifts in hydrostatic pressure was studied. A pressure upshift to 546 atm (55,304 kPa) of hydrostatic pressure profoundly perturbed cell division, nucleoid structure, and the total rate of protein synthesis. The number of polypeptides synthesized at increased pressure was greatly reduced, and many proteins exhibited elevated rates of synthesis relative to total protein synthesis. We designated the latter proteins pressure-induced proteins (PIPs). The PIP response was transient, with the largest induction occurring approximately 60 to 90 min postshift. Fifty-five PIPs were identified. Many of these proteins are also induced by heat shock or cold shock. The PIP demonstrating the greatest pressure induction was a basic protein of 15.6 kDa. High pressure inhibits growth but does not inhibit the synthesis of stringently controlled proteins. Cold shock is the only additional signal which has been found to elicit this type of response. These data indicate that elevated pressure induces a unique stress response in E. coli, the further characterization of which could be useful in delineating its inhibitory nature.
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Affiliation(s)
- T J Welch
- Center for Marine Biomedicine and Biotechnology, Scripps Institution of Oceanography, University of California, San Diego, La Jolla 92093-0202
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Deming JW, Baross JA. Deep-sea smokers: windows to a subsurface biosphere? GEOCHIMICA ET COSMOCHIMICA ACTA 1993; 57:3219-3230. [PMID: 11538298 DOI: 10.1016/0016-7037(93)90535-5] [Citation(s) in RCA: 76] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Since the discovery of hyperthermophilic microbial activity in hydrothermal fluids recovered from "smoker" vents on the East Pacific Rise, the widely accepted upper temperature limit for life (based on pure culture data) has risen from below the boiling point of water at atmospheric pressure to approximately 115 degrees C. Many microbiologists seem willing to speculate that the maximum may be closer to 150 degrees C. We have postulated not only higher temperatures than these (under deep-sea hydrostatic pressures), but also the existence of a biosphere subsurface to accessible seafloor vents. New geochemical information from the Endeavour Segment of the Juan de Fuca Ridge indicative of subsurface organic material caused us to re-examine both the literature on hyperthermophilic microorganisms cultured from deep-sea smoker environments and recent results of microbial sampling efforts at actively discharging smokers on the Endeavour Segment. Here we offer the case for a subsurface biosphere based on an interdisciplinary view of microbial and geochemical analyses of Endeavour smoker fluids, a case in keeping with rapidly evolving geophysical understanding of organic stability under deep-sea hydrothermal conditions.
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Affiliation(s)
- J W Deming
- School of Oceanography, University of Washington, Seattle 98195, USA
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Ludlow JM, Clark DS. Engineering considerations for the application of extremophiles in biotechnology. Crit Rev Biotechnol 1991; 10:321-45. [PMID: 2070423 DOI: 10.3109/07388559109038214] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Biotechnology may soon take greater advantage of extremophiles--microorganisms that grow in high salt or heavy metal concentrations, or at extremes of temperature, pressure, or pH. These organisms and their cellular components are attractive because they permit process operation over a wider range of conditions than their traditional counterparts. However, extremophiles also present a number of challenges for the development of bioprocesses, such as slow growth, low cell yield, and high shear sensitivity. Difficulties inherent in designing equipment suitable for extreme conditions are also encountered. This review describes both the advantages and disadvantages of extremophiles, as well as the specialized equipment required for their study and application in biotechnology.
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Affiliation(s)
- J M Ludlow
- Department of Chemical Engineering, University of California, Berkeley 94720
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Abstract
The discovery of hydrothermal vents at oceanic ridge crests and the appreciation of their importance in the element balance of the oceans is one of the main recent advances in marine geochemistry. It is likely that vents were present in the oceans of the primitive Earth because the process of hydrothermal circulation probably began early in the Earth's history. Here we examine the popular hypothesis that life arose in these vents. This proposal, however, is based on a number of misunderstandings concerning the organic chemistry involved. An example is the suggestion that organic compounds were destroyed on the surface of the early Earth by the impact of asteroids and comets, but at the same time assuming that organic syntheses can occur in hydrothermal vents. The high temperatures in the vents would not allow synthesis of organic compounds, but would decompose them, unless the exposure time at vent temperatures was short. Even if the essential organic molecules were available in the hot hydrothermal waters, the subsequent steps of polymerization and the conversion of these polymers into the first organisms would not occur as the vent waters were quenched to the colder temperatures of the primitive oceans.
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Affiliation(s)
- S L Miller
- Department of Chemistry, University of California at San Diego, La Jolla 92093, USA
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Kelly RM, Deming JW. Extremely Thermophilic Archaebacteria: Biological and Engineering Considerations. Biotechnol Prog 1988. [DOI: 10.1002/btpr.5420040202] [Citation(s) in RCA: 55] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Bernhardt G, Jaenicke R, Lüdemann HD, König H, Stetter KO. High Pressure Enhances the Growth Rate of the Thermophilic Archaebacterium
Methanococcus thermolithotrophicus
without Extending Its Temperature Range. Appl Environ Microbiol 1988; 54:1258-61. [PMID: 16347635 PMCID: PMC202636 DOI: 10.1128/aem.54.5.1258-1261.1988] [Citation(s) in RCA: 32] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Temperature and hydrostatic pressure are essential in determining the assemblage of species in their specific biotopes. To evaluate the effect of high pressure on the range of viability of thermophiles, the pressure and temperature dependence of the growth of the methanogenic archaebacterium
Methanococcus thermolithotrophicus
was investigated. High pressure up to 50 MPa enhanced the growth rate without extending the temperature range of viability. The optimum temperature remained unaltered (65°C). Beyond 50 MPa, cell lysis predominated over cell proliferation. Destabilization was also observed at temperatures below and above the optimum growth temperature (<60°C, ≥70°C) and at low substrate concentrations.
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Affiliation(s)
- G Bernhardt
- Institut für Biophysik und Physikalische Biochemie and Lehrstuhl für Mikrobiologie, Universität Regensburg, D-8400 Regensburg, Federal Republic of Germany
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Sturm FJ, Hurwitz SA, Deming JW, Kelly RM. Growth of the extreme thermophileSulfolobus acidocaldarius in a hyperbaric helium bioreactor. Biotechnol Bioeng 1987; 29:1066-74. [DOI: 10.1002/bit.260290905] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Deming JW. The biotechnological future for newly described, extremely thermophilic bacteria. MICROBIAL ECOLOGY 1986; 12:111-119. [PMID: 24212461 DOI: 10.1007/bf02153226] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Recent explorations of aquatic volcanic environments have led to the isolation of novel microorganisms with optimal growth temperatures of 80°C or higher. Expectations of equally novel, highly thermostable biocatalysts and specialty chemicals from such organisms remain high but must be tempered with the laboratory realities of manipulating unusual bacteria whose growth characteristics are as yet poorly defined. Advancing the biotechnological future of "super-thermophiles" will require new cultivation methods, including the use of highly thermostable gels and pressurized bioreactors.
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Affiliation(s)
- J W Deming
- Chesapeake Bay Institute, The Johns Hopkins University, 4800 Atwell Road, 20764, Shady Side, Maryland, USA
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Yayanos AA, van Boxtel R, Dietz AS. High-pressure-temperature gradient instrument: use for determining the temperature and pressure limits of bacterial growth. Appl Environ Microbiol 1984; 48:771-6. [PMID: 6391378 PMCID: PMC241611 DOI: 10.1128/aem.48.4.771-776.1984] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
Abstract
A pressurized temperature gradient instrument allowed a synoptic determination of the effects of temperature and pressure on the reproduction of bacteria. The instrument consisted of eight pressure vessels housed parallel to each other in an insulated aluminum block in which a linear temperature gradient was supported. For a given experiment, eight pressures between 1 and 1,100 bars were chosen; the linear temperature gradient was established over an interval within -20 to 100 degrees C. Pure cultures and natural populations were studied in liquid or solid medium either in short (ca. 2-cm) culture tubes or in long (76.2-cm) glass capillaries. In the case of a pure culture, experiments with the pressurized temperature gradient instrument determined values of temperature and pressure that bounded its growth. Feasibility experiments with mixed populations of bacteria from water samples from a shallow depth of the sea showed that the instrument may be useful in identifying the extent to which a natural population is adapted to the temperatures and pressures at the locale of origin of the sample. Additional conceived uses of the instrument included synoptic determinations of cell functions other than reproduction and of biochemical activities.
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Trent JD, Chastain RA, Yayanos AA. Possible artefactual basis for apparent bacterial growth at 250 degrees C. Nature 1984; 307:737-40. [PMID: 6700703 DOI: 10.1038/307737a0] [Citation(s) in RCA: 67] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Baross and Deming reported that thermophilic marine bacteria isolated from the vicinity of a submarine hot-spring grow at temperatures up to at least 250 degrees C. They did not, however, conduct the appropriate control experiments to eliminate the possibilities of chemical artefacts or contamination. Here, in experiments using the same growth medium, the same temperature and pressure apparatus and the same sampling and analytical procedures, we report results nearly identical to theirs. We conclude that their evidence indicating bacterial growth at 250 degrees C may be due to artefacts produced in the medium and to contaminants introduced during sample processing.
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