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Demonstration of a multi-technique approach to assess glacial microbial populations in the field

  • MEGAN J. BARNETT (a1), MARK PAWLETT (a2), JEMMA L. WADHAM (a3), MIRIAM JACKSON (a4) and DAVID C. CULLEN (a5)...

Abstract

The ability to perform microbial detection and characterization in-field at extreme environments, rather than on returned samples, has the potential to improve the efficiency, relevance and quantity of data from field campaigns. To date, few examples of this approach have been reported. Therefore, we demonstrate that the approach is feasible in subglacial environments by deploying four techniques for microbial detection: real-time polymerase chain reaction; microscopic fluorescence cell counts, adenosine triphosphate bioluminescence assay and recombinant Factor C assay (to detect lipopolysaccharide). Each technique was applied to 12 subglacial ice samples, 12 meltwater samples and two snow samples from Engabreen, Northern Norway. Using this multi-technique approach, the detected biomarker levels were as expected, being highest in debris-rich subglacial ice, moderate in glacial meltwater and low in clean ice (debris-poor) and snow. Principal component analysis was applied to the resulting dataset and could be performed in-field to rapidly aid the allocation of resources for further sample analysis. We anticipate that in-field data collection will allow for multiple rounds of sampling, analysis, interpretation and refinement within a single field campaign, resulting in the collection of larger and more appropriate datasets, ultimately with more efficient science return.

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Copyright

This is an Open Access article, distributed under the terms of the Creative Commons Attribution licence (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted re-use, distribution, and reproduction in any medium, provided the original work is properly cited.

Corresponding author

Correspondence: Megan J. Barnett <m.barnett.s06@gmail.com>

References

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Anesio, AM and Laybourn-Parry, J (2012) Glaciers and ice sheets as a biome. Trends Ecol. Evol., 27, 219225 (doi: 10.1016/j.tree.2011.09.012)
Aycicek, H, Oguz, U and Karci, K (2006) Comparison of results of ATP bioluminescence and traditional hygiene swabbing methods for the determination of surface cleanliness at a hospital kitchen. Int. J. Hyg. Envir. Heal., 209(2), 203206 (doi: 10.1016/j.ijheh.2005.09.007)
Baker, G, Smith, JJ and Cowan, DA (2003) Review and re-analysis of domain-specific 16S primers. J. Microbiol. Meth., 55(3), 541555 (doi: 10.1016/j.mimet.2003.08.009)
Barnett, MJ (2010) Implementation of in-field life detection and characterisation techniques in icy environments. (PhD thesis, Cranfield University)
Barnett, MJ, Pearce, DA and Cullen, DC (2012a) Advances in the in-field detection of microorganisms in ice. Adv. Appl. Microbiol., 81, 133167 (doi: 10.1016/B978-0-12-394382-8.00004-6)
Barnett, MJ, Wadham, JL, Jackson, M and Cullen, DC (2012b) In-field implementation of a recombinant factor C assay for the detection of lipopolysaccharide as a biomarker of extant life within glacial environments. Biosensors, 2(1), 83100 (doi: 10.3390/bios2010083)
Boyd, E and 8 others (2011) Diversity, abundance, and potential activity of nitrifying and nitrate-reducing microbial assemblages in a subglacial ecosystem. Appl. Environ. Microbiol., 77(14), 47784787 (doi: 10.1128/AEM.00376-11)
Braker, G, Fesefeldt, A and Witzel, K-P (1998) Development of PCR primer systems for amplification of nitrite reductase genes (nirK and nirS) to detect denitrifying bacteria in environmental samples. Appl. Environ. Microbiol., 64(10), 37693775 (doi: 0099-2240/98/$04.0010)
Cameron, KA, Hodson, AJ and Osborn, AM (2012) Carbon and nitrogen biogeochemical cycling potentials of supraglacial cryoconite communities. Polar Biol., 35, 13751393 (doi: 10.1007/s00300-012-1178-3)
Christner, BC, Skidmore, ML, Priscu, JC, Tranter, M and Foreman, CM (2008) Bacteria in subglacial environments. In Margesin, R, Schinner, F, Marx, J-C and Gerday, C eds. Psychrophiles: from biodiversity to biotechnology. Springer Berlin Heidelberg, Berlin, Heidelberg. chpt 4, 5171
Christner, BC, Mosley-Thompson, E, Thompson, LG and Reeve, JN (2001) Isolation of bacteria and 16S rDNA from Lake Vostok accretion ice. Environ. Microbiol., 3(9), 570577
Costello, AM and Lidstrom, ME (1999) Molecular characterization of functional and phylogenetic genes from natural populations of methanotrophs in lake sediments. Appl. Environ. Microbiol., 65(11), 50665074 (doi: 0099-2240/99/$04.0010)
Cowan, DA, Russell, NJ, Mamais, A and Sheppard, DM (2002) Antarctic Dry Valley mineral soils contain unexpectedly high levels of microbial biomass. Extremophiles, 6(5), 431436 (doi: 10.1007/s00792-002-0276-5)
Ding, JL and Ho, B (2001) A new era in pyrogen testing. Trends Biotechnol., 19(8), 277281 (doi: 10.1016/S0167-7799(01)01694-8)
Fairbanks, BC and 5 others (1984) Limitations of ATP estimates of microbial biomass. Soil Biol. Biochem., 16(6), 549558 (doi: 10.1016/0038-0717(84)90071-3)
Foght, J and 6 others (2004) Culturable bacteria in subglacial sediments and ice from two southern hemisphere glaciers. Microbial Ecol., 47(4), 329340 (doi: 10.1007/s00248-003-1036-5)
Gaidos, E and 7 others (2004) A viable microbial community in a subglacial volcanic crater lake, Iceland. Astrobiology, 4(3), 327344
Geets, J and 7 others (2007) Real-time PCR assay for the simultaneous quantification of nitrifying and denitrifying bacteria in activated sludge. Appl. Microbiol. Biotechnol., 75(1), 211221 (doi: 10.1007/s00253-006-0805-8)
Hjelmsø, MH and 5 others (2014) High-resolution melt analysis for rapid comparison of bacterial community compositions. Appl. Environ. Microbiol., 80(12), 35683575 (doi: 10.1128/AEM.03923-13)
Hodson, A and 10 others (2007) A glacier respires: quantifying the distribution and respiration CO2 flux of cryoconite across an entire Arctic supraglacial ecosystem. J. Geophys, Res., 112(G4), art. no. G04S36 (doi: 10.1128/AEM.03923-13)
Hodson, A and 7 others (2008) Glacial ecosystems. Ecol. Monogr., 78(1), 4167
Inagaki, F and 8 others (2004) Characterization of C1-metabolizing prokaryotic communities in methane seep habitats at the Kuroshima Knoll, Southern Ryukyu Arc, by analyzing pmoA, mmoX, mxaF, mcrA, and 16S rRNA genes. Appl. Environ. Microbiol., 70(12), 74457455 (doi: 10.1128/AEM.70.12.7445–7455.2004)
Irvine-Fynn, TDL, Edwards, A (2014) A frozen asset: the potential of flow cytometry in constraining the glacial biome. Cytometry A, 85(1), 37 (doi: 10.1002/cyto.a.22411)
Jenkinson, DS and Oades, JM (1979) A method for measuring adenosine triphosphate in soil. Soil Biol. Biochem., 11(2), 193199
Kandeler, E, Deiglmayr, K, Tscherko, D, Bru, D and Philippot, L (2006) Abundance of narG, nirS, nirK, and nosZ genes of denitrifying bacteria during primary successions of a glacier foreland. Appl. Environ. Microbiol., 72(9), 59575962 (doi: 10.1128/AEM.00439-06)
Karl, DM and 5 others (1999) Microorganisms in the accreted ice of Lake Vostok, Antarctica. Science, 286(5447), 21442147 (doi: 10.1126/science.286.5447.2144)
Karr, EA and 5 others (2005) Diversity and distribution of sulfate-reducing bacteria in permanently frozen Lake Fryxell, McMurdo Dry Valleys, Antarctica. Appl. Environ. Microbiol., 71(10), 63536359 (doi: 10.1128/AEM.71.10.6353-6359.2005)
Kaštovská, K and 5 others (2007) Microbial community structure and ecology of subglacial sediments in two polythermal Svalbard glaciers characterized by epifluorescence microscopy and PLFA. Polar Biol., 30(3), 277287 (doi: 10.1007/s00300-006-0181-y)
Klaschik, S and 5 others (2002) Real-time PCR for detection and differentiation of gram-positive and gram-negative bacteria. J. Clin. Microbiol., 40(11), 43044307 (doi: 10.1128/JCM.40.11.4304-4307.2002)
Kolb, S, Knief, C, Stubner, S and Conrad, R (2003) Quantitative detection of methanotrophs in soil by novel pmoA-targeted real-time PCR assays. Appl. Environ. Microbiol., 69(5), 24232429 (doi: 10.1128/AEM.69.5.2423-2429.2003)
Kondo, R, Nedwell, DB, Purdy, KJ and Silva, SQ (2004) Detection and enumeration of sulphate-reducing bacteria in estuarine sediments by competitive PCR. Geomicrobiol. J., 21(3), 145157 (doi: 10.1080/01490450490275307)
La Ferla, R, Lo Giudice, A and Maimone, G (2004) Morphology and LPS content for the estimation of marine bacterioplankton biomass in the Ionian Sea. Sci. Mar., 68(1), 2331
Leloup, J and 5 others (2007) Diversity and abundance of sulfate-reducing microorganisms in the sulfate and methane zones of a marine sediment, Black Sea. Environ. Microbiol., 9(1), 131142 (doi: 10.1111/j.1462-2920.2006.01122.x)
Mader, HM, Pettitt, ME, Wadham, JL, Wolff, EW and Parkes, RJ (2006) Subsurface ice as a microbial habitat. Geology, 34(3), 169172 (doi: 10.1130/G22096.1)
Manerkar, M, Seena, S and Bärlocher, F (2008) Q-RT-PCR for assessing archaea, bacteria, and fungi during leaf decomposition in a stream. Microbial Ecol., 56(3), 467473 (doi: 10.1007/s00248-008-9365-z)
Marx, MC, Wood, M and Jarvis, SC (2001) A microplate fluorimetric assay for the study of enzyme diversity in soils. Soil Biol. Biochem., 33, 16331640 (doi: 10.1016/S0038-0717(01)00079-7)
McDonald, IR and Murrell, JC (1997) The methanol dehydrogenase structural gene mxaF and its use as a functional gene probe for methanotrophs and methylotrophs. Appl. Environ. Microbiol., 63(8), 32183224
Mikucki, JA and 8 others (2009) A contemporary microbially maintained subglacial ferrous “ocean”. Science, 324(5925), 397400 (doi: 10.1126/science.1167350)
Mitchell, AC, Lafrenière, MJ, Skidmore, ML and Boyd, ES (2013) Influence of bedrock mineral composition on microbial diversity in a subglacial environment. Geology, 41(8), 855858 (doi: 10.1130/G34194.1)
Nadeau, JL and 5 others (2008) Fluorescence microscopy as a tool for in situ life detection. Astrobiology, 8(4), 859874 (doi: 10.1089/ast.2007.0043)
Ogilvie, L, Hirsch, P and Johnston, A (2008) Bacterial diversity of the broadbalk ‘classical’ winter wheat experiment in relation to long-term fertilizer inputs. Microbial Ecol., 56(3), 525537 (doi: 10.1007/s00248-008-9372-0)
Olson, JB, Steppe, TF, Litaker, RW and Paerl, HW (1998) N2-fixing microbial consortia associated with the ice over of Lake Bonney, Antarctica. Microbial Ecol., 36(3), 231238
Pacheco-Oliver, M, McDonald, IR, Groleau, D, Murrell, JC and Miguez, CB (2002) Detection of methanotrophs with highly divergent pmoA genes from Arctic soils. FEMS Microbiol. Lett., 209, 313319 (doi: 10.1111/j.1574-6968.2002.tb11150.x)
Rösch, C, Mergel, A and Bothe, H (2002) Biodiversity of denitrifying and dinitrogen-fixing bacteria in an acid forest soil. Appl. Environ. Microbiol., 68(8), 38183829 (doi: 10.1128/AEM.68.8.3818-3829.2002)
Sala, MM and 5 others (2005) Functional diversity of bacterioplankton assemblages in western Antarctic seawaters during late spring. Mar. Ecol.-Prog. Ser., 292, 1321 (doi: 10.3354/meps292013)
Schaumberger, S, Ladinig, A, Reisinger, N, Ritzmann, M and Schatzmayr, G (2014) Evaluation of the endotoxin binding efficiency of clay minerals using the Limulus Amebocyte lysate test: an in vitro study. AMB Express, 4(1), 19 (doi: 10.1186/2191-0855-4-1)
Segawa, T, Miyamoto, K, Ushida, K, Agata, K, Okada, N and Kohshima, S (2005) Seasonal change in bacterial flora and biomass in mountain snow from the Tateyama Mountains, Japan, analyzed by 16S rRNA gene sequencing and real-time PCR. Appl. Environ. Microbiol., 71(1), 123130 (doi: 10.1128/AEM.71.1.123-130.2005)
Sharp, M and 5 others (1999) Widespread bacterial populations at glacier beds and their relationship to rock weathering and carbon cycling. Geology, 27(2), 107110 (doi: 10.1130/0091-7613(1999)027<0107:WBPAGB>2.3.CO;2)
Siegert, MJ and 30 others (2007) Exploration of Ellsworth Subglacial Lake: a concept paper on the development, organisation and execution of an experiment to explore, measure and sample the environment of a West Antarctic subglacial lake: The Lake Ellsworth Consortium. Rev. Envir. Sci. Bio/Technol., 6(1–3), 161179 (doi: 10.1007/s11157-006-9109-9)
Simon, C, Wiezer, A, Strittmatter, AW and Daniel, R (2009) Phylogenetic diversity and metabolic potential revealed in ice metagenome. Appl. Environ. Microbiol., 75(23), 75197526 (doi: 10.1128/AEM.00946-09)
Sjöling, S and Cowan, DA (2003) High 16S rDNA bacterial diversity in glacial meltwater lake sediment, Bratina Island, Antarctica. Extremophiles, 7(4), 275282 (doi: 10.1007/s00792-003-0321-z)
Skidmore, M, Anderson, SP, Sharp, M, Foght, J and Lanoil, BD (2005) Comparison of microbial community compositions of two subglacial environments reveals a possible role for microbes in chemical weathering processes. Appl. Environ. Microbiol., 71(11), 69866997 (doi: 10.1128/AEM.71.11.6986-6997.2005)
Skidmore, ML, Foght, JM and Sharp, MJ (2000) Microbial life beneath a High Arctic glacier. Appl. Environ. Microbiol., 66(8), 32143220 (doi: 10.1128/AEM.66.8.3214-3220.2000)
Stibal, M and 11 others (2012) Methanogenic potential of Arctic and Antarctic subglacial environments with contrasting organic carbon sources. Global Change Biol., 18(11), 33323345 (doi: 10.1111/j.1365-2486.2012.02763.x)
Stibal, M and 10 others (2015) Microbial abundance in surface ice on the Greenland Ice Sheet. Front. Microbiol., 6, 225 (doi: 10.3389/fmicb.2015.00225)
Tabachnick, BG and Fidell, LS (2007) Using multivariate statistics, 5th edn. Pearson International, UK
Wadham, JL, Bottrell, S, Tranter, M and Raiswell, R (2004) Stable isotope evidence for microbial sulphate reduction at the bed of a polythermal high Arctic glacier. Earth Planet. Sci. Lett., 219(3–4), 341355 (doi: 10.1016/S0012–821X(03)00683-6)
Wadham, JL and 6 others (2013) The potential role of the Antarctic Ice Sheet in global biogeochemical cycles. Earth Env. Sci. T. R. Soc., 104, 113 (doi: 10.1017/S1755691013000108)
Wartiainen, I, Hestnes, AG and Svenning, MM (2003) Methanotrophic diversity in high arctic wetlands on the islands of Svalbard (Norway) - denaturing gradient gel electrophoresis analysis of soil DNA and enrichment cultures. Can. J. Microbiol., 49(10), 602612 (doi: 10.1139/w03-080)
Yu, Y, Lee, C and Hwang, S (2005) Analysis of community structures in anaerobic processes using a quantitative real-time PCR method. Water Sci. Technol., 52(1–2), 8591
Zarsky, JD and 7 others (2013) Large cryoconite aggregates on a Svalbard glacier support a diverse microbial community including ammonia-oxidizing archaea. Environ. Res. Lett., 8, 035044 (doi: 10.1088/1748-9326/8/3/035044)
Zhang, XF, Yao, TD, Tian, LD, Xu, SJ and An, LZ (2008) Phylogenetic and physiological diversity of bacteria isolated from Puruogangri ice core. Microbial Ecol., 55, 476488 (doi: 10.1007/s00248-007-9293-3)

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