Nabs bibliography 2004


Biochemistry, Physiology, Molecular and Genetic Methods



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Biochemistry, Physiology, Molecular and Genetic Methods
Bayne, B.L. 2004. Comparisons of measurements of clearance rates in bivalve molluscs. Mar. Ecol. Prog. Ser. 276: 305-306.

Buckley, B.A.; Szmant, A.M. 2004. RNA/DNA ratios as indicators of metabolic activity in four species of Caribbean reef-building corals. Mar. Ecol. Prog. Ser. 282: 143-149.

Butler, P.J.; Green, J.A.; Boyd, I.L.; Speakman, J.R. 2004. Measuring metabolic rate in the field: the pros and cons of the double labelled water and heart rate methods. Funct. Ecol. 18: 168-183.

Buttino, I.; do Espirito, S.M.; Ianora, A.; Miralto, A. 2004. Rapid assessment of copepod Calanus helgolandicus embryo viability using fluorescent probes. Mar. Biol. 145: 393-399.

Chamberlain, P.M.; Bull, I.D.; Black, H.I.; Ineson, P.; Evershed, R.P. 2004. Lipid content and carbon assimilation in Collembola: implications for the use of compound-specific carbon isotope analysis in animal dietary studies. Oecologia 139: 325-335.

Coast, G.M. 2004. Continuous recording of excretory water loss from Musca domestica using a flow-through humidity meter: hormonal control of diuresis. J. Insect Physiol. 50: 455-468.

Guinand, B.; Scribner, K.T.; Topchy, A.; Page, K.S.; Punch, W.; Burnham-Curtis, M.K. 2004. Sampling issues affecting accuracy of likelihood-based classification using genetical data. Environ. Biol. Fishes 69: 245-259.

Pires, L.M.D. R.R.; Jonker, R.R.; Van Donk, E.; Laanbroek, J. 2004. Selective grazing by adults and larvae of the zebra mussel Dreissena polymorpha: application of flow cytometry to natural seston. Fresh. Biol. 116-126.

Foglietta, L.M.; Camejo, M.I.; Gallardo, L.; Herrera, F.C. 2004. A maturity index for holothurians exhibiting asynchronous development of gonad tubules. J. Exper. Mar. Biol. Ecol. 303: 19- 30.

Jones, V.; Ruddell, C.J.; Wainwright, G.; Rees, H.H.; Jaffe, R.; Wolff, G.A. 2004. One-dimensional and two-dimensional polyacrylamide gel electrophoresis: a tool for protein characterization in aquatic samples. Mar. Chem. 85: 63-73.

Lindsay, S.W.; Bayoh, M.N. 2004. Mapping members of the Anopheles gambiae complex using climate data. Physiol. Entomol. 29: 204-209.

Riisgard, H.U. 2004. Intercalibration of methods for measurement of bivalve filtration rates: a turning point. Mar. Ecol. Prog. Ser. 276: 307-308.

Severson, D.W.; Knudsen, D.L.; Soares, M.B.; Loftus, B. 2004. Aedes Aegypti genomics. Insect Biochem. Molec. Biol. 34: 715-721.

Simcic, T.; Brancelj, A. 2004. respiratory electron transport system (ETS) activity as an estimator of the thermal tolerance of two Daphnia hybrids. J Plankton Res. 26: 525-534.

Sjursen, H.; Holmstrup, M. 2004. Direct measurment of ammonium excretion in soil microarthropods. Funct. Ecol. 18: 612-615.

Smelt, I.D.; Chaerle, P.; Vanneste, S.; Rycke, R.D.; Inze, D.; Beeckman, T. 2004. An easy and versatile embedding method for transverse sections. J. Microsc. 213: 76-80.

Velasquez, L.; Hammerschmidt, R. 2004. Development of a method for the detection and quantification of total chitinase activity by digital analysis. J. Micbiol. Methods 59: 7-14.

Travanty, E.A.; Adelman, Z.N.; Franz, A.W.E.; Keene, K.M.; Beaty, B.J. et al. 2004. Using RNA interference to develop dengue fever resistance in genetically modified Aedes aegypti, Hydrobiol 529: 189-195.

Turlings, T.C.J.; Davison, C.; Tam, C. 2004. A six-alarm olfactometer permitting simultaneous observation of insect attraction and odour trapping. Physiol. Entomol. 29: 45-55.

Wetzel, D.L.; Reynolds III, J.E. 2004. Definitive identification of fatty acid constituents in marine mammal tissues. Can. J. Fish. Aquat. Sci. 61: 554-560.


Hydrological and Sedimentological Methods
Alexander, P.S.; Holman, R.A. 2004. Quantification of nearshore morphology based on video imaging. Mar. Geol. 208: 101-111.

Antcil, F.; Claude, M.; Perrin, C.; Andreassian, V. 2004. A soil moisture index as an auxiliary ANN input for stream flow forcasting. J. Hydrol. 286: 155-167.

Aydemir, S.; Keskin, S.; Drees, L.R. 2004. Quantification of soil features using digital image processing (DIP) techniques. Geoderma 119: 1-8.

Balabane, M.; Plante, A.F. 2004. Aggregation and carbon storage in silty soil using physical fractionation techniques. Eur. J. Soil Sci. 55: 415-427.

Boyle, J. 2004. A comparison of two methods for estimating the organic matter content of sediments. J. Paleolimnol. 31: 125-127.

Chou, T.Y.; Lin, W.T.; Lin, C.Y.; Chou, W.C.; Huang, P.H. 2004. Application of the PROMETHEE technique to determine depression outlet location and flow direction in DEM. J. Hydrol. 287: 49-61.

Croke, B.F.W.; Merritt, W.S.; Jakeman, A.J. 2004. A dynamic model for predicting hydrological response to land cover changes in gauged and ungauged catchments. J. Hydrol. 291: 115-131.

Dai, J.J.; Lorenzato, S.; Rocke, D.M. 2004. A knowledge-based model of watershed assessment for sediment. Environ. Model. Soft. 19: 423-433.

Darnet, M.; Guy, M. 2004. Modelling streaming potential (SP) signals induced by water movement in the vadose zone. J. Hydrol. 285: 114-124.

Dur, J.C.; Elsass, F.; Chaplain, V.; Tessier, D. 2004. The relationship between particle size distribution by laser granulometry and image analysis by transmission electron microscopy in a soil clay fraction. Eur. J. Soil Sci. 55: 265-270.

Ellerbrock, R.H.; Gerke, H.H. 2004. Characterizing organic matter of soil aggregate coatings and biopores by Fourier transform infrared spectroscopy. Eur. J. Soil Sci. 55: 219-228.

Finke, P.A.; Brus, D.J.; Bierkens, M.F.P.; Hoogland, T.; Knotters, M.; de Vries, F. 2004. Mapping groundwater dynamics using multiple sources of exhaustive high resolution data. Geoderma 123: 23-39.

Fisher, T.G. 2004. Vibracoring from lake ice with a lightweight monopod and piston coring apparatus. J. Paleolimnol. 31: 377-382.

Forstner, U.; Thomas, R.L. 2004. Sediment dynamics and pollutant mobility in rivers: An interdisciplinary approach. Lakes & Reser. Res. Managem. 9: 25-40.

Gilvear, S.; Tyler, A.; Davids, C. 2004. Detection of estuarine and tidal river hydromorphology using hyper-spectral and LIDAR data: Forth estuary, Scotland. Coast. Shelf Sci. 60: 379- 392.

Golding, C.J.; Smernik, R.J.; Birch, G.F. 2004. Characterisation of sedimentary organic matter from three south-eastern Australian estuaries using solid-state 13C-NMR techniques. Mar. Fresh Res. 55: 285-293.

Groenevelt, P.H.; Grant, C.D. 2004. A new model for the soil-water retention curve that solves the problem of residual water contents. Eur. J. Soil Sci. 55: 479-485.

Hagedorn, F.; Saurer, M.; Blaser, P. 2004. A 13C tracer study to identify the origin of dissolved organic carbon in forested mineral soils. Eur. J. Soil Sci. 55: 91-100.

Hakanson, L. 2004. Internal loading: A new solution to an old problem in aquatic science. Lakes & Reserv. Res. Managem. 9: 3-13.

Hakanson, L.; Blenckner, T.; Malmaeus, J.M. 2004. New, general methods to define the depth separating surface water from deep water, outflow and internal loading for mass-balance models for lakes. Ecol. Model. 175: 339-352.

Hakanson, L.; Gyllenhammar, A.; Brolin, A. 2004. A dynamic compartment model to predict sedimentation and suspended particulate matter in coastal areas. Ecol. Model. 175: 353-384.

Hawley, N. 2004. A comparison of suspended sediment concentrations measured by acoustic and optical sensors. J. Great Lakes Res. 30: 301-309.

Hewitt, J.E.; Thrush, S.F.; Legendre, P.; Funnell, G.A.; Ellis, J.; Morrison, M. 2004. Mapping of marine soft-sediment communities: integrated sampling for ecological interpretation. Ecol. Appl. 14: 1203-1216.

Hjerdt, K.N.; McDonnell, J.J.; Seibert, J.; Rodhe, A. 2004. A new topographic index to quantify downslope controls on local drainage. Water Res. Res. 40: W5062.

Iorgulescu, I.; Beven, K.J. 2004. Nonparametric direct mapping of rainfall-runoff relationships: An alternative approach to data analysis and modeling. Water Res. Res. 40: W08403

Jung, R.F.; Batley, G.E. 2004. Freezing of sediments inappropriate for pore water selenium analysis. Mar. Pollut. Bull. 49: 313-318.

Karpen, V.; Thomsen, L.; Suess, E. 2004. A new “schlieren” technique application for fluid flow visualization at cold seep sites. Mar. Geol. 204: 145-159.

Keyantash, J.A.; Dracup, J.A. 2004. An aggregate drought index: Assessing drought severity based on fluctuations in the hydrologic cycle and surface water storage. Water Res. Res. 40: W09304.

Konukcu, F.; Istanbulluoglu, A.; Kocaman, I. 2004. Determination of water content in drying soils: incorporating transition from liquid phase to vapour phase. Austral. J. Soil Res. 42: 1-8.

Koster, D.; Racca, J.M.; Pienitz, R. 2004. Diatom-based inference models and reconstruction revisited: methods and transformations. J. Paleolimnol. 32: 233-246.

Legleiter, C.J.; Roberts, D.A.; Marcus, W.A.; Fonstad, M.A. 2004. Passive optical remote sensing of river channel morphology and in-stream habitat: physical basis and feasibility. Remote Sens Environ. 93: 493-510.

Lehner, B.; Doll, P. 2004. Development and validation of a global database of lakes, reservoirs and wetlands. J. Hydrol. 296: 1-22.

Li, X.y.; Zhang, J.J.; Lee, J.H.W. 2004. Modelling particle size distribution dynamics in marine waters. Wat. Res. 38: 1305-1317.

Lowemark, L.; Schonfeld, J.; Werner, F.; Schafer, P. 2004. Trace fossils as a paleoceanographic tool: evidence from late Quaternary sediments of the southwestern Iberian margin. Mar. Geol. 203: 185-197.

McAllister, S.L.; Bauer, J.E.; Cherrier, J.E.; Ducklow, H.W. 2004. Assessing sources and ages of organic matter supporting river and estuarine bacterial production: A multiple isotope (14C, 13C and 15N) approach. Limnol. Oceanog. 1687-1702.

McDonnell, J.J.; Woods, R. 2004. On the need for catchment classification. J. Hydrol. 299: 2-3.

McWhinnie, M.J.; Chapman, S.J.; Edwards, A.C.; Cook, Y.E.M. 2004. A rapid method for the estimation of rock surface areas. Hydrobiol. 517: 133-136.

Michelson, D.B. 2004. Systematic correction of precipitation gauge observations using analyzed meteorological variables. J. Hydrol. 290: 161-177.

Moradkhani, H.; Hsu, K.L.; Gupta, H.V.; Sorooshian, S. 2004. Improved streamflow forecasting using self-organizing radial basis function artificial neural networks. J. Hydrol. 295: 246- 262.

Neaman, A.; Waller, B.; Mouele, F.; Trolard, F.; Bourrie, G. 2004. Improved methods for selective dissolution of manganese oxides from soils and rocks. Eur. J. of Soil Science. 55: 47-54.

Novoselova, L.P. 2004. Analysis of methods of hydrogeological mapping. Water Res. 31: 610-616.

Parr, J.F.; Taffs, K.H.; lane, C.M. 2004. A microwave technique for the extraction of fossil diatoms from coastal lake and swamp sediments. J. Paleolimnol. 31: 377-382.

Perkins, R.G.; Sun, H.; Watson, J.; Player, M.A.; Gust, G.; Paterson, D.M. 2004. In-line laser holagraphy and video analysis of eroded floc from engineered and estuarine sediments. Environ. Sci. Technol. 38: 4640-4648.

Pierce, C.G.; Morris, S. 2004. Comparison of extraction techniques for measuring exchangeable cations in calcareous soils. Austral. J. Soil Res. 42: 301-311.

Pires, L. F.; Bacchi, O. O.S.; Reichardt, K. 2004. Damage to soil physical properties caused by soil sampler devices as assessed by gamma ray computed tomography. Austral. J. Soil Res. 42: 857-863.

Rahimi, A.R.; Upton, G.J.G.; Holt, A.R. 2004. Dual-frequency links - a compliment to gauges and radar for the measurement of rain. J. Hydrol. 288: 3-12.

Sparrman, T.; Oquist, M.; Klemedtsson, L.; Schleucher, J.; Nilsson, M. 2004. Quantifying unfrozen water in frozen soil by high-field 2H NMR. Environ. Sci. Technol. 38: 5420-5425.

Thomas, S.; Ridd, P.V. 2004. Review of methods to measure short time scale sediment accumulation. Mar. Geol. 207: 95-114.

Van der Schaaf, S. 2004. A single well pumping and recovery test to measure in situ acrotein transmissivity in raised bogs. J. Hydrol. 290: 152-160.

Viscarra Rossel, R.A.; Walter, C. 2004. Rapid, quantitative and spatial field measurements of soil pH using an ion sensitive field effect transistor. Geoderma 119: 9-20.

Walker, J.P.; Willgoose, G.R.; Kalma, J.D. 2004. In situ measurement of soil moisture: a comparison of techniques. J. Hydrol. 293: 85-99.

Warren, S.D.; Hohmann, M.G.; Auerswald, K.; Mitasova, H. 2004. An evaluation of methods to determine slope using digital elevation data. Catena 58: 215-233.

Weiler, M.; McDonnell, J. 2004. Virtual experiments: a new approach for improving process conceptualization in hillslope hydrology. J. Hydrol. 285: 3-18.

Wildish, D.J.; Hughes-Clarke, J.E.; Pohle, G.W.; hargrave, B.T.; Mayer, L.M. 2004. Acoustic detection of organic enrichment in sediments at a salmon farm is confirmed by independent groundtruthing methods. Mar. Ecol. Prog. Ser. 267: 99-105.


Methods in Aquatic and Environmental Microbiology
Anderson, I.C.; Cairney, J.W.G. 2004. Diversity and ecology of soil fungal communities: increased understanding through the application of molecular techniques. Environ. Microbiol. 6: 769- 779.

Barkovskii, A.L.; Fukui, H. 2004. A simple method for differential isolation of freely dispersed and particle-associated peat microorganisms. J. Microbiol. Methods 56: 93-105.

Barnes, D.; Gordon, D.M. 2004. Coliform dynamics and the implications for source tracking. Environ. Microbiol. 6: 501-509.

Baserisalehi, M.; Bahador, N.; Augustine, S.K.; Al-Mahdi, A.Y.; Kapadnis, B.P. 2004. Enhanced recovery and isolation of Campylobactor spp. from water using a novel device. J. Appl. Microbiol. 96: 684-692.

Beyenal. H.; Donovan, C.; Lewandowski, Z.; Harkin, G. 2004. Three-dimensional biofilm structure quantification. J. Microbiol. Methods 59: 395-413.

Boenigk, J. 2004. A disintegration method for direct counting of bacteria in clay-dominated sediments: dissolving silicates and subsequent fluorescent staining of bacteria. J. Microbiol. Methods 56: 151-159.

Caruso, G.; Denaro, R.; Genovese, M.; Giuliano, L.; Mancuso, M.; Yakimov, M. 2004. New methodological strategies for detecting bacterial indicators. Chem. and Ecol. 20: 167-181.

Chandler, D.P.; Jarrell, A.E. 2004. Automated purification and suspension array detection of 16S rRNA from soil and sediment extracts by using tunable surface microparticles. Appl. Environ. Microbiol. 70: 2621-2631.

Chesnot, T.; Schwartzbrod, J. 2004. Quantitative and qualitative comparison of density-based purification methods for detection of Cryptosporidium oocysts in turbid environmental samples. J. Microbiol. Methods 58: 375-386.

Coeyne, T.; Vandamme, P. 2004. Use of the genomic signature in bacterial classification and identification. Syst. Appl. Microbiol. 27: 175-185.

Contreras, E.M.; Gianuzzi, L.; Zaritzky, N.E. 2004. Use of image analysis in the study of competition between filamentous and non-filamentous bacteria. Wat. Res. 38: 2621-2630.

Craig, D.L.; Fallowfield, H.J.; Cromar, N.J. 2004. Use of microcosms to determine persistence of Escherichia coli in recreational coastal water and sediment and validation with in situ measurements. J. Appl. Microbiol. 96: 922-902.

de Lipthay, J.R.; Enzinger, C.; Johnsen, K.; Aamand, J.; Sorensen, S.J. 2004. Impact of DNA extraction method on bacterial community composition measured by denaturing gradient gel electrophoresis. Soil Biol. Biochem. 36: 1607-1614.

Deisingh, A.K.; Thompson, M. 2004. Biosensors for the detection of bacteria. Can. J. Microbiol. 50: 69-77.

Dignum, M.; Hoogveld, H.L.; Matthijs, H.C.P.; Laanbroek, H.J.; Pel, R. 2004. Detecting the phosphate status of phytoplankton by enzyme-labelled fluorescence and flow cytometry. FEMS Microbiol. Ecol. 48: 29-38.

Drenovsky, R.E.; Elliott, G.N.; Graham, K.J.; Scow, K.M. 2004. Comparison of phospholipid fatty acid (PLFA) and total soil fatty acid methyl esters (TSFAME) for characterizing soil microbial communities. Soil Biol. Biochem. 36: 1793-1800.

Dunsmore, B.C.; Bass, C.J.; Lappin-Scott, H.M. 2004. A novel approach to investigate biofilm accumulation and bacterial transport in porous matrices. Environ. Microbiol. 6: 183-187.

Dupont, J.; Dumont, F.; Menanteua, C.; Pommepuy, M. 2004. Calibration of the impedance method for rapid quantitative estimation of Escherichia coli in live marine bivalve molluscs. J. Appl. Microbiol. 96: 894-902.

Ellis, R.J. 2004. Artificial soil microcosms: a tool for studying microbial autecology under controlled conditions. J. Microbiol. Methods 56: 287-290.

Ferguson, C.; Kaucner, C.; Krogh, M.; Deere, D.; Warnescke, M. 2004. Comparison of methods for the concentration of Cryptosporidium oocysts and Giardia cysts from raw waters. Can. J. Microbiol. 50: 675-682.

Fiett, J.; Kcuharczyk, K.; Gniadkowski, M. 2004. A new method of DNA preparation for pulsed- field gel electrophoresis analysis. J. Microbiol. Methods 59: 433-436.

Fortin, N.; Beaumier, D.; Lee, K.; Greer, C.W. 2004. Soil washing improves the recovery of total community DNA from polluted and high organic content sediments. J. Microbiol. Methods 56: 181-191.

Gavin, R.; Baldwin, D.S.; Watson, G.O.; Perryman, S.; Nielson, D.L. 2004. Ordination and significance testing of microbial community composition derived from terminal restriction fragment length polymorphisms: applications of multivariate statistics. Antonie van Leeuwenhoek 86: 339-347.

Glavine, D.P.; Cleaves, H.J.; Schubert, M.; Aubrey, A.; Bada, J.L. 2004. New method for estimating bacterial cell abundances in natural samples by use of sublimation. Appl. Environ. Microbiol. 70: 5923-5928.

Gomez, E.; Garland, J.; Conti, M. 2004. Reproducibility in the response of soil bacterial community- level physiological profiles from a land use intensification gradient. Appl. Soil Ecol. 26: 21- 30.

Guwy, A. 2004. Equipment used for testing anaerobic biodegradability and activity. Rev. Environ. Sci. Biotechnol. 3: 131-139.

Harder, T.; Lau, S.C.K.; Tam, W.Y.; Qian, P.Y. 2004. A bacterial culture-independent method to investigate mediated control of bacterial epibiosis in marine invertebrates by using TRLFP analysis and natural bacterial population. FEMS Microbiol. Ecol. 47: 93-99.

Henk, M.C. 2004. Method for collecting air-water interface microbes suitable for subsequent microscopy and molecular analysis in both research and teaching laboratories. Appl. Environ. Microbiol. 70: 2486-2493.

Huber, F.; Peduzzi, P. 2004. Online tool for analysis of denaturing gradient gel electrophoresis profiles. Appl. Environ. Microbiol. 70: 4390-4392.

Ishii, K.; Mumann, M.; MacGregor, B.J.; Amann, R. 2004. An improved fluorescence in situ protocol for the identification of bacteria and Archea in marine sediments. FEMS Microbiol. Ecol. 50: 203-212.

Janse, I.; Jasper, B.; Zwart, G. 2004. A simple remedy against artifactual double bands in denaturing gel electrophoresis. J. Microbiol. Methods 56: 279-281.

Jenkins, D.S.; Brookes, P.C.; Powlson, D.S. 2004. Measuring soil microbial biomass. Soil Biol. Biochem. 36: 5-7.

Kamper, M.; Vetterkind, S.; Berker, R.; Hoppert, M. 2004. Methods for in situ detection and characterization of extracellular polymers in biofilms by electron microscopy. J. Microbiol. Methods 56: 55-64.

Kemp, P.F.; Aller, J.Y. 2004. Bacterial diversity in aquatic and other environments: what 16S rDNA libraries can tell us. FEMS Microbiol. Ecol. 47: 161-177.

Kirk, J.L.; Beaudette, L.A.; Hart, M.; Moutoglis, P.; Klironomos, J.N.; et al. 2004. Methods for studying soil microbial diversity. J. Microbiol. Methods 58: 169-188.

Knapp, C.W.; Graham, D.W. 2004. Development of alternate ssu-rRNA probing strategies for characterizing aquatic microbial communities. J. Microbiol. Methods 56: 323-330.

Kondo, R.; Nedwell, D.; Purdy, K.; Silva, S. 2004. Detection and enumeration of sulphate-reducing bacteria in estuarine sediments by competitive PCR. Geomicrobiol. J. 21: 145-157.

Kropf, S.; Heuer, H.; Gruning, M.; Smalla, K. 2004. Significance test for comparing complex community fingerprints using pairwise similarity measures. J. Microbiol. Methods 56: 187- 195.

Labrenz, M.; Brettar, I.; Christen, R.; Flavier, S.; Botel, J.; Hofle, M.G. 2004. Development and application of a real-time PCR approach for quantification of uncultured bacteria in the Central Baltic Sea. Appl. Environ. Microbiol. 70: 4871-4979.

Laflamme, C.; Lavigne, S.; Ho, J.; Duchaine, C. 2004. Assessment of bacterial endospore viability with fluorescent dyes. J. Appl. Microbiol. 96: 684-692.

Letowski, J.; Brousseau, R.; Masson, L. 2004. Designing better probes: effect of probe size, mismatch position and number on hybridization in DNA oligonucleotide microarrays. J. Microbiol. Methods 56: 269-278.

Leuko, S.; Legat, A.; Fendrihan, S.; Stan-Lotter, H. 2004. Evaluation of the LIVE/DEAD light kit for detection of extremophilic Archaea and visualization of microorganisms on environmental hypersaline samples. Appl. Environ. Microbiol. 70: 6884-6886.

Maruyama, F.; Yamaguchi, N.; Kenzaka, T.; Tani, K.; Nasu, M. 2004. Simplified sample preparation using frame spotting method for direct counting of total bacteria by fluorescence microscopy. J. Microbiol. Methods 59: 427-431.

Mille-Lindblom, C.; von Wachenfeldt, E.; Tranvik, L.J. 2004. Ergosterol as a measure of living fungal biomass: persistence in environmental samples after fungal death. J. Microbiol. Methods 59: 253-262.

Muller, W.-R.; Frommert, I.; Jorg, R. 2004. Standardized methods for anaerobic biodegradability testing. Rev. Environ. Sci. Biotechnol. 3: 141-158.

Nandakumar, K.; Obika, H.; Utsumi, A.; Ooie, T.; Tetsuo, Y. 2004. In vitro laser ablation of natural marine biofilms. Appl. Environ. Microbiol. 70: 6905-6908.

Nercessian, O.; Prokofeva, M.; Lebedinski, A.; L’Haridon, S.; Cary, C.; Prieur, D.; Jeanthon, C. 2004. Design of 16S rRNA-targeted oligonucleotide probes for detecting cultured and uncultured archaeal lineages in high-temperature environments. Environ. Microbiol. 6: 170- 192.

Neher, R.; Neher, E. 2004. Optimizing imaging parameters for the separation of multiple labels in fluorescence image. J. Microsc. 213: 46-62.

Neill, M. 2004. Microbiological indices for total coliform and <E. coli> bacteria in estuarine waters. Mar. Pollut. Bull. 49: 752-760.

Neufeld, J.D.; Yu, Z.; Lam, W.; Mohn, W.W. 2004. Serial analysis of ribosomal sequence tags (SARST): a high-throughput method for profiling complex microbial communities. Environ. Microbiol. 6: 131-144.

Nielson, M.; Larsen, L.H.; Jetten, M.S.M.; Revsbech, N.P. 2004. Bacterium-based NO2 biosensor for environmental applications. Appl. Environ. Microbiol. 70: 6551-6558.

Nivens, D.E.; McKnight, T.E.; Moser, S.A.; Osbourn, S.J.; Simpson, M.L.; Sayler, G.S. 2004. Bioluminescent bioreporter integrated circuits: potentially small, rugged and inexpensive whole-cell biosensors for remote environmental modeling. J. Appl. Microbiol. 96: 375-383.

Noble, R.T.; Leecaster, M.K.; McGee, C.D.; Weisberg, S.B.; Ritter, K. 2004. Comparison of bacterial indicator analysis methods in stormwater-affected coastal waters. Wat. Res. 38: 1183-1188.

Orwin, K.H.; Wardle, D.A. 2004. New indices for quantifying the resistance and resilience of soil biota to exogenous disturbances. Soil Biol. Biochem. 36: 1907-1912.

Palumbo, A.V.; Schryver, J.C.; Fields, M.W.; Bagwell, C.E.; Zhou, J.-Z.; Yan, T.; Liu, X.; Brandt, C.C. 2004. Coupling of functional gene diversity and geochemical data from environmental samples. Appl. Environ. Microbiol. 70: 6525-6534.

Pel, R.; Floris, V.; Gons, H.J.; Hoogveld, H.L. 2004. Linking flow cytometric cell sorting and compound-specific 13C-analysis to determine population-specific isotopic signatures and growth rates in cyanobacteria-dominated lake plankton. J. Phycol. 40: 857-866.

Peplies, J.; Lau, S.C.K.; Pernthaler, J.; Amann, R.; Glockner, F.O. 2004. Application and validation of DNA microarrays for the 16S rRNA-based analysis of marine bacterioplankton. Environ. Microbiol. 6: 638-645.

Petranivic, D.; Mijakovic, I. 2004. Photometric assay for measuring the intracellular concentration of branched-chain amino acids in bacteria. J. Microbiol. Methods 56: 133-136.

Petrisor, A.I.; Decho, A.W. 2004. Using geographical information techniques to quantify the spatial structure of endolithic boring processes within sediment grains of marine stromatolites. J. Microbiol. Methods 56: 173-180.

Petrisor, A.; Kawaguchi, T.; Decho, A. 2004. Quantifying CaCO3 microprecipitates within developing surface mats of marine stromatolites using GIS and digital image analysis. Environ. Microbiol. 6: 491-496.

Prieto, B.; Silva, B.; Lantes, O. 2004. Biofilm quantification on stone surfaces: comparison of various methods. Sci. Total Environ. 333: 1-7.

Prigione, V.; Marchisio, F.M. 2004. Methods to maximize the staining of fungal propagules with fluorescent dyes. J. Microbiol. Methods 59: 371-379.

Queric, N.-V.; Soltwedel, T.; Arntz, W.E. 2004. Application of a rapid direct viable method to count deep-sea bacteria. J. Microbiol. Methods 56: 351-367.

Rabut, G.; Ellenberg, J. 2004. Automatic real-time three-dimensional cell tracking by fluorescence microscopy. J. Microsc. 216: 131-137.

Riemann, L.; Sondergaard, M. 2004. Profiles of bacterial community composition and metabolic potential through a plug-flow bioreactor fed with lake water. J Plankton Res. 26: 973-978.

Rogers, N.J.; Apte, S.C. 2004. Azo dye method for mapping relative sediment enzyme activity in situ at precise spatial locations. Environ. Sci. Technol. 38: 5134-5140.

Rogers, S.P.; Theraisnathan, V.; Ma, L.J.; Zhao, Y.; Zhang, G.; Shin, S.-G.; Castelloo, J.D.; Starmer, W.T. 2004. Comparisons of protocols for decontamination of environmental ice samples for biological and molecular examinations. Appl. Environ. Microbiol. 70: 2540-2544.

Roslev, P.; Larsen, M.B.; Jorgensen, D.; Hesselsoe, M. 2004. Use of heterotrophic CO2 assimilation as a measure of metabolic activity in planktonic and sessile bacteria. J. Microbiol. Methods 59: 381-393.

Rozzi, A.; Remigi, E. 2004. Methods of assessing microbial activity and inhibition under anaerobic conditions: a literature review. Rev. Environ. Sci. Biotechnol. 3: 93-115.

Sekar, R.; Fuchs, B.M.; Amann, R.; Pernthaler, J. 2004. Flow sorting of marine bacterioplankton after fluorescence in situ hydridization. Appl. Environ. Microbiol. 70: 6210-6219.

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