Soil water availability strongly alters the community composition of soil protists

Adl, 2012, The revised classification of eukaryotes, J. Eukaryot. Microbiol., 59, 429, 10.1111/j.1550-7408.2012.00644.x Alabouvette, 1981, Les protozoaires du sol: aspects écologiques et méthodologiques, Ann. Biologique, 3, 255 Alphei, 1996, Protozoa, Nematoda and Lumbricidae in the rhizosphere of Hordelymus europeaus (Poaceae): faunal interactions, response of microorganisms and effects on plant growth, Oecologia, 106, 111, 10.1007/BF00334413 Anderson, 2005, Gene discovery in the Acanthamoeba castellanii genome, Protist, 156, 203, 10.1016/j.protis.2005.04.001 Anderson, 2000, Abundance of terrestrial gymnamoebae at a northeastern U.S. site: a four-year study, including the El Nino winter of 1997–1998, J. Eukaryot. Microbiol., 47, 148, 10.1111/j.1550-7408.2000.tb00024.x Anderson, 2008, The role of amoeboid protists and the microbial community in moss-rich terrestrial ecosystems: biogeochemical implications for the carbon budget and carbon cycle, especially at higher latitudes, J. Eukaryot. Microbiol., 55, 145, 10.1111/j.1550-7408.2008.00319.x Atlan, 2012, Micriamoeba tesseris nov. gen. nov. sp.: a new taxon of free-living small-sized amoebae non-permissive to virulent Legionellae, Protist, 163, 888, 10.1016/j.protis.2012.04.006 Baldwin, 2013, Impacts of inundation and drought on eukaryote biodiversity in semi-arid floodplain soils, Mol. Ecol., 22, 1746, 10.1111/mec.12190 Bamforth, 1971, The numbers and proportions of Testacea and ciliates in litters and soils, J. Protozool., 18, 24, 10.1111/j.1550-7408.1971.tb03274.x Bamforth, 2007, Protozoa from aboveground and ground soils of a tropical rain forest in Puerto Rico, Pedobiologia, 50, 515, 10.1016/j.pedobi.2006.10.009 Bass, 2001, Seasonal variability in abundance and diversity of soil gymnamoebae along a short transect in southeastern USA, J. Eukaryot. Microbiol., 48, 475, 10.1111/j.1550-7408.2001.tb00182.x Bates, 2013, Global biogeography of highly diverse protistan communities in soil, ISME J., 7, 652, 10.1038/ismej.2012.147 Bischoff, 2002, An analysis of the abundance, diversity and patchiness of terrestrial gymnamoebae in relation to soil depth and precipitation events following a drought in southeastern U.S.A., Acta Protozool., 41, 183 Boenigk, 2002, Bacterivory by heterotrophic flagellates: community structure and feeding strategies, Anton. Leeuw Int. J. G., 81, 465, 10.1023/A:1020509305868 Böhme, 2009, Protists with different feeding modes change biofilm morphology, FEMS Microbiol. Ecol., 69, 158, 10.1111/j.1574-6941.2009.00710.x Bonkowski, 2004, Protozoa and plant growth: the microbial loop in soil revisited, New Phytol., 162, 617, 10.1111/j.1469-8137.2004.01066.x Bonkowski, 2012, Stimulation of plant growth through interactions of bacteria and protozoa: testing the auxiliary microbial loop hypothesis, Acta Protozool., 51, 237 Bonkowski, 2000, Substrate heterogeneity and microfauna in soil organic ‘hotspots’ as determinants of nitrogen capture and growth of ryegrass, Appl. Soil Ecol., 14, 37, 10.1016/S0929-1393(99)00047-5 Borken, 2009, Reappraisal of drying and wetting effects on C and N mineralization and fluxes in soils, Global Change Biol., 15, 808, 10.1111/j.1365-2486.2008.01681.x Bouwman, 1994, The ecology of bacterivorous protozoans and nematodes in arable soil, Agr. Ecosyst. Environ., 51, 145, 10.1016/0167-8809(94)90040-X Bradford, 2013, Thermal adaptation of decomposer communities in warming soils, Front. Microbiol., 4, 10.3389/fmicb.2013.00333 Brown, 2004, Diversity of gymnamoebae in grassland soil in southern Scotland, Protistology, 3, 191 Butler, 1995, Temporal and spatial abundance of naked amoebae (Gymnamoebae) in marine benthic sediments of the Clyde Sea Area, Scotland, J. Eukaryot. Microbiol., 42, 724, 10.1111/j.1550-7408.1995.tb01624.x Carson, 2010, Low pore connectivity increases bacterial diversity in soil, Appl. Environ. Microbiol., 76, 3936, 10.1128/AEM.03085-09 Cavalier-Smith, 1998, A revised six-kingdom system of life, Biol. Rev., 73, 203, 10.1017/S0006323198005167 Christensen, 2007, Decomposer biomass in the rhizosphere to assess rhizodeposition, Oikos, 116, 65, 10.1111/j.2006.0030-1299.15178.x Clarholm, 1981, Protozoan grazing of bacteria in soil—impact and importance, Microb. Ecol., 7, 343, 10.1007/BF02341429 Clarholm, 1985, Interactions of bacteria, protozoa and plants leading to mineralization of soil nitrogen, Soil Biol. Biochem., 17, 181, 10.1016/0038-0717(85)90113-0 Clarke, 2013, Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling, Genome Biol., 14, R11, 10.1186/gb-2013-14-2-r11 Crotty, 2012, Protozoan pulses unveil their pivotal position within the soil food web, Microb. Ecol., 1 Crotty, 2012, Using stable isotopes to differentiate trophic feeding channels within soil food webs, J. Eukaryot. Microbiol., 59, 520, 10.1111/j.1550-7408.2011.00608.x Darbyshire, 1994 Darbyshire, 1976, Effect of water suctions on the growth in soil of the ciliate Colpoda steini, and the bacterium Azotobacter chroococcum, J. Soil Sci., 27, 369, 10.1111/j.1365-2389.1976.tb02008.x Darbyshire, 2005, The use of soil biofilms for observing protozoan movement and feeding, FEMS Microbiol. Lett., 244, 329, 10.1016/j.femsle.2005.02.001 Darbyshire, 1989, Ciliate distribution amongst soil aggregates, Rev. Ecol. Biol. Sol., 26, 47 de Vries, 2012, Legacy effects of drought on plant growth and the soil food web, Oecologia, 170, 821, 10.1007/s00442-012-2331-y de Vries, 2012, Land use alters the resistance and resilience of soil food webs to drought, Nat. Clim. Change, 2, 276, 10.1038/nclimate1368 Domonell, 2013, Community structure of cultivable protists in different grassland and forest soils of Thuringia, Pedobiologia, 56, 1, 10.1016/j.pedobi.2012.07.001 Dyková, 2010, Two new species of the genus Stenamoeba Smirnov, Nassonova, Chao et Cavalier-Smith, 2007, Acta Protozool., 49, 245 Elliott, 1980, Habitable pore space and microbial trophic interactions, Oikos, 35, 327, 10.2307/3544648 Elliott, 1977, Soil protozoan dynamics in a shortgrass prairie, Soil Biol. Biochem., 9, 113, 10.1016/0038-0717(77)90046-3 Evans, 2012, Soil microbial community response to drying and rewetting stress: does historical precipitation regime matter?, Biogeochemistry, 109, 101, 10.1007/s10533-011-9638-3 Evans, 2014, Climate change alters ecological strategies of soil bacteria, Ecol. Lett., 17, 155, 10.1111/ele.12206 Fierer, 2003, Influence of drying–rewetting frequency on soil bacterial community structure, Microb. Ecol., 45, 63, 10.1007/s00248-002-1007-2 Fierer, 2003, A proposed mechanism for the pulse in carbon dioxide production commonly observed following the rapid rewetting of a dry soil, Soil Sci. Soc. Am. J., 67, 798, 10.2136/sssaj2003.0798 Finlay, 2002, Global dispersal of free-living microbial eukaryote species, Science, 296, 1061, 10.1126/science.1070710 Finlay, 2000, Estimating the growth potential of the soil protozoan community, Protist, 151, 69, 10.1078/1434-4610-00008 Foissner, 1987, Soil protozoa: fundamental problems, ecological significance, adaptations in ciliates and testaceans, bioindicators, and guide to the literature, Prog. Protistol., 2, 69 Foissner, 1998, An updated compilation of world soil ciliates (Protozoa, Ciliophora), with ecological notes, new records, and descriptions of new species, Eur. J. Protistol., 34, 195, 10.1016/S0932-4739(98)80028-X Foissner, 1999, Soil protozoa as bioindicators: pros and cons, methods, diversity, representative examples, Agr. Ecosyst. Environ., 74, 95, 10.1016/S0167-8809(99)00032-8 Fuchslueger, 2014, Experimental drought reduces the transfer of recently fixed plant carbon to soil microbes and alters the bacterial community composition in a mountain meadow, New Phytol., 201, 916, 10.1111/nph.12569 Geisen, 2014, Acanthamoeba everywhere: high diversity of Acanthamoeba in soils, Parasitol. Res., 1 Geisen, 2014, Two new species of the genus Stenamoeba (Discosea, Longamoebia): cytoplasmic MTOC is present in one more amoebae lineage, J. Eukaryot. Microbiol., 50, 153 Glücksman, 2010, Closely related protist strains have different grazing impacts on natural bacterial communities, Environ. Microbiol., 12, 3105, 10.1111/j.1462-2920.2010.02283.x Griffiths, 2001, Functional stability, substrate utilisation and biological indicators of soils following environmental impacts, Appl. Soil Ecol., 16, 49, 10.1016/S0929-1393(00)00081-0 IPCC, 2012 Jeuck, 2013, A short guide to common heterotrophic flagellates of freshwater habitats based on the morphology of living organisms, Protist, 164, 842, 10.1016/j.protis.2013.08.003 Jousset, 2012, Ecological and evolutive implications of bacterial defences against predators, Environ. Microbiol., 14, 1830, 10.1111/j.1462-2920.2011.02627.x Khan, 2006, Acanthamoeba: biology and increasing importance in human health, FEMS Microbiol. Rev., 30, 564, 10.1111/j.1574-6976.2006.00023.x Knacker, 2004, Ring-testing and field-validation of a terrestrial model ecosystem (TME) – an instrument for testing potentially harmful substances: conceptual approach and study design, Ecotoxicology, 13, 9, 10.1023/B:ECTX.0000012402.38786.01 Koller, 2013, Protozoa enhance foraging efficiency of arbuscular mycorrhizal fungi for mineral nitrogen from organic matter in soil to the benefit of host plants, New Phytol., 199, 203, 10.1111/nph.12249 Kramer, 1983 Krashevska, 2007, Testate amoebae (Protista) of an elevational gradient in the tropical mountain rain forest of Ecuador, Pedobiologia, 51, 319, 10.1016/j.pedobi.2007.05.005 Kreuzer, 2006, Grazing of a common species of soil protozoa (Acanthamoeba castellanii) affects rhizosphere bacterial community composition and root architecture of rice (Oryza sativa L.), Soil Biol. Biochem., 38, 1665, 10.1016/j.soilbio.2005.11.027 Kuikman, 1991, 15N-nitrogen mineralization from bacteria by protozoan grazing at different soil moisture regimes, Soil Biol. Biochem., 23, 193, 10.1016/0038-0717(91)90134-6 Lagkouvardos, 2014, Improved axenization method reveals complexity of symbiotic associations between bacteria and acanthamoebae, Environ. Microbiol. Rep., 6, 383, 10.1111/1758-2229.12162 Lee, 2000 Matz, 2005, Off the hook-how bacteria survive protozoan grazing, Trends Microbiol., 13, 302, 10.1016/j.tim.2005.05.009 Medinger, 2010, Diversity in a hidden world: potential and limitation of next generation sequencing for surveys of molecular diversity of eukaryotic microorganisms, Mol. Ecol., 19, 32, 10.1111/j.1365-294X.2009.04478.x Meisner, 2013, Microbial growth responses upon rewetting soil dried for four days or one year, Soil Biol. Biochem., 66, 188, 10.1016/j.soilbio.2013.07.014 Page, 1977, The genus Thecamoeba (Protozoa, Gymnamoebia) species distinctions, locomotive morphology, and protozoan prey, J. Nat. Hist., 11, 25, 10.1080/00222937700770031 Page, 1976, An illustrated key to freshwater and soil amoebae, 155 Page, 1988 Parry, 2004, Protozoan grazing of freshwater biofilms, Adv. Appl. Microbiol., 54, 167, 10.1016/S0065-2164(04)54007-8 Pawlowski, 2011, Eukaryotic richness in the abyss: insights from pyrotag sequencing, PLoS ONE, 6, e18169, 10.1371/journal.pone.0018169 Risler, 2013, Genotyping and phylogenetic analysis of Acanthamoeba isolates associated with keratitis, Parasitol. Res., 112, 3807, 10.1007/s00436-013-3572-3 Ritz, 2011 Rodriguez-Zaragoza, 2005, Vertical distribution of the free-living amoeba population in soil under desert shrubs in the Negev desert, Israel, Appl. Environ. Microbiol., 71, 2053, 10.1128/AEM.71.4.2053-2060.2005 Rosenberg, 2009, Soil amoebae rapidly change bacterial community composition in the rhizosphere of Arabidopsis thaliana, ISME J., 3, 675, 10.1038/ismej.2009.11 Saetre, 2005, Microbial dynamics and carbon and nitrogen cycling following re-wetting of soils beneath two semi-arid plant species, Oecologia, 142, 247, 10.1007/s00442-004-1718-9 Saleem, 2012, Predator richness increases the effect of prey diversity on prey yield, Nat. Commun., 3, 1305, 10.1038/ncomms2287 Saxton, 2006, Soil water characteristic estimates by texture and organic matter for hydrologic solutions, Soil Sci. Soc. Am. J., 70, 1569, 10.2136/sssaj2005.0117 Scharroba, 2012, Effects of resource availability and quality on the structure of the micro-food web of an arable soil across depth, Soil Biol. Biochem., 50, 1, 10.1016/j.soilbio.2012.03.002 Scheiner, 2001 Schröter, 2003, C and N mineralisation in the decomposer food webs of a European forest transect, Oikos, 102, 294, 10.1034/j.1600-0579.2003.12064.x Schuster, 2004, Free-living amoebae as opportunistic and non-opportunistic pathogens of humans and animals, Int. J. Parasitol., 34, 1001, 10.1016/j.ijpara.2004.06.004 Sherwood, 2013, Spread in model climate sensitivity traced to atmospheric convective mixing, Nature, 505, 37, 10.1038/nature12829 Smirnov, 2004, Guide to the methods of study and identification of soil gymnamoebae, Protistology, 3, 148 Smirnov, 2011, A revised classification of naked lobose amoebae (Amoebozoa: Lobosa), Protist, 162, 545, 10.1016/j.protis.2011.04.004 Smirnov, 2007, Phylogeny, evolution, and taxonomy of vannellid amoebae, Protist, 158, 295, 10.1016/j.protis.2007.04.004 Stoeck, 2014, A morphogenetic survey on ciliate plankton from a mountain lake pinpoints the necessity of lineage-specific barcode markers in microbial ecology, Environ. Microbiol., 16, 430, 10.1111/1462-2920.12194 Visvesvara, 2007, Pathogenic and opportunistic free living amoebae: Acanthamoeba spp., Balamuthia mandrillaris, Naegleria fowleri, and Sappinia diploidea, FEMS Immunol. Med. Microbiol., 50, 1, 10.1111/j.1574-695X.2007.00232.x Weber, 2013, Can abundance of protists be inferred from sequence data: a case study of Foraminifera, PLOS ONE, 8, e56739, 10.1371/journal.pone.0056739 Weitere, 2005, Grazing resistance of Pseudomonas aeruginosa biofilms depends on type of protective mechanism, developmental stage and protozoan feeding mode, Environ. Microbiol., 7, 1593, 10.1111/j.1462-2920.2005.00851.x