The influence of soil properties on the structure of bacterial and fungal communities across land-use types

Allison, 2007, Nitrogen fertilization reduces diversity and alters community structure of active fungi in boreal ecosystems, Soil Biology and Biochemistry, 39, 1878, 10.1016/j.soilbio.2007.02.001

Altschul, 1990, Basic local alignment search tool, Journal of Molecular Biology, 215, 403, 10.1016/S0022-2836(05)80360-2

Bååth, 2003, Comparison of soil fungal/bacterial ratios in a pH gradient using physiological and PLFA-based techniques, Soil Biology and Biochemistry, 35, 955, 10.1016/S0038-0717(03)00154-8

Bååth, 1995, Microbial community structure and pH response in relation to soil organic-matter quality in wood-ash fertilized, clear-cut or burned coniferous forest soils, Soil Biology and Biochemistry, 27, 229, 10.1016/0038-0717(94)00140-V

Bailey, 2002, Fungal-to-bacterial ratios in soils investigated for enhanced C sequestration, Soil Biology and Biochemistry, 34, 997, 10.1016/S0038-0717(02)00033-0

Bardgett, 1999, The measurement of soil fungal:bacterial biomass ratios as an indicator of ecosystem self-regulation in temperate meadow grasslands, Biology and Fertility of Soils, 29, 282, 10.1007/s003740050554

Blagodatskaya, 1998, Interactive effects of pH and substrate quality on the fungal-to-bacterial ratio and QCO2 of microbial communities in forest soils, Soil Biology and Biochemistry, 30, 1269, 10.1016/S0038-0717(98)00050-9

Bossio, 1998, Determinants of soil microbial communities: effects of agricultural management, season, and soil type on phospholipid fatty acid profiles, Microbial Ecology, 36, 1, 10.1007/s002489900087

Bossuyt, 2001, Influence of microbial populations and residue quality on aggregate stability, Applied Soil Ecology, 16, 195, 10.1016/S0929-1393(00)00116-5

Buckley, 2006, Diversity of planctomycetes in soil in relation to soil history and environmental heterogeneity, Applied and Environmental Microbiology, 72, 4522, 10.1128/AEM.00149-06

Callaham, 2006, Long-term land-use effects on soil invertebrate communities in southern piedmont soils, USA, European Journal of Soil Biology, 42, S150, 10.1016/j.ejsobi.2006.06.001

Carlile, 2001

Christensen, 1989, A view of fungal ecology, Mycologia, 81, 1, 10.2307/3759446

Clarke, 2001, A further biodiversity index applicable to species lists: variation in taxonomic distinctness, Marine Ecology Progress Series, 216, 265, 10.3354/meps216265

Culley, 1993, Density and compressibility, 529

DeSantis, 2006, NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes, Nucleic Acids Research, 34, W394, 10.1093/nar/gkl244

DeSantis, 2006, Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB, Applied and Environmental Microbiology, 72, 5069, 10.1128/AEM.03006-05

Edgar, 2004, MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research, 32, 1792, 10.1093/nar/gkh340

Felsenstein, 2005

Fierer, 2005, Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays, Applied and Environmental Microbiology, 71, 4117, 10.1128/AEM.71.7.4117-4120.2005

Fierer, 2006, The diversity and biogeography of soil bacterial communities, Proceedings of the National Academy of Sciences of the United States of America, 103, 626, 10.1073/pnas.0507535103

Frey, 2004, Chronic nitrogen enrichment affects the structure and function of the soil microbial community in temperate hardwood and pine forests, Forest Ecology and Management, 196, 159, 10.1016/j.foreco.2004.03.018

Frostegård, 1993, Shifts in the structure of soil microbial communities in limed forests as revealed by phospholipid fatty acid analysis, Soil Biology and Biochemistry, 25, 723, 10.1016/0038-0717(93)90113-P

Gaudinski, 2001, The age of fine-root carbon in three forests of the eastern United States measured by radiocarbon, Oecologia, 129, 420, 10.1007/s004420100746

Gee, 2002, Particle-size analysis, 255

Girvan, 2003, Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils, Applied and Environmental Microbiology, 69, 1800, 10.1128/AEM.69.3.1800-1809.2003

Heinemeyer, 2004, Impact of soil warming and shading on colonization and community structure of arbuscular mycorrhizal fungi in roots of a native grassland community, Global Change Biology, 10, 52, 10.1111/j.1365-2486.2003.00713.x

Hendrix, 1986, Detritus food webs in conventional and no-tillage agroecosystems, Bioscience, 36, 374, 10.2307/1310259

Högberg, 2007, Is microbial community composition in boreal forest soils determined by pH, C-to-N ratio, the trees, or all three?, Oecologia, 150, 590, 10.1007/s00442-006-0562-5

Hughes, 2001, Counting the uncountable: statistical approaches to estimating microbial diversity, Applied and Environmental Microbiology, 67, 4399, 10.1128/AEM.67.10.4399-4406.2001

Johnson, 2003, DNA fingerprinting reveals links among agricultural crops, soil properties, and the composition of soil microbial communities, Geoderma, 114, 279, 10.1016/S0016-7061(03)00045-4

Kowalchuk, 1997, Analysis of ammonia-oxidizing bacteria of the beta subdivision of the class Proteobacteria in coastal sand dunes by denaturing gradient gel electrophoresis and sequencing of PCR-amplified 16S ribosomal DNA fragments, Applied and Environmental Microbiology, 63, 1489, 10.1128/AEM.63.4.1489-1497.1997

Kuo, 1998, Phosphorus

Lane, 1991, 16S/23S rRNA sequencing, 115

Lozupone, 2005, UniFrac: a new phylogenetic method for comparing microbial communities, Applied and Environmental Microbiology, 71, 8228, 10.1128/AEM.71.12.8228-8235.2005

Lutzoni, 2004, Assembling the fungal tree of life: progress, classification and evolution of subcellular traits, American Journal of Botany, 91, 1446, 10.3732/ajb.91.10.1446

Martin, 2002, Phylogenetic approaches for describing and comparing the diversity of microbial communities, Applied and Environmental Microbiology, 68, 3673, 10.1128/AEM.68.8.3673-3682.2002

McCaig, 1999, Molecular analysis of bacterial community structure and diversity in unimproved and improved upland grass pastures, Applied and Environmental Microbiology, 65, 1721, 10.1128/AEM.65.4.1721-1730.1999

Murty, 2002, Does conversion of forest to agricultural land change soil carbon and nitrogen? A review of the literature, Global Change Biology, 8, 105, 10.1046/j.1354-1013.2001.00459.x

Ovreas, 1998, Microbial diversity and community structure in two different agricultural soil communities, Microbial Ecology, 36, 303, 10.1007/s002489900117

Pace, 1997, A molecular view of microbial diversity and the biosphere, Science, 276, 734, 10.1126/science.276.5313.734

Post, 1990, Changes in soil organic carbon and nitrogen as a result of cultivation, 401

Richter, 2001

Roesch, 2007, Pyrosequencing enumerates and contrasts soil microbial diversity, The ISME Journal, 1, 283, 10.1038/ismej.2007.53

Sala, 2000, Biodiversity – global biodiversity scenarios for the year 2100, Science, 287, 1770, 10.1126/science.287.5459.1770

Singh, 2006, Investigating microbial community structure in soils by physiological, biochemical and molecular fingerprinting methods, European Journal of Soil Science, 57, 72, 10.1111/j.1365-2389.2005.00781.x

Singh, 2008, Relationship between assemblages of mycorrhizal fungi and bacteria on grass roots, Environmental Microbiology, 10, 534, 10.1111/j.1462-2920.2007.01474.x

Six, 2006, Bacterial and fungal contributions to carbon sequestration in agroecosystems, Soil Science Society of America Journal, 70, 555, 10.2136/sssaj2004.0347

Smit, 1999, Analysis of fungal diversity in the wheat rhizosphere by sequencing of cloned PCR-amplified genes encoding 18S rRNA and temperature gradient gel electrophoresis, Applied and Environmental Microbiology, 65, 2614, 10.1128/AEM.65.6.2614-2621.1999

Steenwerth, 2002, Soil microbial community composition and land use history in cultivated and grassland ecosystems of coastal California, Soil Biology and Biochemistry, 34, 1599, 10.1016/S0038-0717(02)00144-X

Swift, 1982, Basidiomycetes as components of forest ecosystems, 307

Thomas, 1996, Soil pH and Soil Acidity, 475

Treseder, 2004, A meta-analysis of mycorrhizal responses to nitrogen, phosphorus, and atmospheric CO2 in field studies, New Phytologist, 164, 347, 10.1111/j.1469-8137.2004.01159.x

van der Wal, 2006, Fungal biomass development in a chronosequence of land abandonment, Soil Biology and Biochemistry, 38, 51, 10.1016/j.soilbio.2005.04.017

Yu, 2006, FastGroupII: a web-based bioinformatics platform for analyses of large 16S rDNA libraries, BMC Bioinformatics, 7, 10.1186/1471-2105-7-57

Zelles, 1992, Signature fatty-acids in phospholipids and lipopolysaccharides as indicators of microbial biomass and community structure in agricultural soils, Soil Biology and Biochemistry, 24, 317, 10.1016/0038-0717(92)90191-Y