Direct analysis of wood-inhabiting fungi using denaturing gradient gel electrophoresis of amplified ribosomal DNA

Mycological Research - Tập 104 Số 8 - Trang 927-936 - 2000
Eeva J. Vainio1, Jarkko Hantula1
1Finnish Forest Research Institute, P.O. Box 18, FIN-01301 Vantaa, Finland

Tóm tắt

Từ khóa


Tài liệu tham khảo

Anderson, 1992, Molecular phylogeny of Northern Hemisphere species of Armillaria, Mycologia, 84, 505, 10.2307/3760315

Berbee, 1993, Dating the evolutionary radiations of the true fungi, Canadian Journal of Botany, 71, 1114, 10.1139/b93-131

Crockard, 1998, Intron polymorphism in small subunit rDNA of Nectria galligena, Microbiology, 144, 2367, 10.1099/00221287-144-8-2367

Dahlberg, 1997, Species diversity and distribution of biomass above and below ground among ectomycorrhizal fungi in an old-growth Norway spruce forest in south Sweden, Canadian Journal of Botany, 75, 1323, 10.1139/b97-844

DePriest, 1992, Numerous group I introns with variable distributions in the ribosomal DNA of a lichen fungus, Journal of Molecular Biology, 228, 315, 10.1016/0022-2836(92)90819-6

Dutton, 1993, General method for amplifying regions of very high G + C content, Nucleic Acids Research, 21, 2953, 10.1093/nar/21.12.2953

Farrelly, 1995, Effect of genome size and rrn copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species, Applied and Environmental Microbiology, 61, 2798, 10.1128/AEM.61.7.2798-2801.1995

Fatehi, 1998, Detection of multiple rRNA-ITS regions in isolates of Ascochyta, Mycological Research, 102, 762, 10.1017/S0953756297005704

Feibelman, 1994, Length variation in the internal transcribed spacer of ribosomal DNA in chantarelles, Mycological Research, 98, 614, 10.1016/S0953-7562(09)80407-3

Ferris, 1996, Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community, Applied and Environmental Microbiology, 62, 340, 10.1128/AEM.62.2.340-346.1996

Fischer, 1983, DNA fragments differing by single base-pair substitutions are separated in denaturing gradient gels: correspondence with melting theory, Proceedings of the National Academy of Science, USA, 80, 1579, 10.1073/pnas.80.6.1579

Gardes, 1996, Community structure of ectomycorrhizal fungi in a Pinus muricata forest: above-and below-ground views, Canadian Journal of Botany, 74, 1572, 10.1139/b96-190

Hallenberg, 1996, Phylogenetic studies in Peniophora, Mycological Research, 100, 179, 10.1016/S0953-7562(96)80118-3

Hantula, 1996, Random amplified microsatellites (RAMS) – a novel method for characterizing genetic variation within fungi, European Journal of Forest Pathology, 26, 159, 10.1111/j.1439-0329.1996.tb00720.x

Helgason, 1998, Ploughing up the wood-wide web?, Nature, 394, 431, 10.1038/28764

Heuer, 1997, Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients, Applied and Environmental Microbiology, 63, 3233, 10.1128/AEM.63.8.3233-3241.1997

Hintikka, 1993, Occurrence of edible fungi and other macromycetes on tree stumps over a sixteen-year period, Acta Botanica Fennica, 149, 11

Johannesson, 1999, Molecular identification of wood-inhabiting fungi in an unmanaged Picea abies forest in Sweden, Forest Ecology and Management, 115, 203, 10.1016/S0378-1127(98)00399-5

Jones, 1998, Phylogenetic analysis of ambrosial species in the genus Raffaelea based on 18S rDNA sequences, Mycological Research, 102, 661, 10.1017/S0953756296003437

Jonsson, 1999, Ectomycorrhizal fungal communities in late-successional Swedish boreal forests, and their composition following wildfire, Molecular Ecology, 8, 205, 10.1046/j.1365-294x.1999.00553.x

Jonsson, 1999, Ectomycorrhizal community structure in a limed spruce forest, Mycological Research, 103, 501, 10.1017/S0953756298007461

Kasuga, 1993, Heterobasidion annosum 5.8S ribosomal DNA and internal transcribed spacer sequence: rapid identification of European intersterility groups by ribosomal DNA restriction polymorphism, Current Genetics, 24, 433, 10.1007/BF00351853

Kowalchuk, 1997, Detection and characterization of fungal infections of Ammophila arenaria (Marram grass) roots by denaturing gradient gel electrophoresis of specifically amplified 18S rDNA, Applied and Environmental Microbiology, 63, 3858, 10.1128/AEM.63.10.3858-3865.1997

Kowalchuk, 1997, Analysis of ammonia-oxidizing bacteria of the β 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

Kårén, 1997, Inter-and intraspecific variation in the ITS region of rDNA of ectomycorrhizal fungi in Fennoscandia as detected by endonuclease analysis, New Phytologist, 136, 313, 10.1046/j.1469-8137.1997.00742.x

Marsh, 1998, Beginning a molecular analysis of the eukaryal community in activated sludge, Water Science and Technology, 37, 455, 10.1016/S0273-1223(98)00145-0

Mitchell, 1995, Sequence of structure? A short review on the application of nucleic acid sequence information to fungal taxonomy, Mycologist, 9, 67, 10.1016/S0269-915X(09)80212-7

Müller, 1994, Combining sterol and fatty acid profiles for the characterization of fungi, Mycological Research, 98, 593, 10.1016/S0953-7562(09)80404-8

Muyzer, 1993, Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, Applied and Environmental Microbiology, 59, 695, 10.1128/AEM.59.3.695-700.1993

Myers, 1985, Nearly all single base substitutions in DNA fragments joined to a GC-clamp can be detected by denaturing gradient gel electrophoresis, Nucleic Acids Research, 13, 3131, 10.1093/nar/13.9.3131

Neuvéglise, 1994, Comparative analysis of molecular and biological characteristics of strains of Beauveria brongniartii isolated from insects, Mycological Research, 98, 322, 10.1016/S0953-7562(09)80460-7

Norman, 1996, Phylogeny of the genus Plicaria and its relationship to Peziza inferred from ribosomal DNA sequence analysis, Mycologia, 88, 986, 10.2307/3761062

O'Donnel, 1992, Ribosomal DNA internal transcribed spacers are highly divergent in the phytopathogenic ascomycete Fusarium sambucinum (Gibberella pulicaris), Current Genetics, 22, 213, 10.1007/BF00351728

Olsen, 1993, Ribosomal RNA: a key to phylogeny, FASEB Journal, 7, 113, 10.1096/fasebj.7.1.8422957

Perotto, 1998, Genetic and functional diversity of ericoid mycorrhizal fungi, Symbiosis, 25, 19

Rayner, 1988

Renvall, 1995, Community structure and dynamics of wood-rotting basidiomycetes on decomposing conifer trunks in northern Finland, Karstenia, 35, 1, 10.29203/ka.1995.309

Smalla, 1998, Analysis of BIOLOG GN substrate utilization patterns by microbial communities, Applied and Environmental Microbiology, 64, 1220, 10.1128/AEM.64.4.1220-1225.1998

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

Suzuki, 1996, Bias caused by template annealing in the amplification of mixture of 16S rRNA genes by PCR, Applied and Environmental Microbiology, 62, 625, 10.1128/AEM.62.2.625-630.1996

Vallaeys, 1997, Evaluation of denaturing gradient gel electrophoresis in the detection of 16S rDNA sequence variation in rhizobia and methanotrophs, FEMS Microbiology Ecology, 24, 279, 10.1111/j.1574-6941.1997.tb00445.x

White, 1990, Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, 315