R Henrik Nilsson

Summary

Country: Sweden

Publications

  1. ncbi request reprint Phylogeography of Hyphoderma setigerum (Basidiomycota) in the Northern Hemisphere
    R Henrik Nilsson
    Botanical Institute, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 107:645-52. 2003
  2. pmc Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective
    R Henrik Nilsson
    Department of Plant and Environmental Sciences, Goteborg University, Sweden
    PLoS ONE 1:e59. 2006
  3. ncbi request reprint Fruiting body-guided molecular identification of root-tip mantle mycelia provides strong indications of ectomycorrhizal associations in two species of Sistotrema (Basidiomycota)
    R Henrik Nilsson
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 110:1426-32. 2006
  4. pmc Approaching the taxonomic affiliation of unidentified sequences in public databases--an example from the mycorrhizal fungi
    R Henrik Nilsson
    Goteborg University, Botanical Institute, Box 461, 405 30 Goteborg, Sweden
    BMC Bioinformatics 6:178. 2005
  5. pmc galaxieEST: addressing EST identity through automated phylogenetic analysis
    R Henrik Nilsson
    Götenborg University, Botanical Institute, SE 405 30, Sweden
    BMC Bioinformatics 5:87. 2004
  6. ncbi request reprint galaxie--CGI scripts for sequence identification through automated phylogenetic analysis
    R Henrik Nilsson
    Botanical Institute, Goteborg University, Box 461, 405 30 Goteborg, Sweden
    Bioinformatics 20:1447-52. 2004
  7. pmc Mining metadata from unidentified ITS sequences in GenBank: a case study in Inocybe (Basidiomycota)
    Martin Ryberg
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, 405 30 Goteborg, Sweden
    BMC Evol Biol 8:50. 2008
  8. ncbi request reprint The Peniophorella praetermissa species complex (Basidiomycota)
    Nils Hallenberg
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 111:1366-76. 2007
  9. doi request reprint Megraft: a software package to graft ribosomal small subunit (16S/18S) fragments onto full-length sequences for accurate species richness and sequencing depth analysis in pyrosequencing-length metagenomes and similar environmental datasets
    Johan Bengtsson
    Institute of Neuroscience and Physiology, The Sahlgrenska Academy, University of Gothenburg, Medicinaregatan 11, 405 30 Goteborg, Sweden
    Res Microbiol 163:407-12. 2012
  10. doi request reprint An outlook on the fungal internal transcribed spacer sequences in GenBank and the introduction of a web-based tool for the exploration of fungal diversity
    Martin Ryberg
    Department of Plant and Environmental Sciences, University of Gothenburg, PO Box 461, 405 30 Goteborg, Sweden
    New Phytol 181:471-7. 2009

Detail Information

Publications17

  1. ncbi request reprint Phylogeography of Hyphoderma setigerum (Basidiomycota) in the Northern Hemisphere
    R Henrik Nilsson
    Botanical Institute, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 107:645-52. 2003
    ..The basionym of H. setigerum, Thelephora setigera, is neotypified to fix the application of that name...
  2. pmc Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective
    R Henrik Nilsson
    Department of Plant and Environmental Sciences, Goteborg University, Sweden
    PLoS ONE 1:e59. 2006
    ..Such approaches, popularly known as barcoding, are underpinned by the assumption that the reference databases used for comparison are sufficiently complete and feature correctly and informatively annotated entries...
  3. ncbi request reprint Fruiting body-guided molecular identification of root-tip mantle mycelia provides strong indications of ectomycorrhizal associations in two species of Sistotrema (Basidiomycota)
    R Henrik Nilsson
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 110:1426-32. 2006
    ..The cantharelloid clade contains several mycorrhizal genera, but no symbiotic associations have previously been demonstrated for Sistotrema...
  4. pmc Approaching the taxonomic affiliation of unidentified sequences in public databases--an example from the mycorrhizal fungi
    R Henrik Nilsson
    Goteborg University, Botanical Institute, Box 461, 405 30 Goteborg, Sweden
    BMC Bioinformatics 6:178. 2005
    ..Mycorrhizal fungi--a field where species identification often is prohibitively complex--and the much used ITS locus were chosen as test bed...
  5. pmc galaxieEST: addressing EST identity through automated phylogenetic analysis
    R Henrik Nilsson
    Götenborg University, Botanical Institute, SE 405 30, Sweden
    BMC Bioinformatics 5:87. 2004
    ..In order to facilitate this laborious procedure, a project to employ automated phylogenetic analysis in the identification of ESTs was initiated...
  6. ncbi request reprint galaxie--CGI scripts for sequence identification through automated phylogenetic analysis
    R Henrik Nilsson
    Botanical Institute, Goteborg University, Box 461, 405 30 Goteborg, Sweden
    Bioinformatics 20:1447-52. 2004
    ....
  7. pmc Mining metadata from unidentified ITS sequences in GenBank: a case study in Inocybe (Basidiomycota)
    Martin Ryberg
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, 405 30 Goteborg, Sweden
    BMC Evol Biol 8:50. 2008
    ..In addition, the relative occurrence of Inocybe was contrasted to that of other mycorrhizal genera...
  8. ncbi request reprint The Peniophorella praetermissa species complex (Basidiomycota)
    Nils Hallenberg
    Department of Plant and Environmental Sciences, Goteborg University, Box 461, S 405 30 Goteborg, Sweden
    Mycol Res 111:1366-76. 2007
    ..However, the geographically most widespread clade with many representatives from both hemispheres is here referred to as P. pertenuis, a taxon that was previously considered a synonym to P. praetermissa...
  9. doi request reprint Megraft: a software package to graft ribosomal small subunit (16S/18S) fragments onto full-length sequences for accurate species richness and sequencing depth analysis in pyrosequencing-length metagenomes and similar environmental datasets
    Johan Bengtsson
    Institute of Neuroscience and Physiology, The Sahlgrenska Academy, University of Gothenburg, Medicinaregatan 11, 405 30 Goteborg, Sweden
    Res Microbiol 163:407-12. 2012
    ....
  10. doi request reprint An outlook on the fungal internal transcribed spacer sequences in GenBank and the introduction of a web-based tool for the exploration of fungal diversity
    Martin Ryberg
    Department of Plant and Environmental Sciences, University of Gothenburg, PO Box 461, 405 30 Goteborg, Sweden
    New Phytol 181:471-7. 2009
    ..html#genus_search) offers new means, particularly for mycorrhizal and plant pathogenic fungi, to examine the IIS in GenBank in a taxon-oriented framework and to explore their metadata in an easily accessible and time-efficient manner...
  11. doi request reprint Metaxa: a software tool for automated detection and discrimination among ribosomal small subunit (12S/16S/18S) sequences of archaea, bacteria, eukaryotes, mitochondria, and chloroplasts in metagenomes and environmental sequencing datasets
    Johan Bengtsson
    Department of Plant and Environmental Sciences, University of Gothenburg, Goteborg, Sweden
    Antonie Van Leeuwenhoek 100:471-5. 2011
    ..We believe that this tool will be useful in microbial and evolutionary ecology as well as in metagenomics...
  12. pmc A software pipeline for processing and identification of fungal ITS sequences
    R Henrik Nilsson
    University of Gothenburg, Department of Plant and Environmental Sciences, Box 461, 405 30 Goteborg, Sweden
    Source Code Biol Med 4:1. 2009
    ..The performance of the pipeline was evaluated on a dataset of 350 ITS sequences from fungi growing as epiphytes on building material...
  13. ncbi request reprint The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods
    Jean Marc Moncalvo
    Department of Natural History, Royal Ontario Museum, University of Toronto, Canada
    Mycologia 98:937-48. 2006
    ..Our attempt to reconstruct a "supertree" from tree topologies resulting from separate analyses that avoided phylogenetic reconstruction problems associated with missing data and/or unalignable sequences proved unsuccessful...
  14. ncbi request reprint An overview of the higher level classification of Pucciniomycotina based on combined analyses of nuclear large and small subunit rDNA sequences
    M Catherine Aime
    USDA ARS, Systematic Botany and Mycology Lab, Beltsville, Maryland 20705, USA
    Mycologia 98:896-905. 2006
    ....
  15. ncbi request reprint Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi)
    P Brandon Matheny
    Biology Department, Clark University, 950 Main St, Worcester, MA 01610, USA
    Mol Phylogenet Evol 43:430-51. 2007
    ..Strong support is also recovered for the basal position of the Dacrymycetales in the Hymenomycetidae and paraphyly of the Exobasidiomycetidae...
  16. ncbi request reprint Automated phylogenetic taxonomy: an example in the homobasidiomycetes (mushroom-forming fungi)
    David S Hibbett
    Biology Department, Clark University, Worcester, Massachusetts 01610, USA
    Syst Biol 54:660-8. 2005
  17. ncbi request reprint UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
    Urmas Kõljalg
    Institute of Botany, University of Tartu, 40 Lai Str, EE 51005 Tartu, Estonia
    New Phytol 166:1063-8. 2005
    ..It should be noted that the current version of UNITE is dedicated to the reliable identification of ECM fungi. The UNITE database is accessible through the URL http://unite.zbi.ee..