相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。Extracting abundance information from DNA-based data
Mingjie Luo et al.
MOLECULAR ECOLOGY RESOURCES (2023)
High-throughput sequencing view on the magnitude of global fungal diversity
Petr Baldrian et al.
FUNGAL DIVERSITY (2022)
Best practices in metabarcoding of fungi: From experimental design to results
Leho Tedersoo et al.
MOLECULAR ECOLOGY (2022)
The influence of intraspecific sequence variation during DNA metabarcoding: A case study of eleven fungal species
Eva Lena F. Estensmo et al.
MOLECULAR ECOLOGY RESOURCES (2021)
MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction
Bryden Fields et al.
MOLECULAR ECOLOGY RESOURCES (2021)
Origins of modern human ancestry
Anders Bergstrom et al.
NATURE (2021)
Contrasting genetic structuring in the closely related basidiomycetes Trichaptum abietinum and Trichaptum fuscoviolaceum (Hymenochaetales)
Kristian Skaven Seierstad et al.
FUNGAL BIOLOGY (2021)
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean
Marta Royo-Llonch et al.
NATURE MICROBIOLOGY (2021)
Perspectives and Benefits of High-Throughput Long-Read Sequencing in Microbial Ecology
Leho Tedersoo et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2021)
Dissecting and tuning primer editing by proofreading polymerases
Daryl M. Gohl et al.
NUCLEIC ACIDS RESEARCH (2021)
Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities
Carles Castano et al.
NEW PHYTOLOGIST (2020)
Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?
Robert Luecking et al.
IMA FUNGUS (2020)
Introducing ribosomal tandem repeat barcoding for fungi
Christian Wurzbacher et al.
MOLECULAR ECOLOGY RESOURCES (2019)
Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation
D. Vu et al.
STUDIES IN MYCOLOGY (2019)
DNA metabarcoding-Need for robust experimental designs to draw sound ecological conclusions
Lucie Zinger et al.
MOLECULAR ECOLOGY (2019)
High-throughput amplicon sequencing of the full-length 16S rRNA gene with single-nucleotide resolution
Benjamin J. Callahan et al.
NUCLEIC ACIDS RESEARCH (2019)
Dual DNA Barcoding for the Molecular Identification of the Agents of Invasive Fungal Infections
Minh Thuy Vi Hoang et al.
FRONTIERS IN MICROBIOLOGY (2019)
Genome-based estimates of fungal rDNA copy number variation across phylogenetic scales and ecological lifestyles
Lotus A. Lofgren et al.
MOLECULAR ECOLOGY (2019)
The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications
Rolf Henrik Nilsson et al.
NUCLEIC ACIDS RESEARCH (2019)
Methods for normalizing microbiome data: An ecological perspective
Donald T. McKnight et al.
METHODS IN ECOLOGY AND EVOLUTION (2019)
Sequence clustering threshold has little effect on the recovery of microbial community structure
Synnove Smebye Botnen et al.
MOLECULAR ECOLOGY RESOURCES (2018)
Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome data
Jonathan M. Palmer et al.
PEERJ (2018)
Protax-fungi: a web-based tool for probabilistic taxonomic placement of fungal internal transcribed spacer sequences
Kessy Abarenkov et al.
NEW PHYTOLOGIST (2018)
Broadscale Ecological Patterns Are Robust to Use of Exact Sequence Variants versus Operational Taxonomic Units
Sydney I. Glassman et al.
MSPHERE (2018)
ITS all right mama: investigating the formation of chimeric sequences in the ITS2 region by DNA metabarcoding analyses of fungal mock communities of different complexities
Anders Bjornsgaard Aas et al.
MOLECULAR ECOLOGY RESOURCES (2017)
Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
Benjamin J. Callahan et al.
ISME JOURNAL (2017)
Moving beyond de novo clustering in fungal community ecology
Lauren C. Cline et al.
NEW PHYTOLOGIST (2017)
Multispecies coalescent delimits structure, not species
Jeet Sukumaran et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)
Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates
Tobias Guldberg Froslev et al.
NATURE COMMUNICATIONS (2017)
Normalization and microbial differential abundance strategies depend upon data characteristics
Sophie Weiss et al.
MICROBIOME (2017)
The rpb2 gene represents a viable alternative molecular marker for the analysis of environmental fungal communities
Tomas Vetrovsky et al.
MOLECULAR ECOLOGY RESOURCES (2016)
OBITOOLS: a UNIX-inspired software package for DNA metabarcoding
Frederic Boyer et al.
MOLECULAR ECOLOGY RESOURCES (2016)
Unbiased probabilistic taxonomic classification for DNA barcoding
Panu Somervuo et al.
BIOINFORMATICS (2016)
From barcodes to genomes: extending the concept of DNA barcoding
Eric Coissac et al.
MOLECULAR ECOLOGY (2016)
DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan et al.
NATURE METHODS (2016)
Fungal identification biases in microbiome projects
Leho Tedersoo et al.
ENVIRONMENTAL MICROBIOLOGY REPORTS (2016)
Adjusting microbiome profiles for differences in microbial load by spike-in bacteria
Frank Staemmler et al.
MICROBIOME (2016)
Determining threshold values for barcoding fungi: lessons from Cortinarius (Basidiomycota), a highly diverse and widespread ectomycorrhizal genus
Sigisfredo Garnica et al.
FEMS MICROBIOLOGY ECOLOGY (2016)
A Comprehensive, Automatically Updated Fungal ITS Sequence Dataset for Reference-Based Chimera Control in Environmental Sequencing Efforts
R. Henrik Nilsson et al.
MICROBES AND ENVIRONMENTS (2015)
Molecular operational taxonomic units as approximations of species in the light of evolutionary models and empirical data from Fungi
Martin Ryberg
MOLECULAR ECOLOGY (2015)
Tag jumps illuminated - reducing sequence-to-sample misidentifications in metabarcoding studies
Ida Baerholm Schnell et al.
MOLECULAR ECOLOGY RESOURCES (2015)
Accurate multiplexing and filtering for high-throughput amplicon-sequencing
Philippe Esling et al.
NUCLEIC ACIDS RESEARCH (2015)
One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes
J. B. Stielow et al.
PERSOONIA (2015)
Comment on Global diversity and geography of soil fungi
Christopher W. Schadt et al.
SCIENCE (2015)
Will different OTU delineation methods change interpretation of arbuscular mycorrhizal fungal community patterns?
Ylva Lekberg et al.
NEW PHYTOLOGIST (2014)
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
Paul J. McMurdie et al.
PLOS COMPUTATIONAL BIOLOGY (2014)
Swarm: robust and fast clustering method for amplicon-based studies
Frederic Mahe et al.
PEERJ (2014)
A phylogeographic survey of a circumboreal polypore indicates introgression among ecologically differentiated cryptic lineages
Kristian Skaven Seierstad et al.
FUNGAL ECOLOGY (2013)
Fungal community analysis by high-throughput sequencing of amplified markers - a user's guide
Bjorn D. Lindahl et al.
NEW PHYTOLOGIST (2013)
Towards a unified paradigm for sequence-based identification of fungi
Urmas Koljalg et al.
MOLECULAR ECOLOGY (2013)
ITS1 versus ITS2 as DNA metabarcodes for fungi
R. Blaalid et al.
MOLECULAR ECOLOGY RESOURCES (2013)
Employing 454 amplicon pyrosequencing to reveal intragenomic divergence in the internal transcribed spacer rDNA region in fungi
Daniel L. Lindner et al.
ECOLOGY AND EVOLUTION (2013)
Intraspecific ITS Variability in the Kingdom Fungi as Expressed in the International Sequence Databases and Its Implications for Molecular Species Identification
R. Henrik Nilsson et al.
Evolutionary Bioinformatics (2012)
Don't make a mista(g)ke: is tag switching an overlooked source of error in amplicon pyrosequencing studies?
Tor Carlsen et al.
FUNGAL ECOLOGY (2012)
Environmental microbiology through the lens of high-throughput DNA sequencing: Synopsis of current platforms and bioinformatics approaches
Ramiro Logares et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2012)
Environmental DNA
Pierre Taberlet et al.
MOLECULAR ECOLOGY (2012)
Towards next-generation biodiversity assessment using DNA metabarcoding
Pierre Taberlet et al.
MOLECULAR ECOLOGY (2012)
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi
Conrad L. Schoch et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
UCHIME improves sensitivity and speed of chimera detection
Robert C. Edgar et al.
BIOINFORMATICS (2011)
Removing Noise From Pyrosequenced Amplicons
Christopher Quince et al.
BMC BIOINFORMATICS (2011)
Multiple cryptic species with divergent substrate affinities in the Serpula himantioides species complex
Tor Carlsen et al.
FUNGAL BIOLOGY (2011)
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
Brian J. Haas et al.
GENOME RESEARCH (2011)
Intragenomic variation in the ITS rDNA region obscures phylogenetic relationships and inflates estimates of operational taxonomic units in genus Laetiporus
Daniel L. Lindner et al.
MYCOLOGIA (2011)
Performance, Accuracy, and Web Server for Evolutionary Placement of Short Sequence Reads under Maximum Likelihood
Simon A. Berger et al.
SYSTEMATIC BIOLOGY (2011)
ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases
Eva Bellemain et al.
BMC MICROBIOLOGY (2010)
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
Victor Kunin et al.
ENVIRONMENTAL MICROBIOLOGY (2010)
Experimental factors affecting PCR-based estimates of microbial species richness and evenness
Anna Engelbrektson et al.
ISME JOURNAL (2010)
The online database MaarjAM reveals global and ecosystemic distribution patterns in arbuscular mycorrhizal fungi (Glomeromycota)
M. Opik et al.
NEW PHYTOLOGIST (2010)
The UNITE database for molecular identification of fungi - recent updates and future perspectives
Kessy Abarenkov et al.
NEW PHYTOLOGIST (2010)
454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity
M. Buee et al.
NEW PHYTOLOGIST (2009)
Using heterozygosity to estimate a percentage DNA sequence similarity for environmental species' delimitation across basidiomycete fungi
Karen W. Hughes et al.
NEW PHYTOLOGIST (2009)
Massively parallel 454 sequencing indicates hyperdiverse fungal communities in temperate Quercus macrocarpa phyllosphere
A. Jumpponen et al.
NEW PHYTOLOGIST (2009)
Fungal Community Ecology: A Hybrid Beast with a Molecular Master
Kabir G. Peay et al.
BIOSCIENCE (2008)
Intragenomic Variation of Fungal Ribosomal Genes Is Higher than Previously Thought
Uwe K. Simon et al.
MOLECULAR BIOLOGY AND EVOLUTION (2008)
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
Qiong Wang et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2007)
Asian origin and rapid global spread of the destructive dry rot fungus Serpula lacrymans
Havard Kauserud et al.
MOLECULAR ECOLOGY (2007)
Highly efficient concerted evolution in the ribosomal DNA repeats: Total rDNA repeat variation revealed by whole-genome shotgun sequence data
Austen R. D. Ganley et al.
GENOME RESEARCH (2007)
Hybridization among cryptic species of the cellar fungus Coniophora puteana (Basidiomycota)
Havard Kauserud et al.
MOLECULAR ECOLOGY (2007)
Taxonomic Reliability of DNA Sequences in Public Sequence Databases: A Fungal Perspective
R. Henrik Nilsson et al.
PLOS ONE (2006)
Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi
John W. Taylor et al.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2006)
Fungal community analysis by large-scale sequencing of environmental samples
HE O'Brien et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)
UNITE:: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
U Koljalg et al.
NEW PHYTOLOGIST (2005)
Molecular phylogenetics suggest a North American link between the anthropogenic dry rot fungus Serpula lacrymans and its wild relative S-himantioides
H Kauserud et al.
MOLECULAR ECOLOGY (2004)
Ribosomal DNA variation, recombination and inheritance in the basidiomycete Trichaptum abietinum:: implications for reticulate evolution
H Kauserud et al.
HEREDITY (2003)
Arbuscular mycorrhizal community composition associated with two plant species in a grassland ecosystem
P Vandenkoornhuyse et al.
MOLECULAR ECOLOGY (2002)
Molecular diversity and phylogenetic affinities of symbiotic root-associated ascomycetes of the Helotiales in burnt and metal polluted habitats
T Vrålstad et al.
NEW PHYTOLOGIST (2002)
Population structure of the endangered wood decay fungus Phellinus nigrolimitatus (Basidiomycota)
H Kauserud et al.
CANADIAN JOURNAL OF BOTANY-REVUE CANADIENNE DE BOTANIQUE (2002)
Speciation, hybrid zones and phylogeography - or seeing genes in space and time
GM Hewitt
MOLECULAR ECOLOGY (2001)
The molecular revolution in ectomycorrhizal ecology: peeking into the black-box
TR Horton et al.
MOLECULAR ECOLOGY (2001)
A widely distributed ITS polymorphism within a biological species of the ectomycorrhizal fungus Hebeloma velutipes
DK Aanen et al.
MYCOLOGICAL RESEARCH (2001)
Widespread occurrence of spliceosomal introns in the rDNA genes of ascomycetes
D Bhattacharya et al.
MOLECULAR BIOLOGY AND EVOLUTION (2000)
Phylogenetic species recognition and species concepts in fungi
JW Taylor et al.
FUNGAL GENETICS AND BIOLOGY (2000)
分享论文
