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Protocols

FUNGuild specifications

Information


Unique identifier OMICS_30610
Name FUNGuild
Alternative name Fungi fUNctional Guild
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.1
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Nhu Nguyen

Information


Unique identifier OMICS_30610
Name FUNGuild
Alternative name Fungi fUNctional Guild
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Nhu Nguyen

Publication for Fungi fUNctional Guild

FUNGuild citations

 (20)
library_books

Assessing Performance of Spore Samplers in Monitoring Aeromycobiota and Fungal Plant Pathogen Diversity in Canada

2018
Appl Environ Microbiol
PMCID: 5930333
PMID: 29475862
DOI: 10.1128/AEM.02601-17

[…] consequence of the volume of data, the numbers of taxa being processed, and the different taxonomies accepted at the times when some analyses were run. OTUs were classified to functional groups using FUNGuild ().All statistical analyses were done in the R environment. Because ITS1_OTU and ITS2_OTU were formed by amplicons from different regions of the ITS barcodes, diversity indices of putative sp […]

call_split

Mycobiome of Cysts of the Soybean Cyst Nematode Under Long Term Crop Rotation

2018
Front Microbiol
PMCID: 5865410
PMID: 29615984
DOI: 10.3389/fmicb.2018.00386
call_split See protocol

[…] en different seasons and crop sequences across seasons within each year. The figures were generated with package “ggplot2” (Wickham, ).Fungal taxa were assigned to a functional ecological guild using FUNGuild v.1.1 (Nguyen et al., ), which was used to construct a guild community matrix. The effects of season and crop sequence were analyzed with the same ANOVA model as above. We also created guilds […]

library_books

Root Associated Fungi Shared Between Arbuscular Mycorrhizal and Ectomycorrhizal Conifers in a Temperate Forest

2018
Front Microbiol
PMCID: 5858530
PMID: 29593682
DOI: 10.3389/fmicb.2018.00433

[…] ITE database (Kõljalg et al., ) (see Toju et al., , for detailed comparison between the QCauto-LCA and UCLUST–UNITE approaches). The functional group of each fungal OTU was inferred using the program FUNGuild 1.1 (Nguyen et al., ) (Supplementary Data ). As the FUNGuild program often output multiple guilds for a single OTU (e.g., “Ectomycorrhizal-Orchid Mycorrhizal-Root Associated Biotroph”), the o […]

library_books

The Intestinal Mycobiota in Wild Zebrafish Comprises Mainly Dothideomycetes While Saccharomycetes Predominate in Their Laboratory Reared Counterparts

2018
Front Microbiol
PMCID: 5845672
PMID: 29559965
DOI: 10.3389/fmicb.2018.00387

[…] sum test and Wilcoxon test pairwise comparisons between the groups, and a threshold of 3.0 was chosen for logarithmic LDA scores.The ecological relevance of the fungal phylotypes was determined using FUNGuild (). FUNGuild assigns fungal phylotypes to trophic modes (saprotroph, symbiotroph, pathotroph, pathotroph-saprotroph, pathotroph-symbiotroph, and saprotroph-symbiotroph) based on matches at th […]

library_books

Recent Insights on Biological and Ecological Aspects of Ectomycorrhizal Fungi and Their Interactions

2018
Front Microbiol
PMCID: 5818412
PMID: 29497408
DOI: 10.3389/fmicb.2018.00216

[…] rent PGM (relies on the real-time detection of hydrogen ion concentration, released as a by-product when a nucleotide is incorporated into a strand of DNA by the polymerase action), new tools such as FUNGuild, have been developed to taxonomically parse fungal OTUs by ecological guild independent of sequencing platform or analysis pipeline. Using a database and an accompanying bioinformatics script […]

library_books

The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome

2018
Microbiome
PMCID: 5810025
PMID: 29433554
DOI: 10.1186/s40168-018-0413-8

[…] l communities (multipatt function in indicspecies package; []). After indicator OTUs were detected, an FDR correction was applied for post hoc multiple comparisons of statistical significance.We used FUNGuild [] to classify each OTU into an ecological guild to determine if fungal functional groups differed in relative abundance between genotypes within each broad habitat category (leaf, stem, root […]

Citations

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FUNGuild institution(s)
Department of Plant Biology, University of Minnesota, St. Paul, MN, USA; Department of Plant Pathology, University of Minnesota, St. Paul, MN, USA; Department of Plant & Microbial Biology, University of California Berkeley, Berkeley, CA, USA; Natural History Museum, University of Tartu, Tartu, Estonia; Department of Bioproducts and Biosystems Engineering, University of Minnesota, St. Paul, MN, USA; Department of Ecology, Evolution, & Behavior, University of Minnesota, St. Paul, MN, USA

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