Data from Species Distribution, Phylogenetic Structure, and Functional Roles of Detritius Inhabiting Fungi Across Contrasting Aquatic Environments.
Cite this dataset:
Miller, Andrew; Raudabaugh, Daniel (2020): Data from Species Distribution, Phylogenetic Structure, and Functional Roles of Detritius Inhabiting Fungi Across Contrasting Aquatic Environments.. University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-6862941_V2
Use this persistent URL to link to this dataset:
Dataset Description

This version 2 dataset contains 34 files in total with one (1) additional file, called "Culture-dependent Isolate table with taxonomic determination and sequence data.csv". The remaining files (33) are identical to version 1. The following is the information about the new file and its variables:

Culture-dependent Isolate table with taxonomic determination and sequence data.csv: Culture table with assigned taxonomy from NCBI. Single direction sequence for each isolate is include if one could be obtained. Sequence is derived from ITS1F-ITS4 PCR amplicons, with Sanger sequencing in one direction using ITS5. The files contains 20 variables with explanation as below:

IsolateNumber : unique number identify each isolate cultured
Time: season in which the sample was collected
Location: the specific name of the location
Habitat: type of habitat : either stream or peatland
State: state in the USA in which the specific location is located
Incubation_pH ID: pH of the medium during isolation of fungal cultures
Genus: phylogenetic genus of the fungal isolates (determined by sequence similarity)
Sequence_quality: base call quality of the entire sequence used for blast analysis, if known
%_coverage: sequence coverage reported from GenBank
%_ID: sequence similarity reported from GenBank
Life_style : ecological life style if known
Phylum: phylogenetic phylum as indicated by Index Fungorum
Subphylum: phylogenetic subphylum as indicated by Index Fungorum
Class: phylogenetic class as indicated by Index Fungorum
Subclass: phylogenetic subclass as indicated by Index Fungorum
Order: phylogenetic order as indicated by Index Fungorum
Family: phylogenetic Family as indicated by Index Fungorum
ITS5_Sequence: single direction sequence used for sequence similarity match using blastn. Primer ITS5
Fasta: sequence with nomenclature in a fasta format for easy cut and paste into phylogenetic software
Note: blank cells mean no data is available or unknown.

Subject Life Sciences
Keywords ITS1 forward reads; Illumina; peatlands; streams; bogs; fens
License CC0
Corresponding Creator Andrew Miller
Downloaded 673 times
Version DOI Comment Publication Date
2 10.13012/B2IDB-6862941_V2 "Culture-dependent Isolate table with taxonomic determination and sequence data.csv" file is added to this version 2020-11-05
1 10.13012/B2IDB-6862941_V1 2019-06-05
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update: {"nested_updated_at"=>[nil, Mon, 30 Jan 2023 20:10:06.805580000 UTC +00:00]} 2024-01-03T18:24:14Z