Data from: Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi

U'Ren JM, Riddle JM, Monacell JT, Carbone I, Miadlikowska J, Arnold AE

Date Published: March 11, 2014

DOI: http://dx.doi.org/10.5061/dryad.8271f

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title ITS1 reads after quality trimming
Downloaded 10 times
Description Fasta file containing all of the trimmed sequences (n=188,300) used in this study. Poor quality sequences, mycobiont sequences, and chimeric sequences have been removed. Singleton and doubleton OTU sequences are still present.
Download pyro_ITS1.140bp.dist2dist3.slp.redundant.N...fasta (38.86 Mb)
Details View File Details
Title ITS1 read after quality trimming-group membership
Downloaded 15 times
Description This file contains a list of all 188,300 sequences used in the study and their associated group membership. For example, samples in the study came from 3 host species (Pine, Pelt, Moss) x 3 individuals for each host (1,2,3) x 3 tissue storage methods (Fresh, CTAB, Silica). So the name Pine3CTAB denotes Pinus host # 3, tissue stored in CTAB buffer prior to DNA extraction.
Download pyro.ITS1.140bp.good.NoPelt.Chimera.groups (4.888 Mb)
Details View File Details
Title OTU abundance matrix by host/microsite/treatment
Downloaded 10 times
Description This file is the output from the mothur command make.shared for all 188,300 sequences in the study. It is an abundance matrix with the number of sequences for each sample at every level of sequence divergence (e.g., unique, 0.00, 0.01, 0.05). Level of 0.05 was used for the analyses for this study. This file contains all OTU.
Download pyro_ITS1.140bp.dist2dist3.an.NoPelt.Chime...hared (281.9 Kb)
Details View File Details

When using this data, please cite the original publication:

U'Ren JM, Riddle JM, Monacell JT, Carbone I, Miadlikowska J, Arnold AE (2014) Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi. Molecular Ecology Resources 14(5): 1032-1048. http://dx.doi.org/10.1111/1755-0998.12252

Additionally, please cite the Dryad data package:

U'Ren JM, Riddle JM, Monacell JT, Carbone I, Miadlikowska J, Arnold AE (2014) Data from: Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.8271f
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: