Data from: Diffuse symbioses: roles of plant–plant, plant–microbe and microbe–microbe interactions in structuring the soil microbiome

 

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 Table of OTU abundances across samples
Downloaded 48 times
Description This table records the number of sequence reads belonging to each OTU, across each of 48 samples. Only OTUs present in at least 50% of samples are included here. Sample labels provide information on host plant species sampled (digits 1-2; Ag = Andropogon gerardii, Ss = Schizachyrium scoparium, Lc = Lespedeza capitata, Lp = Lupinus perennis), the plot sampled (digits 3-5), the within plot replicate (digit 6), and the plant species richness to which that plot was originally planted (digits 7-8). OTU001 through OTU056 are from the Streptomyces dataset. OTU057 through OTU626 are from the total bacterial dataset.
Download OTU_AbundanceTable.xlsx (175.6 Kb)
Details View File Details
Title Streptomyces dataset - aligned, filtered, and uniqued fasta file
Downloaded 13 times
Description Alignment of de-replicated (uniqued) sequence reads from the Streptomyces dataset.
Download Streptomyces.fasta (617.4 Kb)
Details View File Details
Title Streptomyces - mapping file for de-replication
Downloaded 6 times
Description Streptomyces.names maps the processes of re-replicating sequence reads prior to alignment, in Mothur format. The first column shows the accession number of the read that is carried forward into the collection of 'unique' reads. In the following column, all accession numbers for identical sequence reads are listed.
Download Streptomyces.names (5.683 Mb)
Details View File Details
Title Record of sequence processing - Streptomyces dataset
Downloaded 22 times
Description This text file contains a record of the sequence processing steps that were performed on the Streptomyces dataset. Two programs were used: AmpliconNoise and Mothur.
Download Streptomyces_SequenceProcessing.txt (21.49 Kb)
Details View File Details
Title Bacterial dataset - aligned, filtered, and uniqued fasta file
Downloaded 17 times
Description Alignment of de-replicated (uniqued) sequence reads from the bacterial dataset.
Download Bacteria.fasta (57.93 Mb)
Details View File Details
Title Bacteria - mapping file for dereplication
Downloaded 8 times
Description Bacteria.names maps the processes of de-replicating sequence reads prior to alignment, in Mothur format. The first column shows the accession number of the read that is carried forward into the collection of 'unique' reads. In the following column, all accession numbers for identical sequence reads are listed.
Download Bacteria.names (40.86 Mb)
Details View File Details
Title Record of sequence processing - Bacterial dataset
Downloaded 9 times
Description This text file contains a record of the sequence processing steps that were performed on the Streptomyces dataset. Two programs were used: AmpliconNoise and Mothur.
Download Bacteria_SequenceProcessing.txt (2.779 Kb)
Details View File Details

When using this data, please cite the original publication:

Bakker MG, Schlatter DC, Otto-Hanson L, Kinkel LL (2013) Diffuse symbioses: roles of plant–plant, plant–microbe and microbe–microbe interactions in structuring the soil microbiome. Molecular Ecology 23(6): 1571–1583. http://dx.doi.org/10.1111/mec.12571

Additionally, please cite the Dryad data package:

Bakker MG, Schlatter DC, Otto-Hanson L, Kinkel LL (2013) Data from: Diffuse symbioses: roles of plant–plant, plant–microbe and microbe–microbe interactions in structuring the soil microbiome. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.2fc8m
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: