This readme.txt file was generated on 2016-06-23 by Lisa Johnston, DRUM curator

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GENERAL INFORMATION
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1. Title of Dataset: Fungal endophytes as priority colonizers initiating wood decomposition

2. File Information:
   
	A. Filename: Fungal_ITS1_MiSeq.zip 
   	B. Short description: The raw Read1 sequencing files for fungal communities in fresh and decayed wood samples 
   
	C. Filename:Sample_metadata.csv      
      	D. Short description: Metadata for the samples corresponding to the sequence files

Relationship between files: The compressed file (Fungal_ITS1_MiSeq.zip) contains 82 illumia MiSeq 25 bp Read 1 FASTQ files. These files were used to generate the fungal community structure and function data in our paper, following the pipeline in the supplement File S1. The metadata of these samples were saved in the Excel file: Sample_metadata.csv

3. Principal Investigator Contact Information
        Name: Jonathan Schilling
           Institution: University of Minnesota
           Address: St. Paul, Minnesota, USA
           Email: schillin@umn.edu

  Associate or Co-investigator Contact Information
        Name: Zewei Song
           Institution:
           Address:
           Email:

  Associate or Co-investigator Contact Information
           Name: Peter Kennedy
           Institution:
           Address:
           Email:

  Associate or Co-investigator Contact Information
           Name: Feng Jin Liew
           Institution:
           Address:
           Email:

3. Date of data collection: 2013 to 2014


4. Geographic location of data collection (where was data collected?): The wood substrates were collected from Cloquet Experimental Forest of University of Minnesota, MN. 

5. Information about funding sources that supported the collection of the data: Conservation and the Environment grants program of The Andrew W. Mellon Foundation (New York, NY). Doctoral Dissertation Fellowship of the University of Minnesota. Minnesota Agricultural Experiment Station funding #MIN-12-087.


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METHODOLOGICAL INFORMATION
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1. Description of methods used for collection/generation of data and or for processing the data: 

Priority effects among wood decomposers have been demonstrated by manipulating fungal assembly history via inoculations in dead wood and then tracking community development using DNA sequencing. Individual wood-degrading fungi have been shown, however, to initiate decay after having colonized living trees as endophytes. To track these ‘upstream’ colonizers across the endophyte­saprophyte transition, we coupled high throughput sequencing with wood physiochemical analyses in stem sections extracted from healthy birch trees (Betula papyrifera; 4-7 cm dia.). We incubated wood in microcosms, limiting communities as endophytes­only or challenging endophytes with Fomes fomentarius or Piptoporus betulinus at high exogenous inoculum potential. Initial fungal richness in birch stems averaged 143 OTUs, and decreased nearly three-fold after five months of decomposition. Although F. fomentarius successfully colonized some stem sections incubated at 25°C, decayed wood was generally dominated by saprophytic fungi that were present originally in lower abundances as endophytes. Among saprophytes, fungi in the brown rot functional guild consistently dominated, matching wood residues bearing the chemical hallmarks of brown rot. Despite this functionally redundant outcome, the taxa that rose to dominate in individual sections varied. Surprisingly, the brown rot taxa dominating wood decomposition were better known for lumber degradation rather than log decay in ground contact. Given the isolation from colonizers in our design, this redundancy of brown rot as the outcome suggests that these taxa and more generally brown rot fungi could have adapted to decompose wood where there is lower competitive pressure. Competitive avoidance would complement the diffuse depolymerization mechanisms of brown rot fungi, which are likely more prone to sugar pilfering by other organisms than the processive depolymerization mechanisms of white rot fungi. Overall, this guild-level predictability of fungal endophyte development and consequence is encouraging given the challenges of predicting wood decomposition, and it provides a base for testing these dynamics under increasing natural complexity.

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DATA & FILE OVERVIEW
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DATA-SPECIFIC INFORMATION for filename: Sample_metadata.csv

1. Parameters and/or variables used in the data set
   A. Name: Sample			
   B. Description: Sample names as used in the article (currently under revision review)
   C. Units of measurement: n/a
   D. Name: Incubate time
   E. Description: Incubation time in lab
   F. Units of measurement: months
   G. Name: Incubate temperature
   H. Description: The temperature used for incubation (25 and 30 degree C were used)
   I. Units of measurement:
   K. Name: Inoculated fungi
   L. Description: The name of fungi used as external inoculums.
   M. Units of measurement: n/a
   N. Name: Comment
   O. Description: Comment on the sample, only the last two samples have comments. 
   P. Units of measurement: n/a

2. Codes or symbols used to record missing data
   A. Code/symbol: “mo”
   B. Definition: month
   C. Code/symbol: “n/a”
   D. Definition: not applicable
   E. Code/symbol: “none”
   F. Definition: No fungus inoculated
   G. Code/symbol: “Both”
   H. Definition: Both fungi were inoculated

4. Other specialized formats or abbreviations used:

5. Additional related data collected that was not included in the current data package: n/a


SHARING/ACCESS INFORMATION 

1. Licenses/restrictions placed on the data: CC0 1.0 Universal (CC0 1.0) 
Public Domain Dedication

2. Links to publications that cite or use the data:
Song, Z., Kennedy, P. G., Liew, F. J., & Schilling, J. S. (2016). Fungal endophytes as priority colonizers initiating wood decomposition. Functional Ecology.
http://dx.doi.org/10.1111/1365-2435.12735

3. Links to other publicly accessible locations of the data: n/a

4. Links/relationships to ancillary data sets: n/a

5. Was data derived from another source? 
   A. List source(s): n/a

6. Recommended citation for the data: 
Song, Zewei; Kennedy, Peter; Liew, Feng Jin; Schilling, Jonathan. (2016). Fungal Endophytes as Priority Colonizers Initiating Wood Decomposition. Retrieved from the Data Repository for the University of Minnesota, http://doi.org/10.13020/D69880.



Credits: Template provided by the University of Minnesota Libraries, http://lib.umn.edu/datamanagement