Data Package Metadata   View Summary

Data and analysis code from: Micro-scale geography of synchrony in a serpentine plant community

General Information
Data Package:
Local Identifier:edi.465.4
Title:Data and analysis code from: Micro-scale geography of synchrony in a serpentine plant community
Alternate Identifier:DOI PLACE HOLDER
Abstract:

This package includes data and code to reproduce analyses of micro-scale geography of synchrony in the plant community at Jasper Ridge Biological Preserve. Plant cover and soil depth data come from long-term experimental plots established by Richard Hobbs. Plant cover is aggregated into 36 1m2 plots across three treatments (control, gopher exclosure, rabbit exclosure) from 1983 to 2015; included herein are data on the 6 most abundant species (Plantago erecta, Bromus hordeaceous, Lasthenia californica, Microseris douglasii, Vulpia microstachys, and Calycadenia multiglandulosa), total plant cover across all species, and records of gopher disturbance in the plots. The data package also includes time series of monthly precipitation and growing season Palmer’s Drought Severity Index for the same time period. An R Markdown file is included that reproduces all analyses described in the manuscript and reproduces all data figures.

Data to support: Walter, Hallett et al. in review “Micro-scale geography of synchrony in a serpentine plant community

Publication Date:2020-02-01

Time Period
Begin:
1983
End:
2015

People and Organizations
Contact:Hallett, Lauren  [  email ]
Contact:Walter, Jonathan  [  email ]
Creator:Hallett, Lauren (University of Oregon)
Creator:Walter, Jonathan (University of Virginia)
Creator:Sheppard, Lawrence (University of Kansas)
Creator:Anderson, Thomas (University of Kansas)
Creator:Zhao, Lei (China Agricultural University)
Creator:Hobbs, Richard (University of Western Australia)
Creator:Suding, Katherine (University of Colorado, Boulder)
Creator:Reuman, Daniel (University of Kansas)
Associate:Campbell, Rebecca (University of Western Australia, Data entry, QA/QC)
Associate:Mooney, Harold (Stanford University, Project initiation and support)

Data Entities
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, all plants
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, Plantago erecta
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, Bromus hordeaceous
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, Lasthenia californica
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge Microseris douglasii
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, Vulpia microstachys
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Annual cover measurements at Jasper Ridge 1983-2015, Calycadenia multiglandulosa
Description:
Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Data Table Name:
Disturbance indexes - gophers
Description:
Index for each treatment and control plot by year. Ranges from 0 (no disturbance) to 4 (every quarter disturbed)
Data Table Name:
Plot Coordinates
Description:
Locations of each plot, as distance from origin
Data Table Name:
Soil Depth
Description:
Mean, minimum, maximum soil depth for each plot
Data Table Name:
Palmer Drought Indexes for Jasper Ridge
Description:
Palmer Drought Severity Index and Hydrologic Drought Index, 1983 - 2015
Data Table Name:
Monthly Precipitation
Description:
Total precipitation within the month and year, collected at Jasper Ridge, with gaps filled in by the nearby Woodside Fire Station
Other Name:
analysis code, JRSynchrony_Master.Rmd
Description:
R markdown file
Other Name:
analysis code, plotClusterMap_JRG.R
Description:
R script for plots
Detailed Metadata

Data Entities


Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/badfb801e01d356dc9fcd2d329a05686
Name:Annual cover measurements at Jasper Ridge 1983-2015, all plants
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:all_plants.csv
Size:7130
Authentication:b2a9a826f77e3b80bff5703115fd790a Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
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Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/923be2044a2d38ec86978e2c1f23d362
Name:Annual cover measurements at Jasper Ridge 1983-2015, Plantago erecta
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:plantago.csv
Size:5992
Authentication:bec0db5493dc0df322618e842e67d342 Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
Typereal
Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/a388921864617b6bb38230be1a6ae2c3
Name:Annual cover measurements at Jasper Ridge 1983-2015, Bromus hordeaceous
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:bromus.csv
Size:5000
Authentication:dba7cfc91294ac41d2ceee70b0c34592 Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
Typereal
Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Typereal
Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/fa1ad41a430d4fd49c5190fc8a724410
Name:Annual cover measurements at Jasper Ridge 1983-2015, Lasthenia californica
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:lasthenia.csv
Size:5930
Authentication:17eb8f713c727c8e03918836e6bc3586 Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/1ceebd6ed7077bb21f03b4b5b32ecca1
Name:Annual cover measurements at Jasper Ridge Microseris douglasii
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:microseris.csv
Size:5534
Authentication:8b7c8d078fc9e2a1f112e3832fa9b94b Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/42ed37beb870237c3534e691d960152f
Name:Annual cover measurements at Jasper Ridge 1983-2015, Vulpia microstachys
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

Table Structure
Object Name:vulpia.csv
Size:5294
Authentication:68967f9e020b45e2e6d92f8cddaf860a Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 uniqueID198319841985198619871988198919901991199219931994199519961997199819992000200120022003200420052006200720082009201020112012201320142015
Column Name:uniqueID  
1983  
1984  
1985  
1986  
1987  
1988  
1989  
1990  
1991  
1992  
1993  
1994  
1995  
1996  
1997  
1998  
1999  
2000  
2001  
2002  
2003  
2004  
2005  
2006  
2007  
2008  
2009  
2010  
2011  
2012  
2013  
2014  
2015  
Definition:Identifier follows the format: treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomCover in April 1983Cover in April 1984Cover in April 1985Cover in April 1986Cover in April 1987Cover in April 1988Cover in April 1989Cover in April 1990Cover in April 1991Cover in April 1992Cover in April 1993Cover in April 1994Cover in April 1995Cover in April 1996Cover in April 1997Cover in April 1998Cover in April 1999Cover in April 2000Cover in April 2001Cover in April 2002Cover in April 2003Cover in April 2004Cover in April 2005Cover in April 2006Cover in April 2007Cover in April 2008Cover in April 2009Cover in April 2010Cover in April 2011Cover in April 2012Cover in April 2013Cover in April 2014Cover in April 2015
Storage Type:string  
                                                                 
Measurement Type:nominalratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratioratio
Measurement Values Domain:
Definitionany text
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
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Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Unitpercent
Typereal
Missing Value Code:                                                                    
Accuracy Report:                                                                    
Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/db79171e578a53ee2fa1153b0d2f384f
Name:Annual cover measurements at Jasper Ridge 1983-2015, Calycadenia multiglandulosa
Description:Annual cover measurements for plots with gopher and rabbit exclosure treatments, and controls, 1983 - 2015
Number of Records:36
Number of Columns:34

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Column Name:uniqueID  
1983  
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Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/a3b0ebf6b5b8c369f1df19f16ced9a68
Name:Disturbance indexes - gophers
Description:Index for each treatment and control plot by year. Ranges from 0 (no disturbance) to 4 (every quarter disturbed)
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c2008  
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c2011  
c2012  
c2013  
c2014  
c2015  
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in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter 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of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbedAverage disturbance in that plot and year, where 0 signifies no disturbance and 4 signifies that every quarter of the four 0.5 m x 0.5 m quadrats constituting the plot were disturbed
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Accuracy Assessment:                                                                    
Coverage:                                                                    
Methods:                                                                    

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/230b1b68bda38a9e4c1131669bb9d9f6
Name:Plot Coordinates
Description:Locations of each plot, as distance from origin
Number of Records:36
Number of Columns:3

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 Plot unique identifierX coordinate of plot centerY coordinate of plot center
Column Name:ID  
coordX  
coordY  
Definition:ID follows the format treatment_replicate_block_plot, where treatment ranges from c for control, r for rabbit exclosure, and g for gopher exclosure, replicates ranges from 1 to 3, block from 1 to 2, and plot as either top or bottomMeters from originMeters from origin
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Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/44562c30d9f84b72b836bf548205e30a
Name:Soil Depth
Description:Mean, minimum, maximum soil depth for each plot
Number of Records:36
Number of Columns:6

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 Treatment codeTreatment repPlot codeMean soil depthMinimum Soil DepthMaximum Soil Depth
Column Name:treatment  
trtrep  
plot  
soilDepth  
minSoilDepth  
maxSoilDepth  
Definition:Treatment, where ‘c’ = control, ‘r’ = rabbit exclosure, ‘g’ = gopher exclosureReplicate identifying code, values 1, 2 or 3Plot code combines the block (either 1 to 2), and plot (either top or bottom)Mean soil depth in the plotMin soil depth in the plotMax soil depth in the plot
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Codeg
DefinitionGopher exclosure
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Code Definition
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DefinitionRabbit exclosure
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DefinitionControl
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Data:https://pasta-s.lternet.edu/package/data/eml/edi/465/4/81a475fbb19f51380c6a7e0d4b23bbf7
Name:Palmer Drought Indexes for Jasper Ridge
Description:Palmer Drought Severity Index and Hydrologic Drought Index, 1983 - 2015
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 YearSampling seasonPalmer’s drought severity indexPalmer’s hydrologic drought index
Column Name:samplingYear  
season  
PDSI  
PHDI  
Definition:Year of SamplingAll entries are ‘g’ for growing seasonA standardized index from -10 (dry) to 10 (wet)A standardized index from -10 (dry) to 10 (wet)
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Name:Monthly Precipitation
Description:Total precipitation within the month and year, collected at Jasper Ridge, with gaps filled in by the nearby Woodside Fire Station
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 MonthYearMonthly PrecipitationGrowing seasonGrowing season, excluding Apr
Column Name:month  
year  
allprecip  
growseason  
growseasonnoApr  
Definition:The month that the sample was takensampling yearTotal precipitation within the month and year, collected at Jasper Ridge, with gaps filled in by the nearby Woodside Fire StationCode indicates whether the month was part of the growing season (or summer season)Indicates whether the month was part of the growing season, excluding April from the growing season (as sampling typically occurred the first two weeks of April)
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Non-Categorized Data Resource

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Data Package Usage Rights

This information is released under the Creative Commons license - Attribution - CC BY (https://creativecommons.org/licenses/by/4.0/). The consumer of these data ("Data User" herein) is required to cite it appropriately in any publication that results from its use. The Data User should realize that these data may be actively used by others for ongoing research and that coordination may be necessary to prevent duplicate publication. The Data User is urged to contact the authors of these data if any questions about methodology or results occur. Where appropriate, the Data User is encouraged to consider collaboration or co-authorship with the authors. The Data User should realize that misinterpretation of data may occur if used out of context of the original study. While substantial efforts are made to ensure the accuracy of data and associated documentation, complete accuracy of data sets cannot be guaranteed. All data are made available "as is." The Data User should be aware, however, that data are updated periodically and it is the responsibility of the Data User to check for new versions of the data. The data authors and the repository where these data were obtained shall not be liable for damages resulting from any use or misinterpretation of the data. Thank you.

Keywords

By Thesaurus:
(No thesaurus)Jasper Ridge Biological Preserve, serpentine grassland, long-term data, vegetation, annual plants, invasion

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package
Description:

Please note this text is directly from the corresponding publication by Walter, Hallett et al. in review “Micro-scale geography of synchrony in a serpentine plant community”

In November 1982, Richard J. Hobbs established three permanent experimental treatments at our study site: gopher exclosures, rabbit exclosures and a control. Gopher exclosures were achieved by burying 1 cm mesh to the bedrock, with 30–40 cm of mesh extending aboveground. Rabbit exclosures were created using 2-cm mesh to create a 1 m high fence around the plots. See Hobbs and Mooney (1991) for full experimental details. The gopher plots were re-fenced twice in the first 20 years of study; however, the fencing was only partially successful and all plots were disturbed at some point. As such, the gopher exclosure treatment reduced the frequency of disturbance but did not eliminate disturbance (Hobbs et al. 2007). At the same time, Hobbs et al. (2007) found that the rabbit exclosure treatment experienced elevated amounts of gopher activity; thus, in aggregate the treatments created communities that experienced a broad range of disturbance frequencies.

The experiment was replicated three times in a random-block design. Each replicate treatment was 4 m × 4 m and replicates were separated by 5 m. Data were collected from 24 contiguous 0.5 m × 0.5 m quadrats arranged in two 1 m × 3 m blocks. We averaged the top and bottom four quadrats in each block to yield 36 1 m × 1 m spatially explicit plots.

Species abundance was measured visually as percent cover in early April of each year (nomenclature following Baldwin et al. 2012), using cover classes of 1, 2, 5, 10 and increments of 10 thereafter; total cover could be greater than 100 due to canopy structure or less than 100 due to bare ground. For these analyses we focused on the six species with the highest average abundances over time: four native annual forbs (Calycadenia multiglandulosa, Lasthenia californica, Microseris douglasii, Plantago erecta), a native annual grass (Vulpia microstachys) and a non-native annual grass (Bromus hordeaceus). Presence of new gopher mounds was mapped each April from 1983 to 2015. Gopher activity was scored as presence/absence within each quarter of the quadrats; thus, when averaged at the plot level gopher activity ranged on a scale of 0 (no disturbance) to 4 (all areas were disturbed) in 0.25 increments. In 1983 soil depth was scored in each quarter of quadrats by pushing a graduated metal probe into the soil until it hit bedrock. This resulted in 16 replicate measures of soil depth which we averaged for each 1 m × 1 m plot.

Citations

Baldwin, Bruce G., Douglas H. Goldman, David J. Keil, Robert Patterson, Thomas J. Rosatti, and Dieter H. Wilken, eds. The Jepson Manual: Vascular Plants of California. Second Edition, Thoroughly Revised and Expanded edition. Berkeley, Calif: University of California Press, 2012. Hobbs, Richard J., and Harold A. Mooney. “Effects of Rainfall Variability and Gopher Disturbance on Serpentine Annual Grassland Dynamics.” Ecology 72, no. 1 (February 1991): 59–68. https://doi.org/10.2307/1938902.

Hobbs, Richard J., Susan Yates, and Harold A. Mooney. “Long-Term Data Reveal Complex Dynamics in Grassland in Relation to Climate and Disturbance.” Ecological Monographs 77, no. 4 (2007): 545–568.

People and Organizations

Publishers:
Organization:Environmental Data Initiative
Creators:
Individual: Lauren Hallett
Organization:University of Oregon
Email Address:
hallett@uoregon.edu
Individual: Jonathan Walter
Organization:University of Virginia
Email Address:
jaw3es@virginia.edu
Individual: Lawrence Sheppard
Organization:University of Kansas
Email Address:
lwsheppard@ku.edu
Individual: Thomas Anderson
Organization:University of Kansas
Email Address:
anderstl@gmail.com
Individual: Lei Zhao
Organization:China Agricultural University
Email Address:
lei.zhao@cau.edu.cn
Individual: Richard Hobbs
Organization:University of Western Australia
Email Address:
richard.hobbs@uwa.edu.au
Individual: Katherine Suding
Organization:University of Colorado, Boulder
Email Address:
suding@colorado.edu
Individual: Daniel Reuman
Organization:University of Kansas
Email Address:
reuman@ku.edu
Contacts:
Individual: Lauren Hallett
Email Address:
hallett@uoregon.edu
Individual: Jonathan Walter
Email Address:
jaw3es@virginia.edu
Associated Parties:
Individual: Rebecca Campbell
Organization:University of Western Australia
Email Address:
rebecca.campbell@uwa.edu.au
Role:Data entry, QA/QC
Individual: Harold Mooney
Organization:Stanford University
Email Address:
hmooney@stanford.edu
Role:Project initiation and support

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period
Begin:
1983
End:
2015
Geographic Region:
Description:Jasper Ridge Biological Preserve in San Mateo County, California, USA. The study site is a serpentine outcrop that bisects the ridge. Typical of serpentine grasslands, the soil is shallow (less than 40 cm deep), with low nutrient concentrations, high nickel and manganese concentrations and a low calcium:magnesium ratio. The site experiences a Mediterranean climate with mild, wet winters and hot, dry summers. Mean growing season rainfall (September–April) over the study period was 604 mm but varied greatly, from 228–1155 mm. The site is dominated by annual plants (primarily annual forbs and a few annual grasses) that germinate in autumn and set seed in spring and summer.
Bounding Coordinates:
Northern:  37.404946Southern:  37.404669
Western:  -122.223963Eastern:  -122.2237973
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Plantago erecta
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Bromus hordeaceous
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Lasthenia californica
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Microseris douglasii
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Vulpia microstachys
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Calycadenia multiglandulosa
Taxonomic Range:
Classification:
Rank Name:Species
Rank Value:Thomomys bottae
Common Name:Botta's pocket gopher

Project

Parent Project Information:

Title:Jasper Ridge serpentine plants
Personnel:
Individual: Richard J Hobbs
Role:Principal Investigator
Funding: UK Natural Environmental Research Council, National Science Foundation (NSF), Mellon Foundation, Commonwealth Scientific and Industrial Research Organisation (CSIRO), Murdoch University
Other Metadata

EDI is a collaboration between the University of New Mexico and the University of Wisconsin – Madison, Center for Limnology:

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