Data Package Metadata   View Summary

Canopy Trimming Experiment (CTE) plant seedling measurements

General Information
Data Package:
Local Identifier:knb-lter-luq.143.1058150
Title:Canopy Trimming Experiment (CTE) plant seedling measurements
Alternate Identifier:DOI PLACE HOLDER
Abstract:

Seedlings were measured before and after treatments to determine how alterations in canopy openness and detritus affect seedling densities and life histories (growth, mortality, recruitment). It was predicted that plots experiencing canopy openness with detritus removed would have the quickest increase in seedlings (recruitment and growth), especially of early successional (light demanding) species, such as Cecropia. Seedlings in plots that received no canopy manipulation but had detritus deposited is predicted to have near-total mortality initially (low light and high physical inhibition due to detritus). Treatment plots experiencing both canopy manipulation and addition of detritus would initially experience near-total mortality, with some light demanding seedlings establishing and growing through detritus with time.

Publication Date:2011-06-03
Language:English

Time Period
Begin:
2003-06-05
End:
2016-09-12

People and Organizations
Contact:Zimmerman, Jess (University of Puerto Rico, Rio Piedras Campus) [  email ]
Creator:Zimmerman, Jess (University of Puerto Rico, Rio Piedras Campus)
Associate:Melendez-Colom, Eda (University of Puerto Rico, Rio Piedras Campus, data manager)
Associate:Shiels, Aaron 
Associate:Zimmerman, Jess (University of Puerto Rico, Rio Piedras Campus, associated researcher)
Associate:Gonzalez, Grizelle (International Institute of Tropical Forestry (IITF), USDA Forest Service, associated researcher)

Data Entities
Data Table Name:
CTE Seedlings Measurements
Description:
CTE Seedlings Measurements
Data Table Name:
CTE Seedling Measurements cover percent
Description:
Canopy Trimming Experiment seedlings measurements cover percent data
Detailed Metadata

Data Entities


Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/knb-lter-luq/143/1058150/e1953719bbbe21038650e0d230b71512
Name:CTE Seedlings Measurements
Description:CTE Seedlings Measurements
Number of Records:69963
Number of Columns:14

Time Period
Begin:
2003-06-05
End:
2016-09-12

Table Structure
Object Name:CTESeedlingMeasurementData2.csv
Size:3012288
Text Format:
Number of Header Lines:1
Number of Foot Lines:0
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 Sheet DateCTE Block identifierCTE Plot IdentifierSeedling plotSection identifierCTE seedling metal tag numberSpecies CodeSeedling heightDiameter of seedlingCount of seedlings less than 10 cm tallCTE Additional informationInformation about seedling's statusNew seedling foundPlant life form
Column Name:SHEET_DATE  
BLOCK  
PLOT  
SEEDLINGPLOT  
SECTION  
TAG  
SPECIES  
HEIGHT  
DIAMETER  
LESSTHAN10CM  
COMMENTS  
DEAD_ALIVE_NOTFOUND  
NEW  
Life Form  
Definition:The date in which the observation was made at the field; these dates can have the same value as the start date, when the study was conducted.Name given to a grouping of 4-like plots in one of three locations of the Canopy Trimming Experiment(CTE).Canopy Trimming Experiment Plot identifier. This is one of the four plots in each Block of research area. Values are : 1, 2, 3, 4An integer from 1 to 5 assigned to a subplot within a plot of a CTE Block where seedlings measurements are performedSections numbers (1, 2, 3, 4 or 5) that divide the 1.0 m x 3.5 m subquad.Number on a metal tag specifying each seedling. Each tag is attached to seedling with string, and metal tag also states the Plot-Subquad number. In order for a seedling to receive a tag, it must be at least 10 cm tall. No data is missing in this field.Five character abbreviation of the common name of the species observedHeight of seedling measured from ground to apical meristem of the tallest leader (for LFDP) or Distance from ground to apical meristem (for CTE). For vines the height is measured to the base of the tallest leaf blade (CTE). Precision for LFDP is 0.01 and for CTE is 0.05.Diameter of seedling just above the root crownCount of seedlings for a specific species in a specific section of a CTE BLOCK-PLOT with heights less than or equal to 10 cmAdditional comments plus the point of measurement if different than specified in 'height' or 'diam'Information about seedling's statusIndication that the seedling found is newa way of classifying plants alternatively to the ordinary species-genus-family scientific classification
Storage Type:date  
string  
string  
      string  
      string  
string  
string  
string  
Measurement Type:dateTimenominalnominalratioratiorationominalratioratiorationominalnominalnominalnominal
Measurement Values Domain:
FormatMM/DD/YYYY
Precision
Allowed Values and Definitions
Enumerated Domain 
Code Definition
CodeA
DefinitionA set of four plots located 30+ m West of western edge of Big Grid (LFDP), on North and South side of Prieta stream, near Vogt old plots
Source
Code Definition
CodeB
DefinitionA set of four plots located 30+ m South of Big Grid, all plots along Oxcart Trail
Source
Code Definition
CodeC
DefinitionA set of four plots located 30+ m West of SE corner of Big Grid (LFDP)
Source
DefinitionCanopy Trimming Experiment Plot identifier. This is one of the four plots in each Block of research area. Values are : 1, 2, 3, 4
Unitnumber
Typereal
Unitnumber
Typereal
Unitnumber
Typereal
Min
Max
DefinitionFive character abbreviation of the common name of the species observed
Unitcentimeter
Precision0.5
Typereal
Unitcentimeter
Precision0.01
Typereal
Unitnumber
Typereal
DefinitionAdditional comments plus the point of measurement if different than specified in 'height' or 'diam'
Allowed Values and Definitions
Enumerated Domain 
Code Definition
CodeD
Definitionseedling was found dead
Source
Code Definition
CodeA
Definitionseedling was found alive
Source
Code Definition
CodeNF
Definitionseedling was not found
Source
Code Definition
CodeO
Definitionseedling was not found in data
Source
Code Definition
CodeV
Definitionseedling was found and
Source
Allowed Values and Definitions
Enumerated Domain 
Code Definition
CodeNEW
Definitionseedling found for the first time
Source
Code Definition
Codeblank
Definitionseedling found and measured before
Source
Allowed Values and Definitions
Enumerated Domain 
Code Definition
CodeE
DefinitionEPIPHYTE
Source
Code Definition
CodeF
DefinitionFERN
Source
Code Definition
CodeG
DefinitionGRASS
Source
Code Definition
CodeH
DefinitionHERB
Source
Code Definition
CodeO
DefinitionORCHID
Source
Code Definition
CodeS
DefinitionSHRUB
Source
Code Definition
CodeT
DefinitionTREE
Source
Code Definition
CodeU
DefinitionUNKNOWN
Source
Code Definition
CodeV
DefinitionVINE
Source
Code Definition
CodeSMTREE
DefinitionSMALL TREE
Source
Missing Value Code:                            
Accuracy Report:                            
Accuracy Assessment:                            
Coverage:                            
Methods:                            

Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/knb-lter-luq/143/1058150/c218feefb236d705c535c126cdebb7c4
Name:CTE Seedling Measurements cover percent
Description:Canopy Trimming Experiment seedlings measurements cover percent data
Number of Records:2700
Number of Columns:19

Time Period
Begin:
2003-06-01
End:
2016-09-12

Table Structure
Object Name:CTE-Data-Seedlingcover%.csv
Size:131354
Text Format:
Number of Header Lines:1
Number of Foot Lines:0
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 Sheet DateCTE Block identifierCTE Plot IdentifierSeedling plotSection identifierLitter cover measured in the 1 x 3.5 m areaLive trunk cover measured in the 1 x 3.5 m areaDead trunk cover measured in the 1 x 3.5 m areaOther cover measured in the 1 x 3.5 m areaBare rock cover measured in the 1 x 3.5 m areaBare soil cover measured in the 1 x 3.5 m areaGrass cover measured in the 1 x 3.5 m areaTotal Height of grass cover measured in the 1 x 3.5 mWood <5cm diameter count in the 1 x 3.5 m areaDepth of litter in one of the corners (number 1) of a 1 x 3.5 m areaDepth of litter in one of the corners (number 2) of a 1 x 3.5 m areaDepth of litter in one of the corners (number 3) of a 1 x 3.5 m areaDepth of litter in one of the corners (number 4) of a 1 x 3.5 m areaCTE Additional information
Column Name:SHEET_DATE  
BLOCK  
PLOT  
SEEDLINGPLOT  
SECTION  
LITTER  
LIVE_TRUNK  
DEAD_TRUNK  
OTHERS  
BARE_ROCK  
BARE_SOIL  
GRASS  
GRASS_TOTAL_HT  
WOOD_lt5CM  
LITTERDEPTHCORNER1  
LITTERDEPTHCORNER2  
LITTERDEPTHCORNER3  
LITTERDEPTHCORNER4  
COMMENTS  
Definition:The date in which the observation was made at the field; these dates can have the same value as the start date, when the study was conducted.Name given to a grouping of 4-like plots in one of three locations of the Canopy Trimming Experiment(CTE).Canopy Trimming Experiment Plot identifier. This is one of the four plots in each Block of research area. Values are : 1, 2, 3, 4An integer from 1 to 5 assigned to a subplot within a plot of a CTE Block where seedlings measurements are performedSections numbers (1, 2, 3, 4 or 5) that divide the 1.0 m x 3.5 m subquad.Litter cover measured in the 1 x 3.5 m area where seedlings are measuredLive trunk cover measured in the 1 x 3.5 m areaDead trunk cover measured in the 1 x 3.5 m area where seedlings are measuredOther cover measured in the 1 x 3.5 m area where seedlings are measuredBare rock cover measured in the 1 x 3.5 m area where seedlings are measuredBare rock cover measured in the 1 x 3.5 m area where seedlings are measuredGrass cover measured in the 1 x 3.5 m area where seedlings are measuredTotal Height of grass cover measured in the 1 x 3.5 m area where seedlings are measuredCount of woody seedlings less than 5cm in diameter measured in the 1 x 3.5 m areaDepth of litter in one of the corners (number 1) of a1 x 3.5 m area where the seedlings are measuredDepth of litter in one of the corners (number 2) of a 1 x 3.5 m area where seedlings where measuredDepth of litter in one of the corners (number 3) of a 1 x 3.5 m area where seedlings where measuredDepth of litter in one of the corners (number 4) of a 1 x 3.5 m area where seedlings where measuredAdditional comments plus the point of measurement if different than specified in 'height' or 'diam'
Storage Type:date  
string  
string  
    string  
string  
string  
string  
string  
string  
string  
string  
  string  
string  
string  
string  
string  
Measurement Type:dateTimenominalnominalratiorationominalnominalnominalnominalnominalnominalnominalnominalrationominalnominalnominalnominalnominal
Measurement Values Domain:
FormatMM/DD/YYYY
Precision
Allowed Values and Definitions
Enumerated Domain 
Code Definition
CodeA
DefinitionA set of four plots located 30+ m West of western edge of Big Grid (LFDP), on North and South side of Prieta stream, near Vogt old plots
Source
Code Definition
CodeB
DefinitionA set of four plots located 30+ m South of Big Grid, all plots along Oxcart Trail
Source
Code Definition
CodeC
DefinitionA set of four plots located 30+ m West of SE corner of Big Grid (LFDP)
Source
DefinitionCanopy Trimming Experiment Plot identifier. This is one of the four plots in each Block of research area. Values are : 1, 2, 3, 4
Unitnumber
Typereal
Unitnumber
Typereal
DefinitionLitter cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionLive trunk cover measured in the 1 x 3.5 m area
DefinitionDead trunk cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionOther cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionBare rock cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionBare rock cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionGrass cover measured in the 1 x 3.5 m area where seedlings are measured
DefinitionTotal Height of grass cover measured in the 1 x 3.5 m area where seedlings are measured
Unitnumber
Typereal
DefinitionDepth of litter in one of the corners (number 1) of a1 x 3.5 m area where the seedlings are measured
DefinitionDepth of litter in one of the corners (number 2) of a 1 x 3.5 m area where seedlings where measured
DefinitionDepth of litter in one of the corners (number 3) of a 1 x 3.5 m area where seedlings where measured
DefinitionDepth of litter in one of the corners (number 4) of a 1 x 3.5 m area where seedlings where measured
DefinitionAdditional comments plus the point of measurement if different than specified in 'height' or 'diam'
Missing Value Code:                                      
Accuracy Report:                                      
Accuracy Assessment:                                      
Coverage:                                      
Methods:                                      

Data Package Usage Rights

Data Policies

LTER Network Data Access Policy, Data Access Requirements, and General Data Use Agreement
approved by the LTER Coordinating Committee April 6, 2005

Long Term Ecological Research Network Data Access Policy

The LTER data policy includes three specific sections designed to express shared network policies regarding the release of LTER data products, user registration for accessing data, and the licensing agreements specifying the conditions for data use.

LTER Network Data Release Policy

Data and information derived from publicly funded research in the U.S. LTER Network, totally or partially from LTER funds from NSF, Institutional Cost-Share, or Partner Agency or Institution where a formal memorandum of understanding with LTER has been established, are made available online with as few restrictions as possible, on a nondiscriminatory basis. LTER Network scientists should make every effort to release data in a timely fashion and with attention to accurate and complete metadata.

Data[current-user:created]

There are two data types:

Type I – data are to be released to the general public according to the terms of the general data use agreement (see Section 3 below) within 2 years from collection and no later than the publication of the main findings from the dataset and,

Type II - data are to be released to restricted audiences according to terms specified by the owners of the data. Type II data are considered to be exceptional and should be rare in occurrence. The justification for exceptions must be well documented and approved by the lead PI and Site Data Manager. Some examples of Type II data restrictions may include: locations of rare or endangered species, data that are covered under prior licensing or copyright (e.g., SPOT satellite data), or covered by the Human Subjects Act. Researchers that make use of Type II Data may be subject to additional restrictions to protect any applicable commercial or confidentiality interests.

While the spirit of this document is to promote maximum availability for ecological data in either Type I or II status, there are criteria by which priority for data release may be determined. Primary observations collected for core research activities directly supported by LTER research must receive the highest priority for data release. Data collected by other sources to which LTER supported research has added value is also a high priority Other types of data including non-LTER data that was acquired for LTER research, student thesis data, schoolyard LTER data, or legacy data that already suffer from inadequate documentation or format obsolescence may be ranked a lower priority by a site with justifications provided in their data management policy. Finally, some data may be determined of lowest priority for archiving on the grounds that they are interim data that led to final products that carry the scientific value. These might include data files created during stages within an analytic workflow, raw or replicate data values that were subsequently aggregated or processed for release, or individual outputs from stochastic models.

Metadata

Metadata documenting archived/online data sets of all types listed above will be made available when, or before, the dataset itself is released according to the terms above.
All metadata will be publicly available regardless of any restrictions on access to the data.
All metadata will follow LTER recommended standards and will minimally contain adequate information on proper citation, access, contact information, and discovery. Complete information including methods, structure, semantics, and quality control/assurance is expected for most datasets and is strongly encouraged.
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The access to all LTER data is subject to requirements set forth by this policy document to enable data providers to track usage, evaluate its impact in the community, and confirm users' acceptance of the terms of acceptable use. These requirements are standardized across the LTER Network to provide contractual exchange of data between Site Data Providers, Network Data Providers, and Data Users that can be encoded into electronic form and exchanged between computers. This will allow direct access to data via a common portal once these requirements have been fulfilled. The following information may be required directly or by proxy prior to the transference of any data object:

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1. Name

2. Affiliation

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4. Full Contact Information

Acceptance of the General Public Use Agreement or Restricted Data Use Agreement, as applicable.
A Statement of Intended Use that is compliant with the above agreements. Such statements may be made submitted explicitly or made implicitly via the data access portal interface.

General Data Use Agreement

LUQ  data and metadata is released under public domain:  CC BY – Attribution.

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The consumer of these data (“Data User” herein) has an ethical obligation 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 coauthorship 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.
Disclaimer

While substantial efforts are made to ensure the accuracy of data and documentation contained in this Data Set, complete accuracy of data and metadata cannot be guaranteed. All data and metadata are made available "as is". The Data User holds all parties involved in the production or distribution of the Data Set harmless for damages resulting from its use or interpretation.[current-user:name]

Keywords

By Thesaurus:
Core Areasdisturbance, populations, primary production
LTER Controlled Vocabularyecosystems, terrestrial ecosystems, forest ecosystems, forests, events, disturbances, hurricanes, measurements, ecosystem properties, canopy cover, methods, surveys, organisms, plants, vegetation, canopy gaps, processes, biological processes, life history, growth, plant growth, production, plant growth, scientific activities, modeling, simulation, substances, biological substances, detritus

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:

In each of the five non-destructive (plant) subplots, one 1 x 3.5 m measurement area was established at a random location that was at least 75% boulder-free to measure seedlings (all vascular life forms &lt;1 cm dbh at 1.3 m height). We identify each seedling to species, including trees, shrubs, herbs, vines, palms, orchids, and ferns. Seedlings ≥10 cm tall received a permanent tag, and height and diameter (measured above the root crown) was measured. Seedlings ≤10 cm were identified to species (if possible), counted, and this number was recorded, but were not tagged. Plot cover and litter depth were also measured in the 1 x 3.5 m area. Cover categories included:  litter, rock, bare soil, live trunk, dead trunk, and grass. Canopy photographs were taken with a Nikon Coolpix 4500 camera at 1 m height above, and in the center, of each seedling plot, as well as the corners and center of each 20 x 20 m plot. Photos were analyzed using Gap Light Analyzer, Version 2. Canopy cover and an index of light for each photo were determined.

Instrument(s):&lt;p&gt;Nikon Coolpix 4500 camera&lt;/p&gt;

People and Organizations

Creators:
Individual: Jess Zimmerman
Organization:University of Puerto Rico, Rio Piedras Campus
Address:
University of Puerto Rico at Rio Piedras, Ponce de Leon Ave.,
San Juan, PR 00931 US
Phone:
(787) 764-0000 (voice)
Email Address:
jesskz@ites.upr.edu
Contacts:
Individual: Jess Zimmerman
Organization:University of Puerto Rico, Rio Piedras Campus
Address:
University of Puerto Rico at Rio Piedras, Ponce de Leon Ave.,
San Juan, PR 00931 US
Phone:
(787) 764-0000 (voice)
Email Address:
jesskz@ites.upr.edu
Associated Parties:
Individual: Eda Melendez-Colom
Organization:University of Puerto Rico, Rio Piedras Campus
Address:
University of Puerto Rico at Rio Piedras, Ponce de Leon Ave.,
San Juan, PR 00931 US
Phone:
(787) 764-0000 (voice)
Email Address:
edacorreo@yahoo.com
Role:data manager
Individual: Aaron Shiels
Address:
Department of Botany University of Hawaii at Manoa 3190 Maile Way,
Honolulu, HI 96816 US
Phone:
(808) 956-3938 (voice)
Email Address:
ashiels@lternet.edu
Role:associated researcher
Individual: Jess Zimmerman
Organization:University of Puerto Rico, Rio Piedras Campus
Address:
University of Puerto Rico at Rio Piedras, Ponce de Leon Ave.,
San Juan, PR 00931 US
Phone:
(787) 764-0000 (voice)
Email Address:
jesskz@ites.upr.edu
Role:associated researcher
Individual: Grizelle Gonzalez
Organization:International Institute of Tropical Forestry (IITF), USDA Forest Service
Address:
Int. Inst. of Tropical Forestry / USDA Forest Service Jardín Botánico Sur 1201 Calle Ceiba,
San Juan, PR 00926 US
Phone:
(787) 764-7800 (voice)
Phone:
(787) 766-6302 (facsimile)
Email Address:
ggonzalez@fs.fed.us
Role:associated researcher

Temporal, Geographic and Taxonomic Coverage

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

Time Period
Begin:
2003-06-05
End:
2016-09-12
Sampling Site: 
Description:Puerto Rico 186 Bosque Nacional El Yunque, Rio Grande, Rio Grande 00745, Puerto Rico ‎ 467 m NO
Site Coordinates:
Longitude (degree): -65.8183Latitude (degree): 18.3239
Altitude (meter):343
Sampling Site: 
Description:CTE Block A Plot 2 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8177Latitude (degree): 18.324
Altitude (meter):358
Sampling Site: 
Description:CTE Block A Plot 3 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8179Latitude (degree): 18.3248
Altitude (meter):356
Sampling Site: 
Description:CTE Block A Plot 4 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8175Latitude (degree): 18.3245
Altitude (meter):358
Sampling Site: 
Description:CTE Block B Plot 1 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8141Latitude (degree): 18.3215
Altitude (meter):443
Sampling Site: 
Description:CTE Block B Plot 2 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8136Latitude (degree): 18.3214
Altitude (meter):456
Sampling Site: 
Description:CTE Block B Plot 3 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8132Latitude (degree): 18.3208
Altitude (meter):470
Sampling Site: 
Description:CTE Block B Plot 4 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8127Latitude (degree): 18.3202
Altitude (meter):490
Sampling Site: 
Description:CTE Block C Plot 1 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8136Latitude (degree): 18.3226
Altitude (meter):443
Sampling Site: 
Description:CTE Block C Plot 2 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.813Latitude (degree): 18.3226
Altitude (meter):443
Sampling Site: 
Description:CTE Block C Plot 3 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8124Latitude (degree): 18.3226
Altitude (meter):464
Sampling Site: 
Description:CTE Block C Plot 4 in the Quebrada Prieta Research Area
Site Coordinates:
Longitude (degree): -65.8115Latitude (degree): 18.3232
Altitude (meter):476

Temporal, Geographic and/or Taxonomic information that applies to Data Table: CTE Seedlings Measurements


Time Period
Begin:
2003-06-05
End:
2016-09-12

Temporal, Geographic and/or Taxonomic information that applies to Data Table: CTE Seedling Measurements cover percent


Time Period
Begin:
2003-06-01
End:
2016-09-12

Project

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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