Data Package Metadata   View Summary

Data on specialist and generalist herbivory, environmental variation, and phytochemical similarity from the Atlantic Rainforest of Brazil: 2013-2014

General Information
Data Package:
Local Identifier:edi.806.2
Title:Data on specialist and generalist herbivory, environmental variation, and phytochemical similarity from the Atlantic Rainforest of Brazil: 2013-2014
Alternate Identifier:DOI PLACE HOLDER
Abstract:

What: These are data on specialist and generalist herbivory from naturally occurring Piper plants as well as environmental data collected in 10 m diameter plots across sites in the Atlantic Rainforest of Brazil. Data also include chemical similarity calculated as the Morisita similarity index for species in a given plot and chemical modules that demonstrate classes of compounds that group together and influence herbivory.

Why: Data were collected to understand factors that influence herbivory and tropical forest richness with a particular focus on secondary chemistry metabolomics.

Where: Field sites include São Bento de Sapucaí (-22.8758, -45.8581), Parque Nacional de Itatiaia (-22.3698, -44.6285), Parque Estadual de Intervales (-24.3088, -48.2736), and Parque Estadual de Serra do Mar - Núcleo Pincinguaba (-23.6200, -46.7222).

When: Data were collected in the field from Dec 2013 – May 2014.

How: Field data were collected in 10 m diameter plots centered on randomly located Piper plants. Chemical data come from 1H-NMR metabolomics.

Publication Date:2022-03-28
For more information:
Visit: DOI PLACE HOLDER

Time Period
Begin:
2013-01-01
End:
2015-01-01

People and Organizations
Contact:Massad, Tara J (Gorongosa Project) [  email ]
Creator:Massad, Tara J (Gorongosa Project)
Creator:Richards, Lora A (University of Nevada, Reno)
Creator:Philbin, Casey (University of Nevada, Reno)
Creator:Yamaguchi, Lydia F (Universidade de Sao Paulo)
Creator:Kato, Massuo J (Universidade de Sao Paulo)
Creator:Jeffrey, Christopher S (University of Nevada, Reno)
Creator:Oliveira, Celso (University of Nevada, Reno)
Creator:Ochsenrider, Kaitlin (University of Nevada, Reno)
Creator:De Moraes, Marcilio M (Universidade Federal Rural de Pernambuco)
Creator:Tepe, Eric J (University of Cincinatti)
Creator:Torrejon, Gerardo C (Université des Antilles)
Creator:Sandivo, McKenzie (University of Nevada, Reno)
Creator:Dyer, Lee A (University of Nevada, Reno)

Data Entities
Data Table Name:
Atlantic Rainforest Piper herbivory, environmental, and chemistry data
Description:
Piper herbivory, environmental variation, chemical similarity
Detailed Metadata

Data Entities


Data Table

Data:https://pasta-s.lternet.edu/package/data/eml/edi/806/2/b86c45f9fbcdf0784695a3f58ccee3d1
Name:Atlantic Rainforest Piper herbivory, environmental, and chemistry data
Description:Piper herbivory, environmental variation, chemical similarity
Number of Records:1354
Number of Columns:24

Table Structure
Object Name:atl_rf_nmr_piper_data.csv
Size:241095 bytes
Authentication:400e8aedce1b666c636ef8441b69c232 Calculated By MD5
Text Format:
Number of Header Lines:1
Record Delimiter:\r\n
Orientation:column
Simple Delimited:
Field Delimiter:,

Table Column Descriptions
 
Column Name:date  
plot  
location  
num_piper_ind_plot  
num_piper_sp_plot  
piper_sp  
specialist_herb  
generalist_herb  
total_herb  
nlvs  
ave lf area  
lfarea  
slope  
light  
ca_ave  
k_ave  
mg_ave  
na_ave  
p_ave  
per_c_ave  
per_n_ave  
plot_morisita_ds5  
spbyplot_morisita_ds5  
df5_d_entropy  
Definition:Day, month, yearNumber assigned to plotStudy siteNumber of Piper plants in plotNumber of Piper spp in plotSpecies name% specialist herbivory% generalist herbivory% total herbivoryNumber of leaves on plantAverage leaf area of given species in siteAverage leaf area * number of leavesEstimated slope of plot% canopy opennessAverage concentration of CaAverage concentration of KAverage concentration of MgAverage concentration of NaAverage concentration of pAverage % C in plotAverage % N in plotMorisita similarity index for all NMR peaks downfield of 5 calculated for all Piper in a plotMorisita similarity index for all NMR peaks downfield of 5 calculated for each species in a plotSimpson's index of species equivalents calculated with all NMR peaks downfield of 5 for each individual plant
Storage Type:date  
string  
string  
float  
float  
string  
float  
float  
float  
float  
string  
string  
string  
float  
string  
string  
string  
string  
string  
float  
float  
float  
float  
float  
Measurement Type:dateTimenominalnominalratiorationominalratioratioratiorationominalnominalnominalrationominalnominalnominalnominalnominalratioratioratioratioratio
Measurement Values Domain:
FormatYYYY-MM-DD
Precision
DefinitionNumber assigned to plot
DefinitionStudy site
Unitnumber
Typenatural
Min
Max222 
Unitnumber
Typenatural
Min
Max10 
DefinitionSpecies name
Unitpercent
Typereal
Min
Max58.33333333 
Unitpercent
Typereal
Min
Max71.42857143 
Unitpercent
Typereal
Min
Max82.85714286 
Unitnumber
Typereal
Min
Max1584 
DefinitionAverage leaf area of given species in site
DefinitionAverage leaf area * number of leaves
DefinitionEstimated slope of plot
Unitpercent
Typereal
Min5.98 
Max30.68 
DefinitionAverage concentration of Ca
DefinitionAverage concentration of K
DefinitionAverage concentration of Mg
DefinitionAverage concentration of Na
DefinitionAverage concentration of p
Unitpercent
Typereal
Min1.623333333 
Max10.48 
Unitpercent
Typereal
Min0.133333333 
Max0.906666667 
Unitdimensionless
Typereal
Min0.352 
Max0.924 
Unitdimensionless
Typereal
Min0.188 
Max0.998 
Unitdimensionless
Typereal
Min2.44 
Max28.8 
Missing Value Code:
CodeNA
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Explmissing value
Accuracy Report:                                                
Accuracy Assessment:                                                
Coverage:                                                
Methods:                                                

Data Package Usage Rights

This data package is released to the "public domain" under Creative Commons CC0 1.0 "No Rights Reserved" (see: https://creativecommons.org/publicdomain/zero/1.0/). It is considered professional etiquette to provide attribution of the original work if this data package is shared in whole or by individual components. A generic citation is provided for this data package on the website https://portal.edirepository.org (herein "website") in the summary metadata page. Communication (and collaboration) with the creators of this data package is recommended to prevent duplicate research or publication. This data package (and its components) is made available "as is" and with no warranty of accuracy or fitness for use. The creators of this data package and the website shall not be liable for any damages resulting from misinterpretation or misuse of the data package or its components. Periodic updates of this data package may be available from the website. Thank you.

Keywords

By Thesaurus:
(No thesaurus)Atlantic Rainforest, metabolomics, NMR, phytochemical similarity, plant-insect interactions, tropical forest richness
LTER Controlled Vocabularyherbivore, light, nutrients

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:

Field methods. Tropical understory plant communities were studied across four subtropical humid Atlantic Rainforest remnants in southeastern Brazil. Twenty-one plots measuring 10 m in diameter were established at least 10 m from any forest edge, including trails and streams. Plots were centered on a randomly selected Piper individual, and all Piper individuals within the plots were marked and identified to species or morphospecies based on leaf and stem morphology. All leaves within reach were exhaustively searched for herbivores. Piper hosts many insect herbivores, including Eois (Geometridae) caterpillars that specialize on Piper but may feed on multiple species within the genus, Curculionidae and Chrysomelidae that specialize on the genus, other Lepidoptera that may be specialists (e.g., Memphis (Nymphalidae) or generalists (e.g., Erebidae) and Orthoptera generalists. Percent herbivory was visually determined on all Piper individuals, and specialist and generalist damage were separated as accurately as possible. In general, damage originating at leaf margins was classified as generalist herbivory; damage in the center of leaves characteristic of specialist chrysomelid and curculionid beetles and characteristic ‘windows’ created by Eois were categorized as specialist herbivory. The number of leaves on each plant was recorded, and ten leaves per species per plot were measured to determine the leaf area of each species in a plot. Non-Piper morphospecies with leaves between 50 cm and 2 m aboveground were counted in each plot to determine understory richness; morphospecies were differentiated based on leaf and stem morphology. Canopy openness was measured in the center of the plot using a convex spherical crown densitometer (Forestry Suppliers, Model A). Three soil samples from the top 20 cm of soil were randomly collected from each plot and analyzed for N, C, Ca, K, Mg, and P in the Analytical Center at the University of São Paulo using standard protocols (http://ca.iq.usp.br/novo/). C and N were measured as percentages; Ca, K, Mg, Na, and P were quantified as mg/kg soil. The sum of bases (Ca, K, Mg, and Na) was tested in analyses.

Chemical analysis. Immature and mature leaves with and without herbivory were collected from each Piper individual whenever possible. Leaves were air dried and brought to the lab for chemical extraction. Dry leaf samples were weighed into 2.0 mL Eppendorf tubes (200 mg; midveins were not included). Mature leaves with herbivory were preferentially extracted because they represented the most common sampling category (n = 433). However, many samples were from mature leaves without herbivory (n = 321). Some individuals only had immature leaves; there were 17 immature leaf samples with and 24 samples without herbivory.

Steel ball bearings were added to the Eppendorf tubes, samples were dipped in liquid N2 and vortexed to grind the leaves. MeOH:H2O (1:1; 0.75 mL) and CHCl3 (0.75 mL) were added to the samples, and they were vortexed for 5 min. Samples were then centrifuged for 10 min at 10,000 RPM. The aqueous and CHCl3 phases were separated by pipetting, and samples were re-extracted. The MeOH:H2O layer was dried under N2, and the CHCl3 was evaporated under a fume hood. The CHCl3 crude extract was prepared for 1H-NMR analysis, this extract provided clean spectra containing a broad range of secondary metabolites.

Chloroform extracts were dissolved in 0.8 mL of methanol-d4 (Cambridge Isotope Laboratories Inc. 0.05% v/v TMS), and 1H-NMR spectra were acquired (400 MHz; 512 scans) on a Varian 400-NMR spectrometer. 1H-NMR spectra provide both structural and compositional chemical information. Spectra were processed using MestReNova v8.1.2 by aligning stacked spectra using the methanol-d4 solvent peak (CD3, 3.31 ppm), automatic global phasing, Whittaker baseline correction, total area normalization and subsequent average sum binning from δ 0.5-12 at δ 0.04 intervals. Solvent and internal standard regions were excised from spectra (-1-0.5, TMS; 3.1-3.5, CD3OD; δ 4.5-5.1, D2O) before exporting tabular data for statistical analysis.

People and Organizations

Publishers:
Organization:Environmental Data Initiative
Email Address:
info@environmentaldatainitiative.org
Web Address:
https://environmentaldatainitiative.org
Id:https://ror.org/0330j0z60
Creators:
Individual: Tara J Massad
Organization:Gorongosa Project
Email Address:
tmassad77@gmail.com
Individual: Lora A Richards
Organization:University of Nevada, Reno
Email Address:
lora.richrds@gmail.com
Individual: Casey Philbin
Organization:University of Nevada, Reno
Email Address:
philbin.9@gmail.com
Individual: Lydia F Yamaguchi
Organization:Universidade de Sao Paulo
Email Address:
lydyama@gmail.com
Individual: Massuo J Kato
Organization:Universidade de Sao Paulo
Email Address:
massuojorge@gmail.com
Individual: Christopher S Jeffrey
Organization:University of Nevada, Reno
Email Address:
cjeffrey@unr.edu
Individual: Celso Oliveira
Organization:University of Nevada, Reno
Email Address:
celso.chemistry@gmail.com
Individual: Kaitlin Ochsenrider
Organization:University of Nevada, Reno
Email Address:
kmox55@gmail.com
Individual: Marcilio M De Moraes
Organization:Universidade Federal Rural de Pernambuco
Email Address:
marciliomartins14@yahoo.com.br
Individual: Eric J Tepe
Organization:University of Cincinatti
Email Address:
tepeej@ucmail.uc.edu
Individual: Gerardo C Torrejon
Organization:Université des Antilles
Email Address:
cebrian.torrejon@gmail.com
Individual: McKenzie Sandivo
Organization:University of Nevada, Reno
Email Address:
kenzshipman@aol.com
Individual: Lee A Dyer
Organization:University of Nevada, Reno
Email Address:
nolaclimber@gmail.com
Contacts:
Individual: Tara J Massad
Organization:Gorongosa Project
Email Address:
tmassad77@gmail.com

Temporal, Geographic and Taxonomic Coverage

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

Time Period
Begin:
2013-01-01
End:
2015-01-01
Geographic Region:
Description:Atlantic Rainforest
Bounding Coordinates:
Northern:  -22.8758Southern:  -24.3088
Western:  -48.2736Eastern:  -44.6285
Taxonomic Range:
Classification:
Rank Value:Piperaceae gaudichaudianum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae lhotzkyanum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae cubataonum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae hispidum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae pilosa
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae hillianum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae round leaf tiny maybe young solmsianum or truncatum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae transluscens
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae solmsianum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae chimonanthifolium
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae corintoanum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae longglossy
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae manekia
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae NA
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae truncatum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae cernuum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae lagoaense
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae richardifolium
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae caudensis
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae malacophyllum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae mollicomun
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae schenckii
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae 1974
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae 1975
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae arboreum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae crassinervum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae lepturum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae rounded leaf very indented veins seedling
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae dilatatum
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae acute
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae elongate
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae ovalelongate
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae asymmetrical
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae biground
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae cordate
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae longthin
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae smooth glossy cordate
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae evenbase
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae hermmendorfii
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae overlapping
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae biglf
Identifer:itis
ID:
Classification:
Rank Value:Piperaceae verylongpetiole
Identifer:itis
ID:

Project

Parent Project Information:

Title:No project title to report
Personnel:
Individual: Massuo J Kato
Organization:Universidade de Sao Paulo
Email Address:
massuojorge@gmail.com
Role:Principal Investigator
Funding: FAPESP 2014/23417-7
Related Project:
Title:No project title to report
Personnel:
Individual: Massuo J Kato
Organization:Universidade de Sao Paulo
Email Address:
massuojorge@gmail.com
Role:Principal Investigator
Funding: FAPESP 2014/50316-7

Maintenance

Maintenance:
Description:completed
Frequency:
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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