10.5281/zenodo.2530798
https://zenodo.org/records/2530798
oai:zenodo.org:2530798
Rafael Poyatos
Rafael Poyatos
0000-0003-0521-2523
CREAF
Víctor Granda
Víctor Granda
0000-0002-0469-1991
CREAF
Víctor Flo
Víctor Flo
0000-0003-1908-4577
CREAF
Roberto Molowny-Horas
Roberto Molowny-Horas
0000-0003-2626-6379
CREAF
Kathy Steppe
Kathy Steppe
0000-0001-6252-0704
Ghent University
Maurizio Mencuccini
Maurizio Mencuccini
0000-0003-0840-1477
ICREA/CREAF
Jordi Martínez-Vilalta
Jordi Martínez-Vilalta
0000-0002-2332-7298
CREAF/Universitat Autònoma de Barcelona
SAPFLUXNET: A global database of sap flow measurements
Zenodo
2019
drought
ecophysiology
plant hydraulics
sap flux
transpiration
Adams, Mark
Mark
Adams
University of Sydney
Adorján, Balázs
Balázs
Adorján
University of Debrecen, Department of Botany
Aguadé, David
David
Aguadé
CREAF
Aidar, Marcos P.M.
Marcos P.M.
Aidar
Instituto de Botânica de São Paulo, Brazil
Allen, Scott
Scott
Allen
ETH Zurich
Alvarado, Susana
Susana
Alvarado
Instituto de Ecología A.C., Red de Ecología Funcional
Anderson-Teixeira, Kristina
Kristina
Anderson-Teixeira
Smithsonian Conservation Biology Insitute - Conservation Ecology Center
Aparecido, Luiza Maria
Luiza Maria
Aparecido
Texas A&M University
Arain, Altaf
Altaf
Arain
McMaster University, Canada
Aranda, Ismael
Ismael
Aranda
INIA
Asbjornsen, Heidi
Heidi
Asbjornsen
University of New Hampshire
Baxter, Robert
Robert
Baxter
School of Biological and Biomedical Sciences, University of Durham, UK
Beamesderfer, Eric
Eric
Beamesderfer
McMaster University
Berry, Carter
Carter
Berry
University of New Hampshire
Berveiller, Daniel
Daniel
Berveiller
CNRS
Blakely, Bethany
Bethany
Blakely
University of Minnesota
Boegelein, Rebekka
Rebekka
Boegelein
Faculty of Regional and Environmental Sciences - Geobotany, University of Trier
Boggs, Johnny
Johnny
Boggs
USDA Forest Service
Bohrer, Gil
Gil
Bohrer
Ohio State University
Bolstad, Paul
Paul
Bolstad
University of Minnesota
Bonal, Damien
Damien
Bonal
INRA, UMR EEF
Bracho, Rosvel
Rosvel
Bracho
University of Florida
Brito, Patricia
Patricia
Brito
Dpt. Plant Biology, Universidad de La Laguna (ULL), tenerife, Spain
Brodeur, Jason
Jason
Brodeur
McMaster University
Casanoves, Fernando
Fernando
Casanoves
CATIE
Chave, Jérôme
Jérôme
Chave
CNRS
Cisneros, Cesar
Cesar
Cisneros
University of Twente
Clark, Kenneth
Kenneth
Clark
US Forest Service
Cremonese, Edoardo
Edoardo
Cremonese
Environmental Protection Agency of Aosta Valley (ARPA VdA)
Dang, Hongzhong
Hongzhong
Dang
Chinese Academy of Forestry
David, Jorge
Jorge
David
ISA/ULisboa
David, Teresa
Teresa
David
INIAV IP
Delpierre, Nicolas
Nicolas
Delpierre
Université Paris-Sud
Desai, Ankur
Ankur
Desai
University of Wisconsin
Do, Frederic C.
Frederic C.
Do
IRD
Dohnal, Michal
Michal
Dohnal
CTU in Prague
Domec , Jean-Christophe
Jean-Christophe
Domec
Duke University
Dzikiti, Sebinasi
Sebinasi
Dzikiti
CSIR
Edgar, Colin
Colin
Edgar
University of Alaska Fairbanks
Elbers, Jan
Jan
Elbers
Alterra, Wageningen UR
Eller, Cleiton
Cleiton
Eller
University of Campinas
Ellsworth, David
David
Ellsworth
Western Sydney University
El-Madany, Tarek S.
Tarek S.
El-Madany
Max Planck Institute for Biogeochemestry
Euskirchen, Eugénie
Eugénie
Euskirchen
University of Alaska Fairbanks
Ewers, Brent
Brent
Ewers
University of Wyoming
Fonti, Patrick
Patrick
Fonti
Swiss Federal Research Institute for Forest, Snow and Landscape Research (WSL)
Forner, Alicia
Alicia
Forner
MNCN – CSIC
Forrester, David
David
Forrester
Swiss Federal Institute for Forest, Snow and Landscape
Freitas, Helber
Helber
Freitas
Laboratório de Clima e Biosfera do IAG-USP, Brazil
Galvagno, Marta
Marta
Galvagno
Environmental Protection Agency of Aosta Valley (ARPA VdA)
Garcia-Tejera, Omar
Omar
Garcia-Tejera
Institute for Sustainable Agriculture (IAS-CSIC)
Ghimire, Chandra Prasad
Chandra Prasad
Ghimire
University of Twente, Enschede, The Netherlands
Gimeno, Teresa
Teresa
Gimeno
INRA
Grace, John
John
Grace
University of Edinburgh
Granier, André
André
Granier
INRA
Griebel, Anne
Anne
Griebel
The University of Melbourne
Guangyu, Yan
Yan
Guangyu
MECWE-Xiamen university
Gush, Mark
Mark
Gush
CSIR
Hanson, Paul
Paul
Hanson
Oak Ridge National Laboratory
Hasselquist, Niles
Niles
Hasselquist
Swedish University of Agricultural Sciences (SLU)
Heinrich, Ingo
Ingo
Heinrich
Helmholtz Centre Potsdam
Hernandez-Santana, Virginia
Virginia
Hernandez-Santana
Instituto de recursos naturales y agrobiología de Sevilla (IRNAS)-CSIC
Herrmann, Valentine
Valentine
Herrmann
Smithsonian Conservation Biology Insitute - Conservation Ecology Center
Hölttä, Teemu
Teemu
Hölttä
Forest Sciences, University of Helsinki
Holwerda, Friso
Friso
Holwerda
Universidad Nacional Autónoma de México, Centro de Ciencias de la Atmósfera
hui, Chen
Chen
hui
Tsinghua
Irvine, James
James
Irvine
Yellowstone Ecological Research Centre
Isarangkool na Ayutthaya, Supat
Supat
Isarangkool na Ayutthaya
KKU
Jarvis, Paul
Paul
Jarvis
University of Edinburgh
Jochheim, Hubert
Hubert
Jochheim
ZALF Müncheberg
Joly, Carlos A.
Carlos A.
Joly
Unicamp, Brazil
Kaplick, Julia
Julia
Kaplick
University of Auckland
Kim, Hyun Seok
Hyun Seok
Kim
Seoul National University
Klemedtsson, Leif
Leif
Klemedtsson
Dept. of Earth Sciences, University of Gothenburg
Kropp, Heather
Heather
Kropp
Colgate University
Lagergren, Fredrik
Fredrik
Lagergren
Physical Geography and Ecosystem Science, Lund University
Lane, Patrick
Patrick
Lane
The University of Melbourne
Lang, Petra
Petra
Lang
University of Trier, Faculty of Regional and Environmental Sciences, Geobotany
Lapenas, Andrei
Andrei
Lapenas
University at Albany, SUNY
Lechuga, Víctor
Víctor
Lechuga
Universidad de Jaén
Lee, Minsu
Minsu
Lee
Seoul National University
Leuschner, Christoph
Christoph
Leuschner
University of Göttingen
Limousin, Jean-Marc
Jean-Marc
Limousin
CEFE CNRS, Montpellier
Linares, Juan Carlos
Juan Carlos
Linares
Universidad Pablo de Olavide
Linderson, Maj-Lena
Maj-Lena
Linderson
Dept. of Physical Geography and Ecosystem Science, Lund University
Lindroth, Anders
Anders
Lindroth
Physical Geography and Ecosystem Science, Lund University
Llorens, Pilar
Pilar
Llorens
IDAEA-CSIC
Lopez-Bernal, Alvaro
Alvaro
Lopez-Bernal
University of Córdoba
Loranty, Michael
Michael
Loranty
Colgate University
Lüttschwager, Dietmar
Dietmar
Lüttschwager
ZALF Müncheberg
Macinnis-Ng, Cate
Cate
Macinnis-Ng
University of Auckland
Maréchaux, Isabelle
Isabelle
Maréchaux
CNRS
Martin, Timothy
Timothy
Martin
University of Florida
Martínez-Vilalta, Jordi
Jordi
Martínez-Vilalta
CREAF
Matheny, Ashley
Ashley
Matheny
Ohio State University, University of Texas at Austin
McDowell, Nate
Nate
McDowell
Los Alamos National Laboratory (LANL), USA
McMahon, Sean
Sean
McMahon
Smithsonian Environmental Research Center
Meir, Patrick
Patrick
Meir
ANU / University of Edinburgh
Mencuccini, Maurizio
Maurizio
Mencuccini
ICREA-CREAF
Mészáros, Ilona
Ilona
Mészáros
University of Debrecen, Department of Botany
Migliavacca, Mirco
Mirco
Migliavacca
Max Planck Institute for Biogeochemestry
Mitchell, Patrick
Patrick
Mitchell
CSIRO
Mölder, Meelis
Meelis
Mölder
Physical Geography and Ecosystem Science, Lund University
Montagnani, Leonardo
Leonardo
Montagnani
Free University of Bolzano/Bozen
Moore, Georgianne
Georgianne
Moore
Texas A&M University
Nakada, Ryogo
Ryogo
Nakada
Hokkaido Regional Breeding Office, Forest Tree Breeding Center, Forestry and Forest Products Research Institute
Niu, Furong
Furong
Niu
University of Göttingen
Nolan, Rachael
Rachael
Nolan
University of Technology Sydney
Norby, Rich
Rich
Norby
Oak Ridge National Laboratory
Novick, Kimberly
Kimberly
Novick
Indiana University Bloomington
Oberhuber, Walter
Walter
Oberhuber
Botany University Innsbruck
Obojes, Nikolaus
Nikolaus
Obojes
Eurac Research
Oishi, A. Christopher
A. Christopher
Oishi
USDA Forest Service, Southern Research Station, Coweeta Hydrologic Laboratory
Oliveira, Rafael
Rafael
Oliveira
University of Campinas
Oren, Ram
Ram
Oren
Duke University
Ourcival, Jean-Marc
Jean-Marc
Ourcival
CEFE CNRS, Montpellier
Paljakka, Teemu
Teemu
Paljakka
Forest Sciences, University of Helsinki
Perez-Priego, Oscar
Oscar
Perez-Priego
Max Planck Institute for Biogeochemestry
Peri, Pablo
Pablo
Peri
Instituto Nacional de Tecnología Agropecuaria
Peters, Richard L.
Richard L.
Peters
Swiss Federal Research Institute for Forest, Snow and Landscape Research (WSL)
Pfautsch, Seabstian
Seabstian
Pfautsch
University of Sydney
Pockman, William
William
Pockman
Department of Biology, University of New Mexico, USA
Poyatos, Rafael
Rafael
Poyatos
CREAF
Preisler, Yakir
Yakir
Preisler
WIS
Rascher, Katherine
Katherine
Rascher
NA
Robinson, George
George
Robinson
University at Albany, SUNY
Rocha, Humberto
Humberto
Rocha
USP
Rocheteau, Alain
Alain
Rocheteau
IRD
Röll, Alexander
Alexander
Röll
University of Göttingen
Rosado, Bruno
Bruno
Rosado
UERJ
Rowland, Lucy
Lucy
Rowland
University of Exeter
Rubtsov, Alexey
Alexey
Rubtsov
Sukachev Institute of forest SB RAS
Sabaté, Santiago
Santiago
Sabaté
University of Barcelona
Salmon, Yann
Yann
Salmon
University of Edinburgh / University of Helsinki
Salomón, Roberto Luis
Roberto Luis
Salomón
Universidad Politécnica de Madrid
Sánchez-Costa, Elisenda
Elisenda
Sánchez-Costa
IDAEA-CSIC
Schäfer, Karina
Karina
Schäfer
Rutgers University Newark
Schuldt, Bernhard
Bernhard
Schuldt
University of Göttingen
Shashkin, Alexandr
Alexandr
Shashkin
Sukachev Institute of forest SB RAS
Stahl, Clément
Clément
Stahl
INRA, UMR Ecofog
Stojanović, Marko
Marko
Stojanović
Global Change Research Institute CAS
Suárez Salazar, Juan Carlos
Juan Carlos
Suárez Salazar
UNIVERSIDAD DE LA AMAZONIA
Sun, Ge
Ge
Sun
USDA Forest Service
Szatniewska, Justyna
Justyna
Szatniewska
Global Change Research Institute CAS
Tatarinov, Fyodor
Fyodor
Tatarinov
WIS
Tesař, Miroslav
Miroslav
Tesař
IH CAS
Thomas, Frank M.
Frank M.
Thomas
University of Trier, Faculty of Regional and Environmental Sciences, Geobotany
Tor-ngern, Pantana
Pantana
Tor-ngern
Chulalongkorn University
Urban, Josef
Josef
Urban
Mendel University in Brno
Valladares, Fernando
Fernando
Valladares
MNCN – CSIC
van der Tol, Christiaan
Christiaan
van der Tol
NA
van Meerveld, H.J. (Ilja)
H.J. (Ilja)
van Meerveld
University of Zurich, Zurich, Switzerland
Varlagin, Andrej
Andrej
Varlagin
A.N. Severtsov Institute of Ecology and Evolution RAS
Voigt, Holm
Holm
Voigt
University of Bonn
Warren, Jeffrey
Jeffrey
Warren
Oak Ridge National Laboratory
Werner, Willy
Willy
Werner
Faculty of Regional and Environmental Sciences - Geobotany, University of Trier
Werner, Christiane
Christiane
Werner
Universität Freiburg
Wieser, Gerhard
Gerhard
Wieser
Dpt. Alpine Timberline Ecophysiology,BFW, Innsnruck, Austria
Wingate, Lisa
Lisa
Wingate
INRA
Wullschleger, Stan
Stan
Wullschleger
Oak Ridge National Laboratory
Yi, Koong
Koong
Yi
Indiana University Bloomington
Zweifel, Roman
Roman
Zweifel
WSL, Birmensdorf, Switzerland
2019-03-05
10.5281/zenodo.2530797
0.1.3
Creative Commons Attribution 4.0 International
General description
SAPFLUXNET contains a global database of sap flow and environmental data, together with metadata at different levels.
SAPFLUXNET is a harmonised database, compiled from contributions from researchers worldwide. This first version contains more than 200 datasets, from all over the World, covering a broad range of bioclimatic conditions.
More information on the coverage can be found here: http://sapfluxnet.creaf.cat/shiny/sfn_progress_dashboard/. Please note that, according to the data policy (http://sapfluxnet.creaf.cat/data_policy/), the SAPFLUXNET database will remain under restricted access during one year after its initial publication, and will only be available for data contributors.
The SAPFLUXNET project has been developed by researchers at CREAF and other institutions (http://sapfluxnet.creaf.cat/#team), coordinated by Rafael Poyatos (CREAF, http://www.creaf.cat/staff/rafael-poyatos-lopez), and initially funded by a Spanish Young Researcher's Grant (MINECO-MICINN, CGL2014-55883-JIN).
Variables and units
SAPFLUXNET contains whole-plant sap flow and environmental variables at sub-daily temporal resolution. Both sap flow and environmental time series have accompanying flags in a data frame, one for sap flow and another for environmental
variables. These flags store quality issues detected during the quality control process and can be used to add further quality flags.
Metadata contain relevant variables informing about site conditions, stand characteristics, tree and species attributes, sap flow methodology and details on environmental measurements. To learn more about variables, units and data flags please use the functionalities implemented in the sapfluxnetr package (https://github.com/sapfluxnet/sapfluxnetr). In particular, have a look at the package vignettes using R:
# remotes::install_github(
# 'sapfluxnet/sapfluxnetr',
# build_opts = c("--no-resave-data", "--no-manual", "--build-vignettes")
# )
library(sapfluxnetr)
# to list all vignettes
vignette(package='sapfluxnetr')
# variables and units
vignette('metadata-and-data-units', package='sapfluxnetr')
# data flags
vignette('data-flags', package='sapfluxnetr')
Data formats
SAPFLUXNET data can be found in two formats: 1) RData files belonging to the custom-built 'sfn_data' class and 2) Text files in .csv format. We recommend using the sfn_data objects together with the sapfluxnetr package, although we also provide the text files for convenience. For each dataset, text files are structured in the same way as the slots of sfn_data objects; if working with text files, we recommend that you check the data structure of 'sfn_data' objects in the corresponding vignette.
Working with sfn_data files
To work with SAPFLUXNET data, first they have to be downloaded from Zenodo, maintaining the folder structure. A first level in the folder hierarchy corresponds to file format, either RData files or csv's. A second level corresponds to how sap flow is expressed: per plant, per sapwood area or per leaf area. Please note that interconversions among the magnitudes have been performed whenever possible. Below this level, data have been organised per dataset. In the case of RData files, each dataset is contained in a sfn_data object, which stores all data and metadata in different slots (see the vignette 'sfn-data-classes'). In the case of csv files, each dataset has 9 individual files, corresponding to metadata (5), sap flow and environmental data (2) and their corresponding data flags (2).
After downloading the entire database, the sapfluxnetr package can be used to:
- Work with data from a single site: data access, plotting and time aggregation.
- Select the subset datasets to work with.
- Work with data from multiple sites: data access, plotting and time aggregation.
Please check the following package vignettes to learn more about how to work with sfn_data files:
Quick guide
Metadata and data units
sfn_data classes
Custom aggregation
Memory and parallelization
Working with text files
We recommend to work with sfn_data objects using R and the sapfluxnetr package and we do not currently provide code to work with text files.
Restricted access to data contributors
According to the SAPFLUXNET data policy (http://sapfluxnet.creaf.cat/data_policy/), the database will remain under restricted access during one year after its initial release. If you are a SAPFLUXNET data contributor, please see the 'Conditions' section below to request access to the database.