AusTraits: a curated plant trait database for the Australian flora

  • Daniel Falster (Creator)
  • Rachael Gallagher (Creator)
  • Elizabeth H. Wenk (Creator)
  • Mark A. Adams (Creator)
  • Collin W. Ahrens (Creator)
  • Matthew Alfonzetti (Creator)
  • Tara Angevin (Creator)
  • Deborah Mattos Guimarães Apgaua (Creator)
  • Stefan K. Arndt (Creator)
  • Owen K. Atkin (Creator)
  • Joe Atkinson (Creator)
  • Tony Auld (Creator)
  • Andrew Baker (Creator)
  • Maria von Balthazar (Creator)
  • Anthony Bean (Creator)
  • Chris J. Blackman (Creator)
  • Keith Bloomfield (Creator)
  • David M. J. S. Bowman (Creator)
  • Jason Bragg (Creator)
  • Timothy J. Brodribb (Creator)
  • Genevieve Buckton (Creator)
  • Geoff Burrows (Creator)
  • Elizabeth Caldwell (Creator)
  • James Camac (Creator)
  • Raymond Carpenter (Creator)
  • Jane A. Catford (Creator)
  • Gregory R. Cawthray (Creator)
  • Lucas A. Cernusak (Creator)
  • Gregory Chandler (Creator)
  • Alex R. Chapman (Creator)
  • David Cheal (Creator)
  • Si Chong Chen (Creator)
  • Brendan Choat (Creator)
  • Brook Clinton (Creator)
  • Peta L. Clode (Creator)
  • Helen Coleman (Creator)
  • William K. Cornwell (Creator)
  • Meredith Cosgrove (Creator)
  • Michael Crisp (Creator)
  • Erika Cross (Creator)
  • Kristine Y. Crous (Creator)
  • Saul A. Cunningham (Creator)
  • Timothy Curran (Creator)
  • Ellen Curtis (Creator)
  • Jane L. DeGabriel (Creator)
  • Matthew Denton-Giles (Creator)
  • Ning Dong (Creator)
  • Pengzhen Du (Creator)
  • Honglang Duan (Creator)
  • David H. Duncan (Creator)
  • R.P. Duncan (Creator)
  • Marco Duretto (Creator)
  • John M. Dwyer (Creator)
  • Cheryl Edwards (Creator)
  • Manuel Esperon-Rodriguez (Creator)
  • John R. Evans (Creator)
  • Susan E. Everingham (Creator)
  • Claire Farrell (Creator)
  • Jennifer Firn (Creator)
  • Carlos Roberto Fonseca (Creator)
  • Ben J. French (Creator)
  • Doug Frood (Creator)
  • Jennifer L. Funk (Creator)
  • Sonya R. Geange (Creator)
  • Oula Ghannoum (Creator)
  • Sean M. Gleason (Creator)
  • Carl R. Gosper (Creator)
  • Emma Gray (Creator)
  • Philip K. Groom (Creator)
  • Saskia Grootemaat (Creator)
  • Caroline Gross (Creator)
  • Greg R. Guerin (Creator)
  • Lydia Guja (Creator)
  • Amy K. Hahs (Creator)
  • Matthew Tom Harrison (Creator)
  • Patrick E. Hayes (Creator)
  • Martin Henery (Creator)
  • Dieter F. Hochuli (Creator)
  • Jocelyn Howell (Creator)
  • Guomin Huang (Creator)
  • Lesley Hughes (Creator)
  • John Huisman (Creator)
  • Jugoslav Ilic (Creator)
  • Ashika Jagdish (Creator)
  • Daniel Jin (Creator)
  • Gregory Jordan (Creator)
  • Enrique Jurado (Creator)
  • John Kanowski (Creator)
  • Sabine Kasel (Creator)
  • Jürgen Kellermann (Creator)
  • Belinda Kenny (Creator)
  • Michele Kohout (Creator)
  • Robert M. Kooyman (Creator)
  • Martyna M. Kotowska (Creator)
  • Hao Ran Lai (Creator)
  • Etienne Laliberté (Creator)
  • Hans Lambers (Creator)
  • Byron B. Lamont (Creator)
  • Robert Lanfear (Creator)
  • Frank van Langevelde (Creator)
  • Daniel C. Laughlin (Creator)
  • Bree Anne Laugier-Kitchener (Creator)
  • Susan G. Laurance (Creator)
  • Caroline E.R. Lehmann (Creator)
  • Andrea Leigh (Creator)
  • Michelle R. Leishman (Creator)
  • Tanja Lenz (Creator)
  • Brendan Lepschi (Creator)
  • James D. Lewis (Creator)
  • Felix K.S. Lim (Creator)
  • Udayangani Liu (Creator)
  • Janice Lord (Creator)
  • C.H. Lusk (Creator)
  • Cate Macinnis-Ng (Creator)
  • Hannah McPherson (Creator)
  • Susana Magallón (Creator)
  • Anthony Manea (Creator)
  • Andrea López-Martinez (Creator)
  • Margaret M. Mayfield (Creator)
  • James K. McCarthy (Creator)
  • Trevor Meers (Creator)
  • Marlien van der Merwe (Creator)
  • Daniel J. Metcalfe (Creator)
  • Per Milberg (Creator)
  • Karel Mokany (Creator)
  • Angela T. Moles (Creator)
  • Ben D. Moore (Creator)
  • Nicholas Moore (Creator)
  • John W. Morgan (Creator)
  • William Morris (Creator)
  • Annette Muir (Creator)
  • Samantha Munroe (Creator)
  • Áine Nicholson (Creator)
  • Dean Nicolle (Creator)
  • Adrienne B. Nicotra (Creator)
  • Ülo Niinemets (Creator)
  • Tom North (Creator)
  • Andrew O’Reilly-Nugent (Creator)
  • Odhran S. O’Sullivan (Creator)
  • Brad Oberle (Creator)
  • Yusuke Onoda (Creator)
  • Mark K.J. Ooi (Creator)
  • Colin P. Osborne (Creator)
  • Grazyna Paczkowska (Creator)
  • Burak Pekin (Creator)
  • Caio Guilherme Pereira (Creator)
  • Catherine Pickering (Creator)
  • Melinda Pickup (Creator)
  • Laura J. Pollock (Creator)
  • Pieter Poot (Creator)
  • Jeff R. Powell (Creator)
  • Sally A. Power (Creator)
  • Iain Colin Prentice (Creator)
  • Lynda D. Prior (Creator)
  • Suzanne M. Prober (Creator)
  • Jennifer Read (Creator)
  • Victoria Reynolds (Creator)
  • Anna E. Richards (Creator)
  • Ben Richardson (Creator)
  • Michael L. Roderick (Creator)
  • Julieta A. Rosell (Creator)
  • Maurizio Rossetto (Creator)
  • Barbara Rye (Creator)
  • Paul D. Rymer (Creator)
  • Michael A. Sams (Creator)
  • Gordon Sanson (Creator)
  • Hervé Sauquet (Creator)
  • Susanne Schmidt (Creator)
  • Jürg Schönenberger (Creator)
  • Ernst Detlef Schulze (Creator)
  • Kerrie Sendall (Creator)
  • Steve Sinclair (Creator)
  • B. Smith (Creator)
  • Renee A. Smith (Creator)
  • Fiona Soper (Creator)
  • Ben Sparrow (Creator)
  • Rachel J. Standish (Creator)
  • Timothy L. Staples (Creator)
  • Ruby Stephens (Creator)
  • Christopher Szota (Creator)
  • Guy Taseski (Creator)
  • Elizabeth Tasker (Creator)
  • Freya Thomas (Creator)
  • David T. Tissue (Creator)
  • Mark G. Tjoelker (Creator)
  • David Yue Phin Tng (Creator)
  • Félix de Tombeur (Creator)
  • Kyle Tomlinson (Creator)
  • Neil C. Turner (Creator)
  • Erik J. Veneklaas (Creator)
  • S.E. Venn (Creator)
  • Peter Vesk (Creator)
  • Carolyn Vlasveld (Creator)
  • Maria S. Vorontsova (Creator)
  • Charles A. Warren (Creator)
  • Nigel Warwick (Creator)
  • Lasantha K. Weerasinghe (Creator)
  • Jessie Wells (Creator)
  • Mark Westoby (Creator)
  • Matthew White (Creator)
  • Nicholas S.G. Williams (Creator)
  • Jarrah Wills (Creator)
  • Peter G. Wilson (Creator)
  • Colin J. Yates (Creator)
  • Amy E. Zanne (Creator)
  • Graham Zemunik (Creator)
  • Kasia Ziemińska (Creator)

Dataset

Description

<strong>INTRODUCTION</strong> AusTraits is a transformative database, containing measurements on the traits of Australia’s plant taxa, standardised from hundreds of disconnected primary sources. So far, data have been assembled from &gt; 250 distinct sources, describing &gt; 400 plant traits and &gt; 26,000 taxa. To handle the harmonising of diverse data sources, we use a reproducible workflow to implement the various changes required for each source to reformat it suitable for incorporation in AusTraits. Such changes include restructuring datasets, renaming variables, changing variable units, changing taxon names. While this repository contains the harmonised data, the raw data and code used to build the resource are also available on the project’s GitHub repository, http://traitecoevo.github.io/austraits.build/. Further information on the project is available in the associated publication and at the project website austraits.org. Falster, Gallagher et al (2021) <em>AusTraits, a curated plant trait database for the Australian flora</em>. Scientific Data 8: 254, https://doi.org/10.1038/s41597-021-01006-6 <strong>CONTRIBUTORS</strong> The project is jointly led by Dr Daniel Falster (UNSW Sydney), Dr Rachael Gallagher (Western Sydney University), Dr Elizabeth Wenk (UNSW Sydney), and Dr Hervé Sauquet (Royal Botanic Gardens and Domain Trust Sydney), with input from &gt; 300 contributors from over &gt; 100 institutions (see full list above). The project was initiated by Dr Rachael Gallagher and Prof Ian Wright while at Macquarie University. We are grateful to the following institutions for contributing data Australian National Botanic Garden, Brisbane Rainforest Action and Information Network, Kew Botanic Gardens, National Herbarium of NSW, Northern Territory Herbarium, Queensland Herbarium, Western Australian Herbarium, South Australian Herbarium, State Herbarium of South Australia, Tasmanian Herbarium, Department of Environment, Land, Water and Planning, Victoria. AusTraits has been supported by investment from the Australian Research Data Commons (ARDC), via their “Transformative data collections” (https://doi.org/10.47486/TD044) and “Data Partnerships” (https://doi.org/10.47486/DP720) programs; fellowship grants from Australian Research Council to Falster (FT160100113), Gallagher (DE170100208) and Wright (FT100100910), a grant from Macquarie University to Gallagher. The ARDC is enabled by National Collaborative Research Investment Strategy (NCRIS). <strong>ACCESSING AND USE OF DATA</strong> The compiled AusTraits database is released under an open source licence (CC-BY), enabling re-use by the community. A requirement of use is that users cite the AusTraits resource paper, which includes all contributors as co-authors: Falster, Gallagher et al (2021) <em>AusTraits, a curated plant trait database for the Australian flora</em>. Scientific Data 8: 254, https://doi.org/10.1038/s41597-021-01006-6 In addition, we encourage users you to cite the original data sources, wherever possible. Note that under the license data may be redistributed, provided the attribution is maintained. The downloads below provide the data in two formats: <code>austraits-3.0.2.zip</code>: data in plain text format (.csv, .bib, .yml files). Suitable for anyone, including those using Python. <code>austraits-3.0.2.rds</code>: data as compressed R object. Suitable for users of R (see below). Both objects contain all the data and relevant meta-data. <strong>AUSTRAITS R PACKAGE</strong> For R users, access and manipulation of data is assisted with the <code>austraits</code> R package. The package can both download data and provides examples and functions for running queries. <strong>STRUCTURE OF AUSTRAITS</strong> The compiled AusTraits database has the following main components: <pre><code>austraits ├── traits ├── sites ├── contexts ├── methods ├── excluded_data ├── taxanomic_updates ├── taxa ├── definitions ├── contributors ├── sources └── build_info</code></pre> These elements include all the data and contextual information submitted with each contributed datasets. A schema and definitions for the database are given in the file/component <code>definitions</code>, available within the download. The file <code>dictionary.html</code> provides the same information in textual format. Full details on each of these components and columns are contained within the definition. Similar information is available at http://traitecoevo.github.io/austraits.build/articles/Trait_definitions.html and http://traitecoevo.github.io/austraits.build/articles/austraits_database_structure.html. <strong>CONTRIBUTING</strong> We envision AusTraits as an on-going collaborative community resource that: Increases our collective understanding the Australian flora; and Facilitates accumulation and sharing of trait data; Builds a sense of community among contributors and users; and Aspires to fully transparent and reproducible research of the highest standard. As a community resource, we are very keen for people to contribute. Assembly of the database is managed on GitHub at traitecoevo/austraits.build. Here are some of the ways you can contribute: <strong>Reporting Errors</strong>: If you notice a possible error in AusTraits, please post an issue on GitHub. <strong>Refining documentation:</strong> We welcome additions and edits that make using the existing data or adding new data easier for the community. <strong>Contributing new data</strong>: We gladly accept new data contributions to AusTraits. See full instructions on how to contribute at http://traitecoevo.github.io/austraits.build/articles/contributing_data.html.
Date made available14 Jul 2021
PublisherUniversity of New South Wales
Geographical coverageAustralia

Keywords

  • biodiversity
  • trait
  • plant
  • AusTraits, a curated plant trait database for the Australian flora

    Falster, D., Gallagher, R., Wenk, E. H., Wright, I. J., Indiarto, D., Andrew, S. C., Baxter, C., Lawson, J., Allen, S., Fuchs, A., Monro, A., Kar, F., Adams, M. A., Ahrens, C. W., Alfonzetti, M., Angevin, T., Apgaua, D. M. G., Arndt, S., Atkin, O. K., Atkinson, J., & 199 othersAuld, T., Baker, A., von Balthazar, M., Bean, A., Blackman, C. J., Bloomfield, K., Bowman, D. M. J. S., Bragg, J., Brodribb, T. J., Buckton, G., Burrows, G., Caldwell, E., Camac, J., Carpenter, R., Catford, J. A., Cawthray, G. R., Cernusak, L. A., Chandler, G., Chapman, A. R., Cheal, D., Chen, S. C., Choat, B., Clinton, B., Clode, P. L., Coleman, H., Cornwell, W. K., Cosgrove, M., Crisp, M., Cross, E., Crous, K. Y., Cunningham, S., Curran, T., Curtis, E., DeGabriel, J. L., Denton, M. D., Dong, N., Du, P., Duan, H., Duncan, D. H., Duncan, R. P., Duretto, M., Dwyer, J. M., Edwards, C., Esperon-Rodriguez, M., Evans, J. R., Everingham, S. E., Farrell, C., Firn, J., Fonseca, C. R., French, B. J., Frood, D., Funk, J. L., Geange, S. R., Ghannoum, O., Gleason, S. M., Gosper, C. R., Gray, E., Groom, P. K., Grootemaat, S., Gross, C., Guerin, G., Guja, L., Hahs, A. K., Harrison, M. T., Hayes, P. E., Henery, M., Hochuli, D., Howell, J., Huang, G., Hughes, L., Huisman, J., Ilic, J., Jagdish, A., Jin, D., Jordan, G., Jurado, E., Kanowski, J., Kasel, S., Kellermann, J., Kenny, B., Kohout, M., Kooyman, R. M., Kotowska, M. M., Lai, H. R., Laliberté, E., Lambers, H., Lamont, B. B., Lanfear, R., van Langevelde, F., Laughlin, D. C., Laugier-Kitchener, B. A., Laurance, S., Lehmann, C. E. R., Leigh, A., Leishman, M. R., Lenz, T., Lepschi, B., Lewis, J. D., Lim, F., Liu, U., Lord, J., Lusk, C. H., Macinnis-Ng, C., McPherson, H., Magallón, S., Manea, A., López-Martinez, A., Mayfield, M., McCarthy, J. K., Meers, T., van der Merwe, M., Metcalfe, D. J., Milberg, P., Mokany, K., Moles, A. T., Moore, B. D., Moore, N., Morgan, J. W., Morris, W., Muir, A., Munroe, S., Nicholson, Á., Nicolle, D., Nicotra, A. B., Niinemets, Ü., North, T., O’Reilly-Nugent, A., O’Sullivan, O. S., Oberle, B., Onoda, Y., Ooi, M. K. J., Osborne, C. P., Paczkowska, G., Pekin, B., Guilherme Pereira, C., Pickering, C., Pickup, M., Pollock, L. J., Poot, P., Powell, J. R., Power, S. A., Prentice, I. C., Prior, L., Prober, S. M., Read, J., Reynolds, V., Richards, A. E., Richardson, B., Roderick, M. L., Rosell, J. A., Rossetto, M., Rye, B., Rymer, P. D., Sams, M. A., Sanson, G., Sauquet, H., Schmidt, S., Schönenberger, J., Schulze, E. D., Sendall, K., Sinclair, S., Smith, B., Smith, R., Soper, F., Sparrow, B., Standish, R. J., Staples, T. L., Stephens, R., Szota, C., Taseski, G., Tasker, E., Thomas, F., Tissue, D. T., Tjoelker, M. G., Tng, D. Y. P., de Tombeur, F., Tomlinson, K., Turner, N. C., Veneklaas, E. J., Venn, S., Vesk, P., Vlasveld, C., Vorontsova, M. S., Warren, C. A., Warwick, N., Weerasinghe, L. K., Wells, J., Westoby, M., White, M., Williams, N. S. G., Wills, J., Wilson, P. G., Yates, C., Zanne, A. E., Zemunik, G., Ziemińska, K., Cheesman, A. W., Cornwell, W. K. & Daws, M. I., 30 Sept 2021, In: Scientific Data. 8, 1, 254.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    78 Citations (Scopus)

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