Corresponding author: Jennifer L. Pannell (
Academic editor:
This Data Management Plan (DMP) was created using the
Overview of data collection methods and datasets to be made publicly available as part of the PhD project. Storage details, including file formats and metadata are described.
A presence/absence survey of all non-native Crassulaceae plants on Banks Peninsula, New Zealand was conducted in 2010 by road. In total, 844 grid cells of 30 arc-seconds (WGS 1984) were surveyed, approximately 39% of the region. Grid cells containing rock outcrops and other likely habitat were targeted, ignoring outcrops above 500 MASL [surveyed by
Global occurrence data of
Field transplant experiments were conducted on Banks Peninsula between November 2010 and November 2012, using cuttings of
Germination experiments were conducted at the same transplant sites over July 2011 - November 2012, using seeds of
Field surveys of naturalized populations of
Seed counts were conducted in the laboratory, using seeds collected in March 2011. Five inflorescences per population were collected from each of the 8 survey sites, before dehiscence. Seeds per pod was estimated by weight according to the International Rules For Seed Testing guidelines (ISTA, available at
Temperature was recorded at each transplant and survey site. Measurements were taken every 4 hours to the nearest 0.5 degrees Celsius, for the duration of data collection, using Thermochron iButtonTM data loggers. Aspect was recorded to the nearest cardinal direction using a compass. Elevation was recorded using a handheld GPS (sites were also GPS tagged). Canopy cover was measured using a convex spherical densiometer (Forestry Suppliers Inc., model 43887) according to the methods of
Species distribution models of potential habitat for the study species in New Zealand were run, as well as niche analyses comparing the New Zealand and global distributions. Occurrence data was cleaned and resampled. Climate data were obtained from Worldclim (
Climate variables were derived for all field sites (growing degree days, frost days, precipitation, solar radiation, aspect, elevation, and canopy cover). Temperature variables were derived from data logger recordings. Precipitation was estimated from the nearest weather station in the CliFlo database (
Generalized linear mixed models (GLMMs) were run on field data against climate. From the field experiment, relative growth [
Finally, one integral projection model (IPM) was parameterized for each species, integrating all field data to model population growth as a function of climate. Developed in R, the model followed a similar structure to the package
All data files will be saved as CSV or ASCII files for cross-platform compatibility, exchangeability and long-term access. Metadata will be created as seperate XML files using DataCite's metadata schema version 3.1 (
Metadata fields will include: identifier, creator, title, publisher, publication year, contributor (host institution), subject, language, size, format, rights, description (abstract, column names and units), dates (updated), geo-location (if relevant). The following datasets will be stored:
Species occurrence data - a) full record if collected by the author, b) source and number of records obtained if third party data
Raw temperature data (data loggers, Banks Peninsula)
Derived climate data (Banks Peninsula)
Transplant experiment data - a) site descriptions, b) deaths, c) flowering, d) growth, e) seedling counts
Field survey data - a) site descriptions, b) main 50 plants, c) sub-sampled 10 plants, d) seeds per pod
Model codes (SDMs, niche analyses, GLMMs, IPMs) - R scripts
Model outputs (SDMs) - ASCII layers for GIS
Data collection and production of materials: Jennifer L. Pannell
Supervision of project: Prof. Phil Hulme, Prof. Richard Duncan and Prof. Susan Worner.
Data storage: Hard copy to be left with Lincoln University library on submission of PhD thesis. As part of the data management plan for the Bio-Protection Research Centre, Lincoln University, all data will also be uploaded to Figshare (
All data and metadata will be stored privately in the cloud on Figshare until publication, after which point it will be made open-access under a Creative Commons license, and citable in its own right. Data will be searchable on Figshare, and downloadable by any user. Use of universal formats will ensure maximum exchangeability and cross-platform compatibility for all users. All data will be under embargo until publication of chapters as manuscripts, or 3 years after the PhD has been awarded, whichever is sooner.
No restrictions on data necessary, or ethical or privacy issues. Intellectual property rights will rest with the original author of the data (J. Pannell), and the project supervisors (P. Hulme, R. Duncan, S. Worner). Data will be free to use under the expectation that it will be correctly attributed and cited using the Figshare DOI.
USB hard drive and paper copies of data and metadata to be stored at Lincoln University library, New Zealand. Data will be archived along with PhD thesis. Digital copies will be stored on Figshare.
The the stability and accessibility of Figshare provides a suitable option for long term storage of data, and should ensure minimal risk of data loss. The following explanation is copied from: (
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