Introduction

Indigenous Data Sovereignty and the CARE Principles

  • “Be FAIR and CARE”: The CARE principles (Collective benefit, Authority to control, Responsibility, and Ethics) are part of a framework emphasizing Indigenous rights and interests in the context of data sharing ecosystems.
  • Local Contexts Hub provides Labels and Notices for learning more about and engaging with Indigenous data in accordance with the CARE principles.
  • Work remains to be done in order to spread the use of TK and BC Labels/Notices by researchers and data repositories

Abundance DataIntroduction to abundance dataWorking with abundance dataRecap

  • Organismal abundance data are a fundamental data type for population and community ecology.
  • The taxise package can help with data cleaning, but quality checks are often ultimately dataset-specific.
  • The species abundance distribution (SAD) summarizes site-specific abundance information to facilitate cross-site or over-time comparisons.
  • We can quantify the shape of the SAD using summary statistics. Specifically, Hill numbers provide a unified framework for describing the diversity of a system.

Trait dataHill numbers

  • Traits data contain more information about ecologically significant traits than just species IDs.
  • Traits data can be analzyed with Hill numbers and visualized with rank plots similarly to abundance data.

Summarizing phylogenetic data

  • hillR calculates phylogenetic hill numbers given a phylogeny and a site by species matrix.
  • In trees with a similar topology, phylogenetic Hill number of order 0 reflect the sum of branch lengths. Orders of 1 and higher reflect the sum of branch lengths weighted by the relative abundance of different species.
  1. The phylogenetic structure of the community (represented by the topology of the tree) influences the evenness of the branch length distribution and contribute to different rates in the decrease of Hill number values as the order number increases.
  2. The inclusion of community structure (relative abundance of different species) further accentuates this difference in rate of change.
  3. Phylogenetic Hill numbers represent the sum of branch lenghts. Higher orders weight that sum by the distribution of branch lengths and the species relative abundance.

Working with population genetic dataIntroductionWork with pop gen dataExtra

  • Genetic diversity is a useful and fundamental unit of biodiversity

  • Population genetic data may come in a variety of formats

  • The Hill number framework is also an informative approach to summarizing genetic diversity across a community

Finding multi-dimensional biodiversity dataSources of multidimensional biodiversity data: large open-access databasesSources of MDBD: Databases without APIsSources of MDBD: “small data” attached to papersRecap

  • Many sources exist online where multidimensional biodiversity data can be obtained
  • APIs allow for fast and reproducible querying and downloading
  • While there are patterns in how these APIs work, there will always be differences between databases that make using each API a bit different.
  • Standalone databases and even the supplemental data in manuscripts can also be re-used.

CARE Principles and Data Repositories

  • Operationalizing CARE Principles requires advocacy to more data repositories will take up protocols such as hosting TK and BC information.
  • While we wait for that systemic change, we can still take action ourselves by interacting directly with the API of Local Contexts Hub