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PecanProject / pecan

The Predictive Ecosystem Analyzer (PEcAn) is an integrated ecological bioinformatics toolbox.
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A global database of C4 photosynthesis in grasses #175

Open mdietze opened 10 years ago

mdietze commented 10 years ago

We should upload or link to this:

http://onlinelibrary.wiley.com/doi/10.1111/nph.12942/abstract

dlebauer commented 8 years ago

This is a list of grass species and their mechanisms of photosynthesis.

Here are two options for encoding this information:

  1. Create two PFTs called "C4 grasses" and "C3 grasses" and populate them based on these lists.
  2. Add a field to the species table in BETYdb called something like 'photosynthesis_mechanism' that would allow values "C3", "C4", "C3+C4", "CAM", "unknown", "other".
  3. Create a variable called photosynthesis_mechanism, and encode in the traits table, advantage would be that we could encode the specific date, location and citation for each of these. But the disadvantage is that our "level" field is numeric and for the most part this is a categorical trait at the species level.

I think encoding this as PFTs makes the most sense, but could see the value in adding this to the species table, similar to the USDA plants database from which it was derived.

mdietze commented 8 years ago

I don't like option 1 because PFTs are model specific and I anticipate many models needing or wanting to subdivide these into finer PFTs by biome, crop, etc.

A 4th option would be to just register the data with the Inputs table and then look it up when and where it's needed. But given that it's 'trait' data I think the 2nd or 3rd makes more sense. I tend to lean towards 2.

github-actions[bot] commented 4 years ago

This issue is stale because it has been open 365 days with no activity.