- Rice symposium wows Hong Kong.
- Fruits and nuts of Kyrgyzstan.
- Rothamstead’s archives look totally cool.
- One does wonder whether Afghanistan could learn something from Colorado.
- When did continued collaboration become news, CIAT?
- Cherokee continue to save seeds.
- Agricultural expansion a continuing a bad thing for nature.
Filling the gaps in Lacunas
A paper in Biodiversity and Conservation caught my eye: “Lacunas: a web interface to identify plant knowledge gaps to support informed decision-making.” 1 I knew that Brazilian biodiversity researchers had been working hard on bringing their data together, and this sounded like the information was now ready to be put to some use:
SpeciesLink’s thematic network, INCT-Virtual Herbarium of Plants and Fungi and the List of Species of the Brazilian Flora, are used as primary data sources to develop Lacunas, an information system with a public web interface that generates detailed reports of the status of plant species occurrence data. Lacunas also integrates information about endemism, conservation status, and collecting efforts over time.
I couldn’t resist doing a quick roadtest of Lacunas, of course. It’s available in both Portuguese and English, and it has a simple, intuitive interface, so it wasn’t a chore. Naturally I selected a crop wild relative: Oryza grandiglumis (Döll) Prod.
You get a nice map. And a bunch of tables summarizing various statistics (both for the exact species name and for phonetically similar species names, which is a nice touch):
- Number of records per year collected
- Total number of records available in different herbaria in the speciesLink network
- Total number of records available in the speciesLink network by georeferencing status
- Total number of records available in the speciesLink network with distinct geographic coordinates
I grabbed a screenshot of one of the tables, because that was the only way I could see to save the results, and I thought I might blog about Lacunas one day. It was a pity about that saving thing, though, because the statistics the portal provides are genuinely useful in giving an idea of the quality and quantity of the data we have on different species in Brazil. For example, for our wild rice there are 31 records in all, but only 4 have original georeferences. Fortunately, for 15 of those that don’t have original latitude and longitude coordinates, it was possible to infer georeferences from other associated data. But that still leaves a significant number of herbarium specimens which cannot be used in mapping the distribution of the species. Anyway, I left a comment to that effect on the website. Then I moved on to other stuff, and the blogging got pushed down the to-do list, what with one thing and another.
Imagine my surprise then when I got notification of a fix within a couple of days. A fix which allows me to link to a results page, rather than include that clunky screengrab here. And imagine my further surprise when the guy who provided the fix turned out to be an old friend. Small world. Anyway, thanks to Sidnei for the help, and the chat.
Now, it would be great to compare the Lacunas data with those in the Crop Wild Relatives Global Atlas. But first I need to convince the developers of that incredible resource to make sharing results a little easier.
Nibbles: Kangkong, Fun labwork, Breadfruit beer, Saving juniper, Green Week
- Ipomoea aquatica in the news.
- DNA extraction made fun.
- Samoa launches breadfruit beer.
- Gin maker protects his livelihood.
- The Treaty goes to Green Week.
Nibbles: Agroecology, Genomics meet, African botany meet, Gardens, ISHS, Market chains, KFC in Africa, Wine terroir, Vanilla research, Dye mushrooms, French agrobiodiversity research, Indian genebank, Policy newsletter, Eels, Neolithic grain
- USDA should think about agroecology more. Or at all?
- The latest from PAGXXII. Lots on domestication, genebanks, crop improvement, all that cool stuff.
- There’s also AETFAT going on, and it’s just as cool. Maybe more so. Though less socially networked, I guess.
- How public gardens should build up living plant collections. You’d have thought they’d know.
- An update on plant genetic resources from ISHS. Lots happening…
- How to support agrobiodiversity through sustainable sourcing.
- KFC must have read that slideshare above.
- Breaking down the terroir. And not for the first time.
- Does vanilla have terroirs? I bet it does. Should ask the world’s expert.
- Dye mushrooms? Are you kidding me?
- ARCAD, DIADE: No matter how you spell it, lots of French interest (and money) in crop and livestock genetics.
- Likewise in India, it looks like from this piece on NBPGR.
- The Bioversity Policy Unit is apparently still alive and kicking.
- European eels a conservation success story?
- Let the ancient DNA sequencing begin!
Brainfood: Diversity in restoration, Niche model validation, Dutch diets, Markets in conservation, Genomics for stress, Protected agroecosystems, Cocksfoot diversity, Tree breeding, Organic in India, Coconut origins, Dope diversity
- Application of genetic diversity–ecosystem function research to ecological restoration. Cultivars vs local populations vs genetic diversity approaches in restoration reviewed. More research needed, natch, but genetic diversity should not be dismissed out of hand in a bid for rapid establishment or long-term persistence, as it may well be best for ecosystem functioning.
- Application of consensus theory to formalize expert evaluations of plant species distribution models. Given arm-twisting, experts like models.
- Exploring dietary guidelines based on ecological and nutritional values: A comparison of six dietary patterns. The Dutch should eat less meat. No word on beer.
- Market-based mechanisms for biodiversity conservation: a review of existing schemes and an outline for a global mechanism. You can’t monetize what you can’t measure.
- Genomic resources for breeding crops with enhanced abiotic stress tolerance. You still need the phenotyping.
- Perceptual distinctiveness in Native American maize (Zea mays L.) landraces has practical implications. Kernel colour diversity is a marker for other, more interesting, kinds of diversity.
- Can agro-ecosystems efficiently complement protected area networks? Yes, but only in combination with expansion of protected natural habitats. For birds in Israel, that is.
- Indicators for genetic and phenotypic diversity of Dactylis glomerata in Swiss permanent grassland. Management alters both genotype and phenotype.
- A ‘Reality Check’ in the Management of Tree Breeding Programmes. Have come far, but still a ways to go, in particular with regard to the balance between DNA-based vs conventional breeding and genetic gain vs genetic preservation.
- Yield and Economic Performance of Organic and Conventional Cotton-Based Farming Systems — Results from a Field Trial in India. Organic soybean may be a viable long-term option. Cotton and wheat, jury still out. But early days yet, these rotation trials take a long time to get going.
- Long-distance dispersal of the coconut palm by migration within the coral atoll ecosystem. Hugh Harries, one of the authors, in a recent email to us: “Recent reviews have blown dust from old reports of pre-Colombian coconuts in Panama and demonstrated how the rate of germination distinguishes the naturally selected wild coconut from the domestically selected sort. This review formulates a hypothesis which could identify a previously unconsidered route along which the primordial coconut might travel between the South American and Indian tectonic plates without being indigenous on either.” That is, atoll-hopping.
- Differentiation between fiber and drug types of hemp (Cannabis sativa L.) from a collection of wild and domesticated accessions. Must have been fun doing the evaluation.