Well, since we’re calling for paradigm shifts…

There’s a lot that’s both nice and deliciously ironic about IFPRI’s recent blog post “Granular socioeconomic data are increasingly becoming available in agricultural research.” This summarizes a letter to Nature Climate Change from HarvestChoice scientists which adds some nuance to a previous commentary in that journal calling on socioeconomists to up their data game. The point is a good one, and it’s stated right up front in the post, quoting the letter:

Spatially explicit, harmonized socio-economic data products are increasingly available to the public, such as population and poverty grids, microdata derived from national household surveys, and rasterized sociodemographic indicators. While these products are often overlooked in the economic literature, they are well suited to the study of climate’s impact on human geography across scales.

But, then comes the irony.

Screen Shot 2016-02-01 at 11.33.52 AMFirst, both the letter and the original article, helpfully linked to in the blog post, are of course behind paywalls. Second, the map included in the post is provided with an incorrect caption. There’s a screen grab here on the left. As you can see, the caption suggests that the map illustrates that childhood wasting is more prevalent in the drier areas of sub-Saharan Africa. But the map shows no such thing, as a glance at the legend, or indeed the map in the original letter, will prove. What the map caption should actually be is “Subnational Demographic and Health Surveys (DHS) data showing centroids of DHS clusters overlaid on Agro-ecological Zones.” Not quite so catchy. The map showing the relationship between wasting and agroecological zones is this one, and it’s in the Supplementary Materials to the letter. ((Which, bizarrely, seem to be freely available.)) I hope I don’t get into trouble for reproducing it here, but it is pretty cool.

Screen Shot 2016-02-01 at 11.37.11 AM

And thirdly, and most importantly, frankly neither the socioeconomic datasets nor the agroecological map which the HarvestChoice researchers cleverly mashed up to make their point about data availability are exactly easy for the average non-GIS geek to use, let alone to combine. Try it and see.

The original paper calls for a “new paradigm in data gathering.” The blog post echoes the follow-up letter in saying “the paradigm shift is alive and kicking already.” Oh good. But I’d like to be able to look at the distribution of stunting and other nutritional indicators together with the distribution of different crops and varieties without having to beg a GIS person to do it for me, or spending half a day putzing around trying to understand what this means

Data layers are available in comma-separated values format (.csv) suitable for MSExcel, in ESRI ASCII Raster (.asc) and GeoTIFF formats (.tif) suitable for any desktop GIS tool. To view ASCII or GeoTIFF rasters in ArcMap or QuantumGIS simply drag and drop the downloaded files onto the layer pane.

Sure, have your paradigm shift in data gathering. But can I also have one in usability, please?

Nibbles: Canadian genebank, Indian women farmers, Coconut videos, Willow catalog, Crop models & CC, Next GR, Caviar of Cantaloupes, Wild Bactrian, Dog history, Top 100 development questions

Model livestock information systems

Attentive readers will know I occasionally take swipes at the state of genetic resources information systems, both in the crops and domestic livestock areas. But as far as the latter is concerned it’s getting more and more difficult to do so, a twinge of jealousy being the more usual reaction. Take for example the fact that you can now download the results of distribution modelling, under various climate change scenarios, for 8800 livestock breeds, as recorded in the Domestic Animal Diversity Information system (DAD-IS). Here they are for Vietnam’s Ga Dong Tao chicken. Light green is the area currently suitable, red is the area suitable in 2050, dark green is the area suitable under both current and future conditions. The grey polygon is the reported distribution of the breed.

dadis_map

I suspect it will be some time before we’re able to do something similar for crops.

The trouble with Ipomoea

I think we may have mentioned in a recent Brainfood a “foundation monograph” of the genus Ipomoea in Bolivia, ((It’s the group of plants that includes the cultivated sweet potato, which makes at least one of the 102 species described here a close crop wild relatives.)) without actually explaining what that is. Well, I’ll let one of the authors do that:

‘We wondered if we might be able to combine some of the speed of a Flora approach with some of the rigour of a Monograph,’ explains Dr Scotland. ‘And we’ve ended up with what we call “foundation monographs”.’ The new approach combines the time-limited approach and short descriptions of the Flora approach with the genetic analyses and fieldwork of Monographs, enabling species to be uncovered quickly, but accurately. Crucially, it borrows content like drawings and genetic analyses, where they exist, from existing studies, in order to avoid duplicating work.

Such work — whether floras or monographs — is largely based on existing herbarium specimens, of course, and a complementary study led by Zoë Goodwin, on which Dr Scotland is also a co-author, has just come out which sets out some of the problems associated with that.

…the team…scoured the records of Ipomoea — a large and diverse genus which includes the sweet potato — on the Global Biodiversity Information Facility database. Examining the names found on 49,500 specimens from the Americas, they found that 40% of these were outdated synonyms rather than the current name, and 16% of the names were unrecognisable or invalid. In addition, 11% of the specimens weren’t identified, being given only the name of the genus. ((Here’s an interesting comment on this.))

The work of the crop wild relatives mapper is never done.