Using the internet for early warning of genetic erosion

Regular readers will recognize this as a bit of a hobbyhorse of mine. Turns out I’m not alone. A guest post over at Resilience Science discusses harnessing ICTs for ecological monitoring.

Can researchers who are interested in ecological monitoring tap into these increased flows of information by “mining” the internet to detect “early-warning” signs that may signal abrupt ecological changes?

Well, if ecological monitoring, why not genetic monitoring? The health community is in the vanguard, and reaping the benefits.

…nowadays, around 60% of all early warnings of emerging epidemic emergencies that reach the WHO come from … ICT tools.

Agrobiodiversity conservation and use also stand to gain immensely, I think. We just need to take that first step.

Featured: Past collecting in Bhutan

Eliseu wants to know more about past collecting in Bhutan:

I would be very interested to follow up the development of this case should someone have access to the mission reports and could shed some light on the main objectives, sampling strategies and findings of the collecting missions that took place in the country 30 years ago.

When and where was rice domesticated?

ResearchBlogging.orgA paper by Dorian Fuller and his colleagues in this week’s Science sets out three kinds of evidence that help to pinpoint the time and place of rice domestication in eastern China. 1 The site is Tianluoshan, just north of the current town of Hemudu on Hangzhou Bay. The water table is very high, which has preserved botanical remains and charred remains, as well as artefacts. Among those remains are more than 35,000 fragments that show how the foodways of the people changed.

In the oldest segment, reliably dated to 4900 years BCE, acorns and water chestnuts (Trapa spp) predominate, with a few other gathered species, notably foxnuts (Euryale ferox). 2. Rice is about 8% of the remains.

Three hundred years later, rice has increased to 24% of the remains, with an equally large increase in the remains of weeds typical of rice paddies.

SEM of wild rice spikelet base
SEM of wild rice spikelet base © Science/AAAS
Over the same 300-year period the nature of the rice remains change too. Microscopic analysis of the base of the rice spikelets, which attach the grain to the stalk, can reveal whether the plant was wild or domesticated, and whether the rice grain was immature (associated with the harvest of wild rice.) Fuller and colleagues examined 2641 spikelet bases and put them into one of these three categories. Domesticated rice increases from 27% to 39% of the total over the 300 years.

©Science/AAAS
©Science/AAAS

Domesticated, it should be noted, is not the same as cultivated. Domesticated types usually have a mutation that keeps the seed attached to the stalk. These non-shattering genes make the domesticated plant dependent on people to spread the seeds, and would be automatically selected for in the normal course of cultivation. As the authors note: “This trend toward an increasing proportion of domesticated types though time implies that rice was under cultivation at this time and that domestication traits were under selection.”

The paper offers clear evidence of rice cultivation and domestication 6500 years ago, but what does it say about the great japonica-indica divide? There are two views; that the two types were domesticated entirely independently, or that there was a single domestication event (selection of the non-shattering gene) which then found its way from japonica types to indica types, perhaps by crossing with wild varieties.

Fuller et al. do not treat this topic at length — that’s not what the paper is about, and Science does not allow for much discussion. I asked Fuller directly, and he said that he thinks “there is a good case archaeologically (and genetically) to be made for a separate origin in the middle Ganges”. So people there independently started to manage wild rice and to cultivate it, and then full domestication got under way around 1900 BCE, with the arrival from China of japonica types and the techniques to grow rice more effectively. He was kind enough to send another paper 3 which sets out the ideas in considerably more detail and throws fascinating light on the whole question of the cultural and social organisation needed to grow rice effectively. A parting thought from that:

We suggest that the spread of rice, which has played an important role in models of Neolithic population dispersal in Southeast Asia, may have been triggered by the development of more intensive management systems and thus have required certain social changes towards hierarchical societies rather than just rice cultivation per se.

Rock salt and pond scum

A fascinating post over at Rancho Gordo discusses tequesquite. That’s a natural salt that has been used in Mexican cooking since pre-Columbian times, including for nixtamalization, a process that makes maize easier to process, tastier and more nutritious.

The post also mentions the alga known as tecuilayl (Spirulina geitleri). This was apparently an important food for the Aztecs. 4 Our resident expert on Mexico says it’s the perfect complement to a succulent steamed axolotl in chile sauce. Yummie.