Kennedy Space Center in Transition

It’s hard to read about the state of the Kennedy Space Center these days:

At the apex of the space shuttle program, some 18,000 people worked here. Now, just 7,500 do. On a recent Wednesday morning, parking lots across the vast complex sat two-thirds empty.

I had the incredible good fortune to work at Kennedy in the run up to STS-95, on which we had a small experiment investigating gravity signaling in roots. During that period, the space center and the rest of the Cape were crawling with activity. I hope the next generation of space vehicles moves forward and reinvigorates KSC again soon.

32,000 year-old plants

New Life, From an Arctic Flower That Died 32,000 Years Ago

By taking advantage of a property of most plant cells, a Russian research group may have revived a 32,000 year-old plant:

They then took cells from the placenta, the organ in the fruit that produces the seeds. They thawed out the cells and grew them in culture dishes into whole plants.

As the article goes on to point out, if this can be confirmed this represents a unique opportunity to study recent evolution in this species. But just think about this for a second: these cells that were revived were in a squirrel hole for 32,000 years. Whoa.

Plant Defense uses the Clock

Plants Use Body Clocks to Prepare for Battle

Lest I gave the impression that the animal immune system was using the circadian clock but the plant defense system was not, we have this:

Some of the circadian-regulated genes are linked to wounding or healing responses, meaning that they can anticipate an attack from insects just as they anticipate the sunrise.

This is really cool work, showing that plants use circadian regulation of defense compounds to provide maximum protection at the most likely time of insect feeding.

Why study plants?

A few years ago, I put together a talk to give to a science club here at OWU offering my answer to the question, “Why study plants?” I organized my ideas around the concepts of plants being beautiful, interesting, important, and useful. I still think these are useful categories to address the original question. But over the last several years, I have become increasingly convinced that the latter two reasons have grown in stature in my thinking at least, if not in actual stature with respect to the problems facing humanity.

My conviction on this point has crystallized recently as I read two separate, totally unrelated articles. I’ll discuss one of them today, and the other some other day.

In his annual letter on the activities of his foundation, Bill Gates articulates the need for more investment in crop research:

Over time, governments in both developed and developing countries focused less on agriculture. Agricultural aid fell from 17 percent of all aid from rich countries in 1987 to just 4 percent in 2006. In the past 10 years, the demand for food has gone up because of population growth and economic development—as people get richer, they tend to eat more meat, which indirectly raises demand for grain. Supply growth has not kept up, leading to higher prices.

He goes on to argue, among other things, that we place ourselves at risk by ignoring the need for agricultural improvement. Plants are sitting ducks for pathogens, and Gates points out the nasty wheat rust known as Ug99 as an example of the kind of threat posed to crops grown in monoculture. With this fungal pathogen, it is not a matter of if it will affect North American wheat production, just when.

In a place like the U.S., we’ve enjoyed the luxury of taking food for granted for so long, we can hardly imagine the impact that a crop failure would have on our economy. We assume that the yearly corn harvest, the crop that undergirds most of our food economy, will maintain low prices at the grocery — Gates points out that a mere 15% of our consumer spending goes toward food — and allow us to spend our paychecks on more scintillating purchases like iPads XBoxes (sorry Mr. Gates). Without sustained efforts to outrun pests and pathogens that attack crop plants, we are almost guaranteeing a major crop failure some day.

But there is another wrinkle to funding as it currently stands, and that is that by leaving half ($1.2 of $3.0 bil) of agricultural spending on the most important crops up to the private sector, we almost guarantee that crop improvements will be directed at wealthy, developed nations and pass over the poor, developing nations. Individuals and families will remain in poverty, scraping out subsistence yields with no surplus for the market, and no opportunity to join the global economy, largely because they lack the stability of predictable crop yields that only comes from research investment. In other words, this discussion quickly incorporates issues of social justice and the fight to end extreme poverty.

So this is one prong of an argument to invest in plant science research, either financially (if you are a billionaire) or with your time and talent. If you are interested in a career in research and have a desire to do good in the world, becoming a plant scientist is a path worth exploring. But this is not the only reason, there are several other great reasons to explore this field that I’ll talk about some other day.

Infinite possibilities

Interesting bit of research picked up by the mainstream press (albeit with no link to the article) in this week’s US News. In this case it’s a review article on the state of engineering plant secondary metabolism to create novel or high-value compounds:

Møller envisions a future where plants’ internal systems are re-engineered to create rare chemicals, such as artemisinin, a powerful anti-malarial drug that is found in trace amounts in only one plant worldwide. The plant would be rewired so that instead of making trace amounts of the drug, it would make lots of it.

Now that all the molecular tools are in place to even propose such an undertaking, the possibilities start to seem infinite.

Academic Publishers Enemies of Science

The academic publishing system has bothered me for some time, seems like it’s only getting worse:

The Research Works Act, introduced in the US Congress on 16 December, amounts to a declaration of war by the publishers.

Sounds like the act is basically an end-run around the NIH rules requiring open access. Nice. I’m pleased to see my society is not part of the Association of American Publishers, which fully supports the legislation.

The $1000 genome

Last summer:

We have demonstrated the ability to produce and use a disposable integrated circuit fabricated in standard CMOS foundries to perform, for the first time, ‘post-light’ genome sequencing of bacterial and human genomes.

This week at CES (of all places), Ion Torrent announced they have achieved the $1000 genome, a full year ahead of their 2013 goal. Hitching their prospects to integrated circuit technology looks like it was a good bet, as it’s hard to imagine the gene sequencing technologies that rely on the detection of light to scale in this way. I think it’s an exciting time to be in biology.

Dangerous RNA in Food?

[Update Jan 13: The original article has been edited and extensively modified in response to reader feedback. The author has acknowledged several mistakes in the original and generally improved the clarity of his argument. However, the main point I make in response remains despite the changes to the original. —cw]

As I wrote about previously, a research group has shown that miRNA from rice is present in human blood and can influence gene expression in the liver. In response to this work, Ari Levaux (@arilevaux) has published a somewhat sensationalistic opinion for The Atlantic that concludes:

The news that we’re ingesting information as well as physical material should force the biotech industry to confront the possibility that new DNA can have dangerous implications far beyond the products it codes for.

Most of the article takes aim at the purported implications of this research for GMO foods. Specifically, he believes this finding contradicts the long-standing policy of “substantial equivalence” claimed by the pro-GMO producers. If I were an author of this study, I would be disappointed to have my work so badly misconstrued for the general public.

Clearly, LeVaux has an axe to grind with the large, multi-national agribusiness industry (who doesn’t, besides incumbent politicians?). And I don’t necessarily even support the concept of substantial equivalence, but I must point out that there is a major hole in the evidence between “the food we eat can regulate gene expression in a new way” (the new research) and “GMOs are dangerous to human diet because they contain new DNA” (LeVaux’s claim).

If the uptake of miRNA from food is widespread (which is not known yet), then potentially every food we eat of biological origin could have previously unknown effects on the cells of our body. Think about that for a moment and I think you will agree that to focus on GMO foods is to miss the potential scope of this finding. If widespread (again, a big if), then wouldn’t every food need to be reevaluated as a precaution? This is nothing short of the kind of shift in thinking that humanity underwent upon discovering the need for essential vitamins, maybe bigger.

The other big problem I have with LeVaux’s piece is that there is no reason to think that the miRNAs in GMO corn would be any different than those in nonGMO corn. Most GMO corn carries one of the Cry1 genes from soil bacteria, encoding a protein that is toxic to insect larvae. What is the proposed connection between the expression of this gene and any miRNA expression? None, as far as I know and as far as LeVaux informs me. Back to the quote above from his article, there is nothing new or known to be harmful in ‘ingesting information’, we have been doing it as long as we’ve been eating, apparently.