James and the Giant Corn Genetics: Studying the Source Code of Nature

October 31, 2009

Predictable Spinning of Squash

I dont have any picture of pumpkins handy, so this watermelon (and fellow cucurbit) will have to do.

I don't have any picture of pumpkins handy, so this watermelon (and fellow cucurbit) will have to do.

What could be a more fitting topic for a Halloween post than cucurbits, the family of plants that (in addition to crops like watermelon and cucumber) include squash and pumpkins? Yeah, I know it’s a stretch.

A week ago a paper came out in PNAS (the proceedings of the national academy of sciences. A very prestigious journal, one step down from Science or Nature), that showed when an artificially inserted gene in squashes that provided virus resistance was introgressed into a wild related species it actually made them less fit. Short version: the wild squash also suffer from the virus which attacked domesticated squash but are also attacked by beetles, and the beetles prefer to eat squash without the virus. Tomorrow’s Table has a much better and more complete explanation of the research.

In that post the very first commenter predicted the result, that in this particular case a transgene (like most genes involved in domestication) was beneficial for farmers but not for wild plants, would be spun into “another failure for GMOs” when the real message is “we were worried about pollen drift, but in this case it turns out we didn’t have to be.”

He was right. (more…)

October 30, 2009

Mt. Tamalpais, Invasive Species, and Herbicides

Filed under: agriculture,Plants — Tags: , , , — James @ 4:20 pm
On the side of Mt. Tamalpais in in the summer.

On the side of Mt. Tamalpais in in the summer.

Mt. Tamalpais sits across the San Francisco bay from me, on a clear day you can even see it from the hills behind the Berkeley campus. Apparently, the region around Tamalpais is also home to species, especially plant species, found no where else. These local species are threatened by other, invasive, species that have been brought to northern California from all over the world. Some accidentally, but many more imported as ornamental species for private gardens.

Invasive species aren’t something I worry a lot about, but we had a great presentation in one of my classes on Tuesday by a woman who’d spent several years fighting the good fight against them across the bay.

Take French Broom, a woody shrub from the Mediterranean. California’s native habitat is quite similar to the Mediterranean climate and the species is thriving, growing so densely that it chokes out tree seedling before they can grow big enough to escape the thicket. The plant is out-competing FORESTS! And it’s also taking a bite out of the ecological niche currently occupied by alpine grasslands like the one pictured.

I like grasslands. (more…)

October 29, 2009

Crops and Colbert

I love the Colbert Report, but could somebody who knows something about agriculture and plant genetics please sit down with Stephen Colbert until he knows what he’s talking about food wise? Every so often he’ll make these incredibly uneducated jokes about food production. It’s weird to be suddenly jerked out of enjoying the episode as I remember “These guys are comedians, not experts.”

Back in April he turned the debate about Michelle Obama’s organic garden into a crack at round-up ready soybeans. Yesterday*, in the middle of a funny bit about breeding people who might actually be able to get health insurance, we got the mocking:

After all, selective breeding and genetic modification have worked miracles for our fruits, vegetables and livestock.

Yes they really have. Let’s leave genetic engineering out of the mix (after all most people having eaten a genetically engineered fruit or vegetable in their lives, unless you’re a big fan of papayas, or certain kinds of squash, and genetic engineering of livestock is way behind where we are with plants). Selective breeding of plants over thousands of years is what feeds the wold today and has for millennia. Before the advent of agriculture, which was made possible by selective breeding to domesticate plants and animals, the world supported, what, 5-10 million hunter gatherers, spread across the entire face of the globe?

Without selective breeding of crops and livestock we wouldn’t have a civilization to begin with, let alone one advanced enough to have developed not only our complex (but good) system of medicine but also our complex (and not so good) medical insurance.

I’m serious, does anyone know if there’s a way to nominate people to be interviewed on the Colbert Report? I want to nominate Pamela Ronald and Roger Beachy.

*I have to catch the Daily Show and Colbert Report the day after  the fact on Hulu.

October 28, 2009

I’m disappointed in the Des Moines Register

Filed under: agriculture — Tags: , , , — James @ 10:45 pm

Normally the Des Moines Register is pretty good about getting their facts straight when it comes to crop breeding and genetic engineering. After all of the major newspapers left in this country, their readership is probably the most likely to catch any slip ups.

So I was surprised when reading a story about a small breeder who’d developed soybeans resistant to nematodes to find this:

The seed industry has battled the parasite in the usual way, with genetically modified seeds designed to resist the parasites. As has happened in the age of genetic engineering, the nematodes* gradually evolve to overcome the biotech resistances.

I have no idea where Dan Piller, the author of this piece, got this information. Unlike new media outlets like blogs, newspapers don’t ever have to cite sources, the assumption being that they’re reliable enough to be taken at their word. But I defy the Register in general, Dan Piller in particular, or any of the people already linking to this piece to name a seed company currently selling seed genetically engineered to resist nematodes. It would be a very beneficial trait. When I worked at the Danforth Center, Chris Taylor was studying how nematodes interact with their prey. I’m also told Monsanto recently announced that they have been working on nematode resistance using RNAi (though I couldn’t find any internet sources to back that up). Even so that’s a trait still in development, and this article gives the impression transgenic nematode resistance has already been commercially sold and failed.

That said, nematode resistant soybeans would be a Very Good Thing™ regardless of whether the resistance is the result of transgenes or conventional breeding. Nematodes are a big problem for yield. However, whether the trait is transgenic or non-transgenic, any single resistance trait will eventually be overcome by the continued evolution of whatever organism it is protecting against.  One of my plant breeding instructors in undergrad said that a good resistance allele (talking about conventional breeding, not genetic engineering) is one that protects a crop from a disease or pest for a decade after the trait becomes widely available.

That window can be stretched with proper care. Bt crops that resist against specific insect pests have been on the market for ~15 years and the development of resistant insects has been slowed planting refuges of non-resistant crops.

*Nematodes are microscopic worms that live in the soil. They latch onto the roots of crops (and other plants) and suck out nutrients. They’re the plant equivalent of tapeworms. With all that energy going to feed parasites, plants have less energy left to … well produce food for us humans.

October 25, 2009

Bananas: The Original Not-From-Here Fruit

Filed under: agriculture,Crop Profiles,food,Plants — Tags: , , — James @ 6:03 pm
A banana storage room in Salt Lake City in 1913.

A banana storage room in Salt Lake City in 1913.

As early as 1905 the United States was importing 33 million bunches of bananas a year. Bunches averaged more than 100 individual bananas. Billions of bananas were being consumed in America before the Ford Model-T car was first produced. (more…)

October 23, 2009

Putting Prejudice over Science

Filed under: agriculture,Link Posts,Politics — Tags: , , , — James @ 3:56 pm

I read this when it came out, but it was before I’d restarted the site full time, and Pamela Ronald restarted the discussion over on scienceblogs today. Back in May the USDA posted a report on their website about how allowing genetically engineered crops to be certified as organic would have positive environmental effects.

Needless to say the organic movement was not pleased, and the report has since been pulled from the website. Now I previously celebrated the idea that the Obama administration was going to let organic and biotech go head to head and take the best parts of both. I’m confident in the benefits of genetic engineering when people judge the technology based on the data instead of preconceived opinions.

Making reports disappear because they step on the toes of well connected interest groups is not letting the data speak for itself.

h/t’s to Tomorrows Table and Biofortified.

And hey, if you’re willing to spend 10 minutes you can register and vote for Biofortified in the Ashoka Changemakers Contest. There’s a good chance you’ll help win $1500 to support a website fighting the good fight to correct the misinformation about genetic engineering, but even more importantly from my perspective, winning this contest means the guy on the left (yes he’s wearing a corn cob patterned t-shirt) will get a chance to meet with Michael Pollen. There’s also a stuffed corn cob with glasses in the picture.

October 20, 2009

Grafting

Filed under: agriculture,Plants — Tags: , , , , , , — James @ 1:13 am
Grafted Apple Tree

Grafted Apple Tree

Imagine if all it took to replace a lost leg was to put another leg against the amputation site, tie up the wound and let the two grow together. We can do that with plants! We’ve been doing it for thousands of years and it is an important part of crops production for woody plants (think fruit trees).

The technique is called grafting and it really is almost that simple. A branch or stalk* from one plant is cut and attached to another plant of the same or a related species**, making sure to line up the vascular tissue*** of the cut branch and host plant. That connection is covered with grafting wax or grafting compound which keeps the exposed ends of the cuts from drying out which would stress or kill the cells. (more…)

October 17, 2009

Bill Gates at the World Food Prize

Filed under: agriculture,Link Posts — Tags: , , , — James @ 1:07 pm

If you have a few minutes, take the time to either watch or read the speech Bill Gates delivered at the World Food Prize in Des Moines. While I don’t care for the operating system that made him a multi-multi-billionaire, I don’t think anyone can argue that he is doing more good with his wealth than any other member of the superwealthy.

Africa is the only place where per capita cereal yields have been flat over the last 25 years. The average farmer in sub-Saharan Africa gets just over half a ton of cereal per acre. An Indian farmer gets twice that; a Chinese farmer, four times that; an American farmer; five times that. (more…)

October 16, 2009

World Food Prize

Filed under: agriculture,Feeding the world,Plants — James @ 6:41 pm
Iowa sorghum field.

Iowa sorghum field.

The World Food Prize, an award set up by Norman Borlaug to honor others who fought against hunger, was held in Des Moines this week.* The prize went to Gebisa Ejeta, an Ethopian-American plant breeder and geneticist, who developed new breeds of sorghum that increase yields as much as fourfold.

His sorghum breeds deal better with drought, a trait that will become only more important around the world as competition for fresh water increases. Perhaps even more importantly though, they are resistant to striga**, a parasitic weed that attaches to the roots of crops, drawing off nutrients and severely decreasing yield (20-80% less than uninfected fields). Each plant produces tens of thousands of tiny seeds than can lie dormant in the soil for up to twenty years waiting for the best moment to strike, so once a field is infected with striga, it isn’t going away. The common name for striga is witchweed which fits the species perfectly. Striga resistant sorghum is a very good thing.

My appreciation and congratulations go out to Gebisa Ejeta.

*This is the first time the prize has been awarded since Dr. Borlaug passed away.

**On the more basic research side, the study of striga lead to the discovery of a new class of plant signaling molecules strigolactones.

October 15, 2009

Spoiled with Perfect Produce

From teddlerus on flickr

From teddleruss on flickr

Matt over at The Scientist Gardener put up an important post a couple of days ago where he related his own experiences touring a lettuce field:

The crop wasn’t in great shape, but we anticipated a decent harvest. We were shocked to learn that the field had already been harvested! Hundreds of perfectly edible heads lay all around us, left unpicked because they didn’t meet stringent appearance standards for consumer acceptance.

How big an issue imperfection is varies from crop to crop. For a crop like oranges it isn’t one at all, since there’s plenty of demand for orange juice, a use that don’t require visually attractive fruit. Now when it comes to something like cauliflower, or as Matt was talking about lettuce, there’s very little demand for anything other than fresh, whole produce. The rest just goes to waste rotting in fields.

In America it is an issue of consumer preference, and I couldn’t find any statistics on wastage to imperfect fruit. In the European Union it was until recently a matter of government policy. Twenty percent of produce was being thrown away for not meeting government size and shape criteria. This summer the restrictions were removed from 26 type of fruit and vegetables which was expected to cause price drops of up to 40% for some kinds of fresh produce. You could imagine something similar would happen in the US if we as consumers didn’t demand perfect fruits and vegetables, making healthy (if odd looking) food more affordable for everyone.

I’m not sure if there’s a call to action here. Just something to be aware of.

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