Transgenic salmon

One of the major concerns about transgenic plants and animals has always been that they could escape and that transgenes could then spread into wild populations with mostly unforeseeable consequences. ((Contribution by Michael Kubisch)) For most farmed animal species, cattle, goats or sheep for example, this is not much of a problem because there are no true wild populations with which escapees could hybridize. However, farmed fish, such as salmon or catfish, do have wild relatives, reproduce relatively fast and farmed fish do occasionally escape into the wild, even in large numbers. This has led to a number of estimates and models of what impact such transgenic escapees might have on resident fish populations or on their prey species.

A recent article tells a cautionary tale about the value of such predictions by demonstrating that advantages which transgenic animals have “down on the farm”, such as a faster growth rate if they carry extra copies of the growth hormone (GH) gene, may in fact be less obvious  in the wild. The article describes a study in which GH-transgenic and wild-caught coho salmon were compared in either a conventional hatchery or a simulated natural environment. Under hatchery conditions, in which fish were fed a commercially available diet, the transgenic salmon grew to nearly three times the size of their wild cousins. However, in the natural environment, in which fish were exclusively fed natural food items, transgenics had only a 20% weight advantage. When the salmon were introduced to prey species, in this case trout fry, the impact of transgenic animals on their prey was reflective of their environment and size and the impact of transgenics on prey was much reduced.

While this says relatively little about the actual impact of transgenic escapees on resident fish populations, it does show that accurate predictions may be much harder to come by than previously assumed.

Green Revolution 2.0

We’ve blogged before about reaction to the Alliance for a Green Revolution in Africa, funded by the Bill and Melinda Gates Foundation and the Rockefeller Foundation. A significant portion of the $150 million earmarked for the Alliance will go into improving crop varieties, using both conventional breeding and biotechnological approaches. Two more takes on the whole thing came out today. Here, the great Ethiopian plant genetic resources conservationist Melaku Worede talks about what went wrong with the first Green Revolution, and what he fears will happen in Africa if the same thing is tried there. While here you can read about how high-placed politicians in Mozambique say the country is “striving toward a green revolution to improve and diversify agriculture and increase food production” and are putting their money where their mouths are.

P.S. Incidentally, the BBC World Service has a new series called “Feeding the World,” and the first programme is about the Green Revolution. You can download a podcast here.

Buzz on GM crops and bees

We’ve written a bit here about pollinator problems. The looming shortage of bees in the US, and in Spain. We pointed to a piece that said maybe the problems in the US weren’t any worse than they had been, just better reported. Maybe the problem is monoculture? Throughout the recent buzz of hive-related news, though, we’ve ignored a few items that laid the blame on GMO crops. Why? Because they seemed a bit shrill, maybe even a tad one-sided. But a long and apparently comprehensive piece in the German news magazine Der Spiegel is neither shrill nor one-sided. And it seems to adduce good evidence that bees who are suffering a parasite infestation are abnormally susceptible to pollen from maize engineered to express the Bt bacterial toxin from Bacillus thuringiensis.

The work Der Spiegel reports is a long way from conclusive. But it does give pause for thought, and it is causing huge excitement among opponents of GM in all its forms. At the very least, it deserves a closer look. But wouldn’t it be weird if it proved true? And how would industrial agriculture respond?

Water buffalo diversity

Michael Kubisch is a geneticist and reproductive physiologist working at the Tulane National Primate Research Center in the New Orleans area. He’s sent us his take on a recent paper on the genetics of the water buffalo. We really welcome this kind of contribution from our readers. Keep ’em coming! Here’s what Michael has to say:

Results of an interesting study by Chinese researchers have just been published, describing an extensive analysis of the genetics of Chinese swamp water buffalo (Bubalus bubalis). The Chinese swamp-type buffalo differs from the Indian river-type buffalo by the fact that it has 48 chromosomes compared to the 50 found in the latter. There is a third subspecies, the wild water buffalo, which may still exist in Southeast Asia, although its population size and genetic status are unknown and the animal is listed on the IUCN red list as being threatened. Based on analysis of mitochondrial DNA (which is solely inherited from one’s mother and consequently ideal for tracing maternal inheritance patterns), it appears that river and swamp buffalo split about 28,000 years ago with a further split in the swamp buffalo into two maternal lines taking place about 18,000 years ago. The genetic diversity varies between the two swamp buffalo matrilines in China and the authors suggest that the difference between the two lines might in part be due to the fact that occasional genetic introgression from wild swamp buffalo might have taken place into one of the lines. Interestingly, domestication of water buffalo seems to have occurred independently in India and China, most likely as a result of rice cultivation. Substantial numbers of water buffalo outside exist Asia, among other countries in Italy, where, as any cheese afficionado will know, their milk is used for the production of mozzarella.

Mapping underutilized genomes

It seems you can hardly open a newspaper these days — or open a news website — without reading that someone somewhere has mapped yet another genome, whether human, Neanderthal, sheep, mouse or bee. It hasn’t received any press coverage at all, but the taro (Colocasia esculenta) genome has now been added to the list. CIRAD scientists working in Vanuatu, in the South Pacific, and others just announced this at the recent meeting of the International Society for Tropical Root Crops held in Kerala, India.

One thing to note is that these are not all really genome mapping projects. Despite the many headlines to that effect, scientists are not mapping the Neanderthal genome. What they’re doing is sequencing it — or a small bit of it. There is a difference.

Sequencing means determining the (correct!) order of all the DNA bases — the letters of the genetic code — of an organism. Besides some very fancy hardware and software, you need the DNA of just one individual to do this. Mapping is both rather less and rather more.

Less, because it only aims to determine the relative location of some major landmarks of the genome. That is, not the order of all the letters in the book of life, but rather the relative positions of the pages where some choice quotations can be found.

More, because some of those genomic landmarks may be close to genes associated with predisposition to a disease or some other interesting trait. To find that out you need DNA from whole families, or populations, rather than a single individual — in the case of taro, the family was all the progeny from a couple of crosses between local ni-Vanuatu varieties. You trace the inheritance of the trait you’re interested in together with that of specific “markers” (any observable variation in the DNA sequence), and, hey presto, if you’re lucky you have a much more readily documented proxy for the trait.

With the new genome map, we now have genetic proxies for things like the yield and dimensions of the underground corm of taro. This edible aroid is an important staple in Oceania and parts of South and South East Asia, Africa and the Caribbean, but there are few breeding programmes around the world, which is why it often ends up on lists of so-called “neglected and underutilized species.” This map should make it easier to screen the hundreds of seeds that can result from crossing two varieties and select only the best individuals for further testing (this is called marker-assisted selection). It should therefore stimulate people to set up taro improvement programmes.

These are much needed. Mainly vegetatively propagated by farmers, taro is genetically fairly uniform in many places, making it susceptible to pests and diseases. It was almost wiped out in the South Pacific country of Samoa in the mid-1990s by taro leaf blight, a fungal disease. It has recovered at least in part because a regional project (called TaroGen) was set up by Pacific countries with support from Australia to breed — in collaboration with farmers — and disseminate resistant varieties.

Biotechnology means GMOs to many people, but this is a case where biotechnology is facilitating conventional breeding — nothing to do with genetic engineering. It may not have made the news like other mapping projects, but the new genome map means taro breeding should prove a little bit easier in the future.