biotechnology
sporte | September 23, 2008Every fall, we had to confront it. People would let their dogs run around on the field in the morning and by the time soccer practice started, the field would be full of deadly doo.
There's nothing that hurts soccer practice more than a soccer ball or shoes that went through a pile of dog poo.
That's why I'm so exciting to see this new application for DNA testing. That's right. Kids will be able to play soccer without worry and dog owners will be held responsible for cleaning up after their pets.
The forward thinking city that's going to implement this plan is Petah Tikva, in Isreal.…
edyong | September 19, 2008Genetically modified crops have received a frosty welcome in the UK, and more widely in Europe. Those opposed to such crops worry (among other things) that they could affect the flora around them by outcompeting them or by spreading their altered genes in a round of genetic pass-the-parcel. Now, a new study shows that genetically-modified crops does affect surrounding plants - but in a positive way.
Kong-Ming Wu from the Chinese Academy of Agricultural Sciences found that genetically modified cotton designed to kill an insect pest can also protect other species plants from its jaws. In…
sporte | August 25, 2008A few days ago, I wrote about a cool project that some high school students did where they used DNA sequencing to identify seafood.
One question that came up from one of my commenters was how a school would start a project like this. I'm totally biased, but I think DNA sequencing (well, actually the data analysis) is one of the most interesting things that a class can do as part of a research project. These days, getting started with this kind of project, wouldn't be so hard.
Here's are some ways that I would get started:
Find an existing project where my students could collaborate and get…
sporte | August 22, 2008Two teenagers, Kate Stoeckle and Louisa Strauss, carried out their own science project over the past year. They visited 4 restaurants and 10 grocery stores and gathered 60 samples of fish and sent them off to the University of Guelph to get sequenced.
I like this story. One of my former students did a project like this for the FDA years ago, sampling fish from the Pike Place Market and identifying them with PCR. He was an intern, though. Here we have students identifying sushi on their own!
Quoting the New York Times article:
They found that one-fourth of the fish samples with…
edyong | August 16, 2008
Imagine reading the paper to find that a new wonder drug has been created that could save your life, if only you could afford it. Alternatively, put yourself in the shoes of the authorities that must decide not to offer powerful new drugs on the NHS because they simply aren't cost-effective enough. These situations are all too common-place and are often due to the extremely high costs of drug development. But a couple of years ago, scientists at Icon Genetics and Bayer Bioscience made an exciting step toward lowering these costs for some of the most promising new treatments.
The…
sporte | August 15, 2008Vaccines work by stimulating the immune system to respond to a specific thing. Most of the vaccines we use are designed to prime the immune system so that it's ready to fight off some kind of disease, like whooping cough, polio, or influenza. Some vaccines can have more specialized functions, like stimulating the body to attack cancer cells, kill rogue autoimmune cells, or prevent pregnancy. We'll look at what they do in later posts, for now, let's look at the kinds of things that can be used as vaccines.
It's an amazing assortment. Even more amazing is that these items don't all work in…
sporte | August 10, 2008It justs gets weirder and weirder.
moar funny pictures
You can find more of the story and more puppy pictures here.
H/T to Jennifer - one of erv's commeters.
sporte | August 7, 2008"Did you know," my friend whispered, "that the Humane Society funds terrorists?"
I was stunned. What? That's crazy! I've adopted pets from there. No way! How could those be the same people??
My friend and I were suffering from "brand confusion." In business, this happens when different companies use similar names for their products in order to confuse the marketplace. In the animal rights movement, brand confusion is used to misdirect the funds that would otherwise help groups who do genuine humanitarian work.
As I learned in "The Animal Research War" by P. Micheal Conn and James Parker…
sporte | August 7, 2008Leave it to those wacky Korean cloners. In December, scientists from Gyeongsang National University gave us fluorescent kitties. Now, we have cute little puppies!
These aren't the first cloned pets on the market, we have stores that sell glowing fish. But these clones have a bit higher price tag. For $50,000 Bernann McKinney got 5 new "Boogers" from RNL Bio; "Booger McKinney," "Booger Lee," "Booger Ra," "Booger Hong and "Booger Park." That's $10,000 a Booger!
Still, who can resist these cute little boogers? I have a picture of the puppies below the fold and as you can see, they're…
sporte | August 6, 2008This the third part of case study where we see what happens when high school students clone and sequence genomic plant DNA. In this last part, we use the results from an automated comparison program to determine if the students cloned any genes at all and, if so, which genes were cloned. (You can also read part I and part II.)
Did they clone or not clone? That is the question.
But first, we have to answer a different question about which parts of their reads are usable and which parts are not. (A read is the sequence of bases obtained from a chromatogram file.)
How does our data get…
sporte | August 5, 2008start all over again.
MDRNA Inc., a Puget Sound area company formerly known as Nastech, announced on Monday that they'd be laying off 23 people including their president and chief business officer. This might not sound like a lot, but according to Joseph Tartakoff, from the Seattle PI, this brings the total number of layoffs up to 145 since November.
These events present a challenge to those of us who teach in biotech programs or biotech-related fields. Nastech, the predecessor to MDRNA had been around for over 20 years. Who would expect a 20+ year company to shed three quarters of it's…
sporte | August 5, 2008This the second part of three part case study where we see what happens when high school students clone and sequence genomic plant DNA. In this part, we do a bit of forensics to see how well their sequencing worked and to see if we can anything that could help them improve their results the next time they sequence.
How well did the sequencing work?
Anyone who sequences DNA needs to be aware of two kinds of problems that afflict their results. We can divide these into two categories: technical and biological.
Technical problems are identified using quality values and the number of bases…
terrasig | July 26, 2008Jake Young, the MD/PhD student blogging at Pure Pedantry, has a great post this week on the detection of a novel formulation of the erythropoiesis stimulating agent (ESA) erythropoietin in Riccardo Riccó, the Italian cyclist who was thrown out of the Tour de France. Jake's post is a superb primer on the use of this peptide hormone as a therapeutic agent (in the anemia caused by kidney failure and in cancer chemotherapy).
His essay also reminds me that I commented on this issue at DrugMonkey's a post exactly a week ago (and from this same couch at my local coffee shop while waiting for…
zooillogix | June 23, 2008No one quite knows when the Light Brown Apple Moth arrived on the shores of California, but after DNA identification in 2007, it wasted no time pitting the California Department of Food and Agriculture and the populace of San Francisco against one another. Today the CDFA announced a new strategy for the eradication campaign: releasing bioengineered sterile moths to lure-in amorous males.
Ever tried to neuter a moth? Not easy...
Indigenous to Australia, the non-descript moth breeds prolifically with an average of three broods generations per year. However, much like Paul Hogan before it, the…
sporte | June 20, 2008
"Let this sleepin' dog lie, son. Dog-gone it, I'm dog tired. I'm tired of leading the dog's life and fightin' likes cats and dogs against cats and dogs, a young pup's doggin' my trail tryin' to become top dog. I'm going to the dogs in a dog eat dog world, son. I... I'm so far over the hill... I'm on the bottom of the other side. "
- Wylie Burp from Fievel Goes West
I don't know why I find these stories about cloning puppies so interesting, but...
Someone sent me a press release on a dog fight between cloning companies.
It turns out that there's a third company, from South Korea, that's…
sporte | June 16, 2008Pet cloning is back!
Pets are funny things. Some owners find their pets to be closer than some human friends, other owners never really bond with their pets at all.
BioArts, a California biotech company, founded by ex-CEO of the now defunct Genetic Savings & Clone, is counting on the strength of those human-dog emotional bonds .
I've had several pets during the course of my life; dogs, cats, fish, scorpions, spiders, frogs, turtles, gerbils, and a hermit crab. Some pets were really easy to train and live with and some - well, let's just say some were more challenging. So, I…
sporte | June 12, 2008Students in the United States take many convoluted and unnecessarily complicated paths when it comes to finding careers in biotechnology. If Universities and community colleges worked together, an alternative path could benefit all parties; students, schools, industry, and the community.
The image below illustrates the current paths and the approximate time that each one takes.
I was at two meetings recently, one in Arizona and the Bio-Link workshop in Berkeley, where we spent time discussing the paths to careers in the biotech industry. You might think, if you consider the number of years…
sporte | June 4, 2008Have you ever wondered what kinds of viruses can be found in human waste?
Mya Breitbart and team have been sequencing nucleic acids from fecal samples in order to find out. You might expect that we'd find viruses that infect humans or viruses that infect the bacteria in our gut.
I wouldn't have expected to learn the result that they found.
A large number, 60% of the viral DNA sequences were from unknown viruses. That's not a surprise. The surprise came when they looked at the RNA viruses.
Instead, the viral sequences most often came from a plant pathogen called the pepper mild mottle…
sporte | June 4, 2008I'm in Berkeley right now at the annual Bio-Link Summer Fellows forum. We're getting to hear talks from people in the biotech industry, listen to enthusiastic instructors describe their biotech programs and ideas, and try out new educational materials.
Yesterday, two speakers (Damon Tighe and Jason Baumohl) from the Joint Genome Institute in Walnut Creek, CA, gave a fun talk about DNA sequencing and sequence assembly.
They also showed some very nice Flash animations, made by Damon Tighe, at the JGI, that illustrate how DNA sequencing is done. There's no sound, but the animations are…
sporte | June 3, 2008A little over ten years ago, Dr. Elaine Johnson obtained funding from the National Science Foundation to start Bio-Link, an Advanced Technology Education center, focused on biotechnology. Since that time, Dr. Johnson has become a national leader in biotech education, enlisting the country's top educators and industry captains to ensure that community college students receive a quality education and the best preparation possible for entering the workforce.
In this radio interview from Tech Nation, Dr. Johnson talks with Dr. Moira Gunn about the easiest way to a biotech career.
A Career in…