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Salt-Tolerant GM PlantsAustralian scientists have developed a technique to make plants salt-tolerant. Writing in the leading plant sciences journal The Plant Cell, Adelaide University researcher Professor Mark Tester and his team explain how they have used genetic techniques to increase the activity, in the plant's root tissue, of a gene called HKT1;1.
The result is that much less sodium makes its way up the plant, preventing damage that would normally occur through high sodium causing shoots and leaves to age prematurely. "This is why plants won't normally grow well on salt-contaminated land because they end up devoting most of their energy to replacing damaged tissues rather than growing. These modified plants, on the other hand, even when cultivated on the equivalent of highly salt-contaminated land, show no ill effects," Tester explains. The team made the discovery using Arabidopsis, the scientist's plant equivalent of a fruit fly, but will it work in important food crops? "We've been able to show this this same trick also works in rice, and we're currently testing cereal crops, like wheat, barley and maize at the moment," says Tester. These latter plant groups have turned out to be slightly trickier to work with because the promoter system - the DNA sequence that that team have used to turn on the sodium-pumping gene in Arabidopsis and in rice - does not appear to work the same way in cereals; instead the team have had to identify an alternative way to boost HKT1;1 activity. The discovery is a major step forward because currently about one third of the world's food is grown on irrigated land, one-fifth of which is now significantly affected by salinity problems. As food demands continue to increase, coupled with the effects of climate change like unreliable rainfall and coastal flooding, the problem is likely to become much worse. Crops that can tolerate conditions like these may be critical in an uncertain future. But are they safe? "We have checked these plants carefully and there is no evidence that the changes we have made are altering the accumulations of other salts or chemicals within the plant with the exception of a small change to the level of potassium," says Tester. "So we're satisfied that these plants do not pose a threat." 12th Jul 2009 World Population DayEvery single minute, a woman dies from pregnancy related causes somewhere in the world. That’s one statement from the Population Institute in Washington made to highlight World Population Day, held by the United Nations Population fund on the 11th of July. Overpopulation is also at the root of more immediate human problems – poverty, HIV/AIDS, childhood illness, access to drinking water and the effectiveness of vaccination programmes are all made worse by being overpopulated. There’s no quick fix for overpopulation, and it’s certainly not something we can solve in a single day, but an awareness of the problems and opportunities can help us, and our governments, make the right decision.
12th Jul 2009 Branched Blood Vessels Slow StatinsThe shape of blood vessels may affect how effective Statins are against preventing heart disease, according to new research published in the Journal of Biological Chemistry this week.
Statins are thought to help by releasing anti-oxidants through boosting levels of an enzyme called heme oxygenase-1, of HO-1, which is created by the endothelial cells that line our arteries. By measuring the levels of HO-1 in different parts of the circulatory system, Dr Justin Mason and colleagues were able to ascertain how useful Statins are under different conditions. They found that the increase of HO-1 was significantly higher in cells exposed to fast, regular blood flow, when compared to areas where blood flow was sluggish. This means that at areas where blood vessels branch and flow is disrupted, Statins show fewer beneficial effects. Unfortunately, arteries do not clog up in a uniform way, and are more likely to develop fatty deposits in the areas where blood moves most sluggishly – exactly where the Statins have least effect. Other research has shown that the cells lining our arteries can sense the ‘shear stress’ exerted by passing blood, and this alters their ability to keep the artery healthy. Dr Mason described this as “a double whammy”. They now intend to work with fluid engineers to discover how to get the best from Statins, and gain the full beneficial effect regardless of the rate and smoothness of blood flow. We already know that Statins are safe and effective, and this research could expose a way to save even more lives. 12th Jul 2009 The Rap Guide to EvolutionBaba BrinkmanChris - Now this week was also Cambridge University’s Darwin Festival. What actually happened was that we’ve had a full week of events which have been designed to celebrate the 200th anniversary of the birth of Charles Darwin who was actually a Cambridge University student. Also, it’s 150 years since he published arguably one of the most famous books of all time, The Origin of Species which effectively rewrote our understanding of the world of biology around us. But one event that took place as part of the festival and really leapt out was a Canadian hip-hop artist - he’s actually an erstwhile medieval historian - His name’s Baba Brinkman, and he unveiled his answer to Darwin which is his Rap Guide to Evolution and he spoke to David Fisher all about it.
David Fisher - This Canadian rapper is no scientist. His area is medieval literature. After applying rap to the Canterbury tales, he was approached by a microbial genomist who asked if he could do for Darwin what he did for Chaucer. Baba read his way through a pile of books on evolutionary biology and out spawned his Darwin show, covering every aspect of the great man’s work. And according to Baba, there’s a curious similarity between the creation, sorry, the growth, the evolution of an artistic work and any living thing.
Chris - That’s rap artist Baba Brinkman from Canada who was able to be here in Cambridge touring with his rap, effectively Darwin set to a rap tune. He was talking to David Fisher who was an honorary member of The Naked Scientists for a week but you’ll normally find him at ABC at Radio National in Sydney, Australia. We’ve actually got a recording of that entire show and we’re going to be publishing it for you as a special podcast on our website later this week. So, if you check out thenakedscientists.com/podcasts, then you should be able to listen to all of Baba Brinkman’s show. July 2009
Confusing coloursConfuse your eyes with this colourful experiment, and find out how it relates to seeing in the dark What you need
What to DoHold a piece of coloured plastic over one eye for 2-3 minutes Take it off... Try looking at the world through one eye and then the other, do you notice anything odd? What happens if you try a different colour of plastic? What may HappenYou should find that when you remove the coloured plastic everything looks the wrong colour. If you used green plastic the world looks purple, yellow slightly blue.
What is going on?
Your eye is constantly doing what is know in the world of photography as white balancing. You see the world in a variety of different coloured lights, a sunny day, a cloudy day and sunset all have very different colours of light so the light bouncing off an object will vary from minute to minute. However you are really interested in what the object is not the exact colour of the light boucing off it, so your eyes compensate. Over a wide range of colours of illumination you will see a white piece of paper as white, you can see how much the colour actually changes by taking photographs with a digital camera with a fixed white balance setting. This white balancing means that if you look at the world through a yellow piece of plastic your eye will try too see a white piece of paper as still white by becoming much more sensitive to blue light. Then when you remove the piece of plastic your eyes take a while to adjust and the world looks blue. How do your eyes do the white balancing?It is actually related to why it takes your eyes a few minutes to adjust to the dark properly. Light is converted into electrical nerve signals by the cells at the back of your eye in your retina. The light is actually absorbed by a proteins in these cells called opsins (visual purple is one). When these absorbs some light they change structure and bleach. This then sets off a chain of chemistry which ends up sending a signal down the optic nerve. Once a molecule of an opsin has been bleached it can't absorb any more light until it has been regenerated. The cell regenerates the opsin at a limited rate, so the brighter the light, the less opsin there is in your photoreceptors, so the less sensitive to light they are. So if you stay in the dark for up to half an hour your eyes will keep getting more sensitive.
You see colour because you have 3 different types of colour sensitive cone cells, each with a slightly different opsin (called photopsins) the different versions are sensitive to different colours of light. This means that if you shine red light on your eye it will use up all the photopsin in your red cones and you will get less sensitive to red light, but it will hardly use up any of the photopsins in your blue and green cones. This has the effect of making a white object look more white - white balancing the image. So when you look at white light again, you will have huge amounts of opsin in your red and blue cones so they will be very sensitve and send a huge signal to your brain so you think the world has gone turquoise until your use up the opsins in the blue and green cones and everything goes back to normal.
? Written by Dave Ansell Deep Sea SightProfessor Ron Douglas, City UniversityChris - It’s The Naked Scientists with Chris Smith and with Ben Valsler. We’re talking about the science of eyes and the visual system this week and in a second, we’ll be finding out what actually is an optical illusion, how does it work, and do bees fall for the same trick. That’s on the way but first, we welcome Professor Ron Douglas. He’s from City University in London. Hello, Ron. Ron - Hello. Chris - Now, you’ve made an amazing discovery about one way in which some fish see things which will come to in just a second. But first of all, tell us first very, very simply, how do eyes work? Ron - Okay. Well as we’ve heard already, it’s important to understand that vision involves both the eye and the brain. And really, in some ways, the eye is like a camera in that it produces an optical image of the world and it then converts that optical image into something that the brain can understand which is a series of electrical signals. So the cornea on the lens of the front of the eye make the image and then the retina as we just heard converts that image into electrical signals which the brain then interpret. Chris - Now one of the things that you’re very interested in is animals that live beneath the sea. The sea is blue for a reason because it soaks up all the red light. That’s why blood doesn’t look red underwater so the people who made Jaws were kind of misleading us a little bit weren’t they because bloods looks a sort of black colour because there’s no red light to illuminate it. So what do animals deep underwater where the spectrum of light is very different, what do they do to accommodate or adapt to that. Ron - Well because of that and in the deep sea, there’s only two sources of light. There’s light from the sun but that’s all gone by about a thousand meters and the ocean is up to 10,000 meters deep and most of the animals that live there have large and fully functional eyes so they clearly must be looking at something. And they are looking at light produced by other animals, that is their looking at bioluminescence. Now this bioluminescence like the sunlight tends to be blue because blue light is just transmitted best by seawater so deep sea animals generally have eyes which only see blue and they’re not at all sensitive to red because as you said, all the red light is gone. Chris - And things like a giant squid have enormous plate-sized eyes presumably because the bigger you make your eyes like the telescopes we use, the bigger the telescope, the more light it can gather. Therefore, the more you can see. Ron - Absolutely! You want a big aperture, so you want a big pupil, so that means you need a big eye. So, you just have a big eye to catch as much light as you can.
Chris - So if you look at the retina in these undersea creatures, are they largely, then because most of these animals that they’re looking at are emitting lights that are bluish, are they mainly picking out blue light? They haven’t got the ability to detect light at the other end of the visual spectrum, like reds and things. Ron - Well I would say 99.9% no. They can’t see reds, but we have found one group of fish, the so-called dragon fish which produce red light. So, they’re producing red light that really nobody can see except they themselves, we’ve shown that they are very sensitive to red light. So, they basically have a secret wavelength. They have a red searchlight stuck on the top of their head and they can use that for instance to illuminate potential prey and the prey just don’t know they’re being looked at. It’s kind of like a sniper scope on the end of a rifle. Chris - It was like an infrared camera I suppose, isn’t it? We can’t see infrared but the person operating the infrared camera can see us because they’re looking in a wavelength regime that we’re not sensitive to. Ron - It’s exactly like that. And of course, they can also use it to talk to each other because down there, all the animals have very big teeth, basically because the density of animals is quite low so you rarely meet your lunch so when you do, you want to make very sure that you can eat it. So, it’s a rough tough place down in the deep sea, but if you have a light that you can flash on and flash off and talk to your friends, you know, for sex or whatever you have on your mind, then nobody else can see that you’re there. Chris - Do they use that to communicate so they can hunt together or is this purely just to attract a mate or to ward people off, “this is my territory, stay away.” Ron - We don’t know because it’s very difficult to make observations on live animals that deep. My guess is it’s mainly for communication. There’s no evidence that they’re territorial and there’s certainly no evidence that they hunt as a pack. Chris - What about these fish that you’ve recently described? Just this one species that don’t have traditional eyes. They actually use mirrors, a bit like some of the funky telescopes that we’re making to look at the heavens these days, use mirrors rather than lenses. How do these fish do that? Ron - Well, they’ve got very interesting eyes because the eyes are made up of two parts. Now, the two sources of light in the oceans we’ve said are the sunlight which of course comes from above. So, a lot of deep sea animals have tubular eyes which point out towards the sky to make the most of the residual sunlight but of course, the bioluminescence which the animals make happens all around you. So if you’ve got these tubular eyes looking upwards, then you’re not going to see all the bioluminescence it’s happening to the side and it’s happening underneath. So, we found these fish that have an eye that are made of two parts. It has a tubular eye looking upwards but it also has a second eye or part of the same eye which actually looks downwards and the interesting thing was while the tubular eye that looks upwards focuses light using a lens, just like anybody else, the eye that looks downwards doesn’t have a lens in it. Instead, it has a mirror and it focuses light using a mirror. Chris - When you say mirror, what tissue is doing that? How have they evolved to be able to reflect light rather just absorb it or focus it? Ron - I think most of the scene, when we look at nocturnal animals, something like a cat or maybe a deer, when you catch it in the headlights of your car, they’re eyes suddenly light up and that’s because animals that live in low light levels have a reflective layer behind their light sensitive cells called the tapetum, so that the light that goes through the retina and isn’t absorbed by it, gets bounced back, so the retina has a second chance of absorbing it. So, most of animals including deep sea fish have these reflective tapeta and this mirror is really just a modification of this reflective tapetum. Chris - Is it evolutionarily, the same origin then as the dog and the cat and the deer and the cow and the horse or is it evolved independently? Ron - No. It’s absolutely the same. It’s made of the same chemicals. It’s made up of plates of a crystal called guanine. It’s identical in every way. Chris - Fantastic! Thank you, Ron. That’s Ron Douglas, he’s from City University. July 2009 Paying AttentionProfessor Alex Thiele, Newcastle UniversityBen - Now, that’s how the eye itself works even in some very unusual circumstances but an eye alone isn’t much use without a brain to interpret what the pictures mean. It’s not fully understood just yet how the brain interprets information from the eyes. There have been some very great advances recently. A Japanese team could predict what letter was being read just by looking at brain activity alone for example. But we do still have a long way to go. Now one problem is the issue of attention. How does the brain know what’s important in any given view? Professor Alex Thiele is from Newcastle University where he’s trying to work this out.
Ben - Attention is a word that we use in common language a lot. We pay attention to a television program we’re interested in or we pay attention to the weather broadcast for example to know what’s coming up. Does it mean the same thing for you as it would do in common parlance? Alex - In a way it does, and at the same time it doesn’t. I think until a few years ago, attention was used in a fairly restrictive manner but most people now start to argue that attention really is just the process that allows us to use task relevant information appropriately. So if we are involved in a certain task, then we have to pay attention to the aspects that allow us to do the task. In tennis its one specific set of aspects looking at the ball making sure our movements are right. If we watch the weather forecast, it’s a different task. So attention really allows task relevant information to be processed adequately, and non-task relevant information to be excluded from interference. Ben - So, how do we know what’s going on in the brain while we’re diverting our attention to one particular thing?
Ben - The brain is a phenomenally complicated and wonderful thing but it does have a tendency to go wrong. Are there processes where this attention can break down? Alex - We are all distractible. There are diseases where attention doesn’t work properly anymore. I mean Alzheimer’s disease is one example, late stages of Parkinson’s, certain stroke types show that attention doesn’t work properly. In everyday life it would be more distractibility, that we can’t focus properly, but how this actually happens in everyday life. I don’t think people understand properly yet. Ben - And one of the things you’re looking at is brain chemistry. How do the different chemicals in the brain translate to paying attention? Alex - Well we know very little about that. We know that certain chemicals which are called modulators like acetylcholine or dopamine or an adrenaline play some role in attention but exactly what role they play is still very little researched. I mean we recently were able to demonstrate for one particular part of the brain, the primary visual cortex, that acetylcholine mediates its effect through a specific receptor type but that is just in this one particular area. All the other areas are still, its unknown how acetylcholine works there. It is also at least to a large extent unknown how for example dopamine contributes to attention in a very detailed and mechanistic manner. And then there are the more traditional neurotransmitters like glutamate which acts through certain receptors again where specific receptor type may or may not contribute to attention. So we’re just about to begin to understand how these different brain chemicals contribute to various aspects of attention and also to what aspects of attention because as I’ve said at the outset, attention is a complex phenomenon. It allows task relevant information to be processed and different neurotransmitters may allow different types of task relevant information to be processed accurately so it’s, and well in a way fortunately, but at the same time unfortunately, a rather complicated interplay of all these brain chemicals. Ben - So there’s so much still to learn. This is really exciting stuff. He was a wonderful chap to talk to and really it is an interesting question of what does attention mean to me and what does it mean to him and what it means to other people. So there you go, that is Professor Alex Thiele from Newcastle University, explaining how the brain relies on coordinated nerve activity and a whole cocktail of chemicals in order to pay best attention to the world, depending on exactly what you’re doing at the time. July 2009
Learning from Bee BrainsBeau Lotto, University College LondonBen - The only visual information we have about the outside world, thinking about it objectively is patterns of light that fall on our eyes. We’ve just heard how the brain can interpret that light differently depending on what you’re doing at the time. But actually, all this means that we don’t really see what’s really there, the context itself is important. To find out why, Beau Lotto from the University College London is looking at optical illusions, and finding out how bees see the world. Meera Senthilingam went along to have her eyes fooled... Beau - So what we’re looking at is a very well-known, very simple illusion called simultaneous brightness contrast and so we see two small squares and each of those squares is on two different surrounds. Meera - Yes. Looking at this, there are two grey squares. One’s on a darker grey background and one’s on a white background and to me now, these two smaller grey squares look like different shades of grey. Beau - That’s right. But if you put up a photometer, if you put up a light measurer to them, you would find out that those smaller squares are physically the same. Their emitting the same amount of light to your eye and yet they look differently bright. Now most textbooks would say, the reason for this is simply that one is on a light surround and one is on dark surround but that answer can’t be right because I can also create an illusion where something on a dark surround looks darker than something on a light surround. The illusion goes exactly the opposite direction. So it can’t simply be about, it’s the lightness and the darkness of the surround that matters. The argument here is what those relationships meant for your behaviour in the past?
Meera - So having used all these images and knowing what you know so far, do you know much about the actual physiology and the mechanisms going on in our brains that cause us to see these illusions in this way. Beau - Well to understand how we see illusions is to understand how we see generally. And what this work suggests is that the only way we can understand perception is to quantify our history of experience or with humans, this is very difficult because our history is for the most part lost to us. But fortunately, to understand something like seeing colour and dealing with the ambiguity of light stimuli, we don’t need to work, focus on humans when in fact, we don’t even need to focus on mammals. We can look at insects and in particular, we can look at bumblebees. So the beautiful thing about bumblebees is that they see colour and we see colour. Their brain is able to resolve the ambiguity of light stimuli and the wonderful thing about bumblebees as opposed to honeybees is that we can completely control their visual experience which means that we can raise them in an environment where we know everything about the colours that they have seen. And we can look to see how that experience shapes itself in the architecture of their brain and also the resulting behaviours. Meera - So how do you know ago about testing these bees because I just now have an image of you showing lots of illusions to bees.
Meera - And this is all not just through the training of them from their birth but it actually just goes through the past evolution of the bees and of us humans. Beau - That’s true so we come into the world with the ability to encode relationships. When we talk about experience, we don’t distinguish between evolutionary history or development or memory. Basically, they’re all different ways of doing the same thing which is to shape the brain according to its trial and history of experience. Meera - So you now know this about the bees’ behaviour but what are you working on now and next in order to understand just what’s going on inside the brain? Beau - So what we want to do now is trying to discover how those relationships are actually encoded in the structure of their brain and to do that, we can take little electrodes which are fine, fine wires and stick them into the brain of the bee and we can listen to their brain cells while they see the history of their own visual experience. The reason why we do it in humans and bumblebees is that these are very, very different types of brains taking the same kind of information coming up with the same solution. And if we can understand how both types of brains do it, then we can understand the principle that is relevant to both. July 2009
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