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Showing posts with label dna. Show all posts
Showing posts with label dna. Show all posts

Wednesday, 4 January 2017

Zinc eaten at levels found in biofortified crops reduces 'wear and tear' on DNA

A new study by researchers from the UCSF Benioff Children's Hospital Research Institute (CHORI) shows that a modest 4 milligrams of extra zinc a day in the diet can have a profound, positive impact on cellular health that helps fight infections and diseases. This amount of zinc is equivalent to what biofortified crops like zinc rice and zinc wheat can add to the diet of vulnerable, nutrient deficient populations.

The study, published in the American Journal of Clinical Nutrition, was led by CHORI Senior Scientist Janet King, PhD. King and her team are the first to show that a modest increase in dietary zinc reduces oxidative stress and damage to DNA.

Zinc Acetate. By Chemical interest (Own work (Original text: self-made)) [Public domain], via Wikimedia Commons
"We were pleasantly surprised to see that just a small increase in dietary zinc can have such a significant impact on how metabolism is carried out throughout the body," says King. "These results present a new strategy for measuring the impact of zinc on health and reinforce the evidence that food-based interventions can improve micronutrient deficiencies worldwide."

Zinc is ubiquitous in our body and facilitates many functions that are essential for preserving life. It plays a vital role in maintaining optimal childhood growth, and in ensuring a healthy immune system. Zinc also helps limit inflammation and oxidative stress in our body, which are associated with the onset of chronic cardiovascular diseases and cancers.

Around much of the world, many households eat polished white rice or highly refined wheat or maize flours, which provide energy but do not provide enough essential micronutrients such as zinc. Zinc is an essential part of nearly 3,000 different proteins, and it impacts how these proteins regulate every cell in our body. In the absence of sufficient zinc, our ability to repair everyday wear and tear on our DNA is compromised.

In the randomized, controlled, six-week study the scientists measured the impact of zinc on human metabolism by counting DNA strand breaks. They used the parameter of DNA damage to examine the influence of a moderate amount of zinc on healthy living. This was a novel approach, different from the commonly used method of looking at zinc in the blood or using stunting and morbidity for assessing zinc status.

According to King, these results are relevant to the planning and evaluation of food-based solutions for mitigating the impact of hidden hunger and malnutrition. King believes that biofortification can be a sustainable, long-term solution to zinc deficiency.

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Tuesday, 15 November 2016

What molecules you leave on your phone reveal about your lifestyle

We leave behind trace chemicals, molecules and microbes on every object we touch. By sampling the molecules on cell phones, researchers at University of California San Diego School of Medicine and Skaggs School of Pharmacy and Pharmaceutical Sciences were able to construct lifestyle sketches for each phone's owner, including diet, preferred hygiene products, health status and locations visited. This proof-of-concept study, published November 14 by Proceedings of the National Academy of Sciences, could have a number of applications, including criminal profiling, airport screening, medication adherence monitoring, clinical trial participant stratification and environmental exposure studies.

"You can imagine a scenario where a crime scene investigator comes across a personal object - like a phone, pen or key - without fingerprints or DNA, or with prints or DNA not found in the database. They would have nothing to go on to determine who that belongs to," said senior author Pieter Dorrestein, PhD, professor in UC San Diego School of Medicine and Skaggs School of Pharmacy and Pharmaceutical Sciences. "So we thought - what if we take advantage of left-behind skin chemistry to tell us what kind of lifestyle this person has?"

Mobile phone evolution. By Anders (Own work) , via Wikimedia Commons

In a 2015 study, Dorrestein's team constructed 3D models to illustrate the molecules and microbes found at hundreds of locations on the bodies of two healthy adult volunteers. Despite a three-day moratorium on personal hygiene products before the samples were collected, the researchers were surprised to find that the most abundant molecular features in the skin swabs still came from hygiene and beauty products, such as sunscreen.

"All of these chemical traces on our bodies can transfer to objects," Dorrestein said. "So we realized we could probably come up with a profile of a person's lifestyle based on chemistries we can detect on objects they frequently use."

Thirty-nine healthy adult volunteers participated in Dorrestein's latest study. The team swabbed four spots on each person's cell phone - an object we tend to spend a lot of time touching - and eight spots on each person's right hand, for a total of nearly 500 samples. Then they used a technique called mass spectrometry to detect molecules from the samples. They identified as many molecules as possible by comparing them to reference structures in the GNPS database, a crowdsourced mass spectrometry knowledge repository and annotation website developed by Dorrestein and co-author Nuno Bandeira, PhD, associate professor at the Jacobs School of Engineering and Skaggs School of Pharmacy and Pharmaceutical Sciences at UC San Diego.

With this information, the researchers developed a personalized lifestyle "read-out" from each phone. Some of the medications they detected on phones included anti-inflammatory and anti-fungal skin creams, hair loss treatments, anti-depressants and eye drops. Food molecules included citrus, caffeine, herbs and spices. Sunscreen ingredients and DEET mosquito repellant were detected on phones even months after they had last been used by the phone owners, suggesting these objects can provide long-term composite lifestyle sketches.

"By analyzing the molecules they've left behind on their phones, we could tell if a person is likely female, uses high-end cosmetics, dyes her hair, drinks coffee, prefers beer over wine, likes spicy food, is being treated for depression, wears sunscreen and bug spray - and therefore likely spends a lot of time outdoors - all kinds of things," said first author Amina Bouslimani, PhD, an assistant project scientist in Dorrestein's lab. "This is the kind of information that could help an investigator narrow down the search for an object's owner."

There are limitations, Dorrestein said. First of all, these molecular read-outs provide a general profile of person's lifestyle, but they are not meant to be a one-to-one match, like a fingerprint. To develop more precise profiles and for this method to be more useful, he said more molecules are needed in the reference database, particularly for the most common foods people eat, clothing materials, carpets, wall paints and anything else people come into contact with. He'd like to see a trace molecule database on the scale of the fingerprint database, but it's a large-scale effort that no single lab will be able to do alone.

Moving forward, Dorrestein and Bouslimani have already begun extending their study with an additional 80 people and samples from other personal objects, such as wallets and keys. They also hope to soon begin gathering another layer of information from each sample - identities of the many bacteria and other microbes that cover our skin and objects. In a 2010 study, their collaborator and co-author, Rob Knight, PhD, professor in the UC San Diego School of Medicine and Jacobs School of Engineering and director of the Center for Microbiome Innovation at UC San Diego, contributed to a study in which his team found they could usually match a computer keyboard to its owner just based on the unique populations of microbes the person left on it. At that time, they could make the match with a fair amount of accuracy, though not yet precisely enough for use in an investigation.

Beyond forensics, Dorrestein and Bouslimani imagine trace molecular read-outs could also be used in medical and environmental studies. For example, perhaps one day physicians could assess how well a patient is sticking with a medication regimen by monitoring metabolites on his or her skin. Similarly, patients participating in a clinical trial could be divided into subgroups based on how they metabolize the medication under investigation, as revealed by skin metabolites - then the medication could be given only to those patients who can metabolize it appropriately. Skin molecule read-outs might also provide useful information about a person's exposure to environmental pollutants and chemical hazards, such as in a high-risk workplace or a community living near a potential pollution source.

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Wednesday, 1 June 2016

Rosetta’s comet contains ingredients for life

Ingredients crucial for the origin of life on Earth, including the simple amino acid glycine and phosphorus, key components of DNA and cell membranes, have been discovered at Comet 67P/Churyumov-Gerasimenko.

The possibility that water and organic molecules were brought to the early Earth through impacts of objects like asteroids and comets have long been the subject of important debate.

While Rosetta's ROSINA instrument already showed a significant difference in composition between Comet 67P/C-G's water and that of Earth, the same instrument has now shown that even if comets did not play as big a role in delivering water as once thought, they certainly had the potential to deliver life's ingredients.

ESA/Rosetta/NAVCAM, CC BY-SA IGO 3.0 [CC BY-SA 3.0-igo (http://creativecommons.org/licenses/by-sa/3.0-igo)], via Wikimedia Commons
While more than 140 different molecules have already been identified in the interstellar medium, amino acids could not be traced. However, hints of the amino acid glycine, a biologically important organic compound commonly found in proteins, were found during NASA's Stardust mission that flew by Comet Wild 2 in 2004, but terrestrial contamination of the collected dust samples during the analysis could not be ruled out. Now, for the first time, repeated detections at a comet have been confirmed by Rosetta in Comet 67P/C-G's fuzzy atmosphere, or coma.

The first detection was made in October 2014, while most measurements were taken during the perihelion in August 2015 - the closest point to the Sun along the comet's orbit while the outgassing was strongest. "This is the first unambiguous detection of glycine in the thin atmosphere of a comet," says Kathrin Altwegg, principal investigator of the ROSINA instrument at the Center of Space and Habitability of the University of Bern and lead author of the study. The results are now being published in Science.

Glycine is very hard to detect due to its non-reactive nature: it sublimates at slightly below 150°C, meaning that little is released as gas from the comet's surface or subsurface due to its cold temperatures. "We see a strong correlation of glycine to dust, suggesting that it is probably released from the grains' icy mantles once they have warmed up in the coma, perhaps together with other volatiles," says Altwegg. At the same time, the researchers also detected the organic molecules methylamine and ethylamine, which are precursors to forming glycine. Unlike other amino acids, glycine is the only one that has been shown to be able to form without liquid water. "The simultaneous presence of methylamine and ethylamine, and the correlation between dust and glycine, also hints at how the glycine was formed," says Altwegg.

Another exciting detection by ROSINA made for the first time at a comet is of phosphorus. It is a key element in all living organisms and is found in the structural framework of DNA and RNA.

"The multitude of organic molecules already identified by ROSINA, now joined by the exciting confirmation of fundamental ingredients like glycine and phosphorus, confirms our idea that comets have the potential to deliver key molecules for prebiotic chemistry," says Matt Taylor, Rosetta project scientist of the European Space Agency ESA. "Demonstrating that comets are reservoirs of primitive material in the Solar System, and vessels that could have transported these vital ingredients to Earth, is one of the key goals of the Rosetta mission, and we are delighted with this result."

Story Source:

The above post is reprinted from materials provided by University of Bern. Note: Materials may be edited for content and length.

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Friday, 26 April 2013

Want to extract your own DNA?


As shown recently by Professor Brian Cox on the BBC TV Series Wonders of Life it is possible using a few household ingredients to extract your own DNA.
 
DNA, or Deoxyribonucleic Acid, is the genetic material of nearly all living organisms on the planet Earth and, as such, can be called the basic building block of life. In 1953, James Watson and Francis Crick unveiled their discoveries about DNA and the double helix model, which formed the basis of genetic coding.

DNA - A Brief Description
DNA is located in the cell nucleus as the basic structure of the genes, and is composed of two strands of nucleic acid made up of units called nucleotides, wound around each other to form a double helix shape.

Nucleic acids, called that because they were discovered in cell nuclei, are long organic polymers that contain carbon, hydrogen, oxygen, nitrogen and phosphorus, forming the inherited genetic material inside each cell. In humans, each gene is a segment of DNA and controls protein synthesis, regulating most of the activities that take place in the cells.

The DNA molecule can make exact copies of itself by the process of replication, thereby passing on hereditary information - so determining all physical (and some would argue, personality) traits. This enables DNA to be used to identify gender, hair and eye colour, and other genetic markers.


To extract DNA at home you will need the following:
•saline solution (a glass of salty water)
•a clean glass
•1 tsp (5ml) washing-up liquid/detergent
•3 tsp (15ml) tap water
•a clean teaspoon
•a bottle of ice-cold alcohol (gin or vodka are excellent, as many people keep these in the freezer2. If you don't have strong booze available, any alcohol will do, such as rubbing alcohol.)
•a mouthful of spit


Method
  1. Swill out your mouth with the saline solution for about 30 seconds. This is to collect the DNA contained in your saliva, and around the walls of your cheeks.
  2. Spit the contents of your mouth into a glass containing a mix of three teaspoons of water and one teaspoon of washing-up liquid/detergent. You are thus (hopefully) transferring the DNA from your cheek cells into the solution.
  3. Stir this mix slowly and gentlyfor a couple of minutes. During this process it is necessary to break up tissue (in this case, cheek cells) mechanically, and then to degrade both the cell membranes and those surrounding the nuclei - releasing the DNA contained within them
  4. Now pour (slowly!) some of the ice-cold alcohol carefully down the inside of the glass, allowing it to settle on top of the solution. DNA is insoluble in cold alcohol and while there will be a few bubbles, the other compounds in the mixture will dissolve, and the DNA will separate from the other ingredients. Leave it for about two to three minutes for this to happen
  5. If you are lucky you will see a spindly white substance, maybe clumps of it if you are really careful, forming on top of the salt/detergent mixture. Be patient - it will happen slowly. The resulting 'goo' is unique to you; it is your very own DNA!
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Or watch Professor Brian Cox in action below.

http://www.bbc.co.uk/programmes/p01466mm