Bacterium engineered with DNA in which thymine is replaced by synthetic building block

The genetic information of all living cells is stored in the DNA composed of the four canonical bases adenine (A), cytosine (C), guanine (G) and thymine (T). An international team of researchers has now succeeded in generating a bacterium possessing a DNA in which thymine is replaced by the synthetic building block 5-chlorouracil (c), a substance toxic for other organisms.The project, coordinated by Rupert Mutzel (Institut für Biologie, Freie Universität Berlin) and Philippe Marlière (Heurisko USA Inc.), involved researchers of the French CEA (Commissariat à l'Energie Atomique et aux Energies Alternatives) and of the Katholieke Universiteit Leuven (Belgium). As described in the latest issue of Angewandte Chemie International Edition, the experimental work was based on a unique technology developed by Marlière and Mutzel enabling the directed evolution of organisms under strictly controlled conditions. Large populations of microbial cells are cultured for prolonged periods in the presence of a toxic chemical -- in this case, 5-chlorouracil -- at sublethal levels, thereby selecting for genetic variants capable of tolerating higher concentrations of the toxic substance.
In response to the appearance of such variants in the cell population the concentration of the toxic chemical in the growth medium is increased, thus keeping the selection pressure constant. This automated procedure of long term evolution was applied to adapt genetically engineered Escherichia coli bacteria unable to synthesize the natural nucleobase thymine to grow on increasing concentrations of 5-chlorouracil. After a culture period of about 1000 generations descendants of the original strain were obtained which used 5-chlorouracil as complete substitute for thymine. Subsequent genome analysis revealed numerous mutations in the DNA of the adapted bacteria. The contribution of these mutations to the adaptation of the cells towards the halogenated base will be the subject of follow-up studies.
Besides the obvious interest of this radical change in the chemistry of living systems for basic research the scientists consider the outcome of their work also to be of importance for "xenobiology," a branch of synthetic biology. This young area of the life sciences aims at the generation of new organisms not found in nature harboring metabolic traits optimized for alternative modes of energy production or for the synthesis of high value chemicals. Like GMOs, such organisms are seen as a potential threat for natural ecosystems when released from their laboratory confinements, either through direct competition with wild type organisms or through diffusion of their "synthetic" DNA.
Scientists have recognized that physical containment cannot in every single case prevent engineered live forms from reaching natural habitats, in the same way as radioactive isotopes can leak into the surroundings of a nuclear power plant. However, synthetic organisms like those evolved by Marlière and Mutzel and their collaborators which depend on the availability of substances for their proliferation not found in nature or which incorporate non-natural building blocks in their genetic material could neither compete nor exchange genetic messages with wild type organisms, but would die in the absence of the xenobioticM I B S I T B T

A man from Alabama first to receive Stem Cell Therapy

A man from Alabama has become the first person in the United States to receive a highly-debated embryonic stem cell transplant. Researchers are hoping the technology will be a game changer for those with debilitating spinal cord injuries.

TJ Atchinson hopes he's living the dream of Superman Christopher Reeve -- to become the first human to receive embryonic stem cell therapy. Atchinson was paralyzed following a devastating car accident."I realized I couldn't feel from (the top) down," Atchinson said. "When I got to the hospital, they said I would never walk again."

Atchinson was still accepting the news when doctors told him he'd be a great candidate for the stem cell therapy. Though he was injured just a few days before getting the offer, his body was strong and his will was even stronger. Atchinson agreed to be a laboratory of hope -- the first human with a spinal cord injury to test human embryonic stem cells. 

Doctors began the procedure by opening his wound, then guiding a needle into his body. Doctors injected Atchinson with two million all-purpose stem cells that they hope will transform into new nerve cells and attach to muscles, refiring his central nervous system.
In the laboratory, they've used embryonic stem cells to repair the broken spinal cords of small animals that walked again. The stem cells have the potential to produce unlimited quantities of any type of cell. Atchinson's mother says she knows that people oppose the therapy on religious grounds, but thinks they're unreasonable."There are some people who are against it, but until they've been put in the position I don't think they should judge anybody," Atchinson's mother told ABC News. Atchinson says his role in the procedure was to prove it was safe, but he says he can already start to feel it working. "Right now, I can feel that," Atchinson said while pulling at hair on his leg.

Six months after the procedure, Atchinson says he can feel a sense of weight when he places heavy items onto his lap. As he rubs his leg, Atchinson says, "I can tell that...I can feel that there's something there." Atchinson is holding out hope that he can one day run again like he once did before his accident.

Source: ABC7News, San Francisco, CA

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India's Top 50 Engineering Colleges 2011

Heavily dominated by public institutions, the top-50 listing is a roll call of excellence India's top 50 engineering institutions 2011

Ranking the top colleges is a very difficult task. While it is relatively easy to create clusters of colleges, it is differentiating within clusters that became the most difficult exercise. So for the first time in the country we have used balanced scorecard methodology to arrive at the ranking of the top 50 colleges. Ranking methodology: We scanned the last five year rankings of about 241 colleges and normalised their ranks, by assigning differential weights to subjective and objective ranking. Such a process is used to develop clusters of institutions. The research standing of individual institutions were further used to refine the clusters and remove the odd men out. Individual clusters were ranked serially. In each of these clusters the differences in cut-off marks, wherever possible (like in case of IITs and AIEEE institutes and some States) were used to arrive at individual ranks. Heavily dominated by public institutions, the top-50 listing is a roll call of excellence India's top 50 engineering institutions 2011

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Gut Bacteria can affect Mental Health: Did you know that?

A gut feeling may help you make a quick decision, but one study credits the digestive system for possibly influencing our mental states and behavior as well. The results help scientists understand how inflammatory bowel diseases, irritable bowel syndrome and other digestive problems relate to the psychological issues that often accompany them. Anxiety and depression commonly occur alongside these bowel conditions.

Scientists want to know whether certain gut bacteria influence humans' behavior. If so, doctors may be able to battle the physical and psychological effects of disease-causing bacteria by developing treatments such as probiotics.In the experiment, researchers introduced antimicrobials to mice via drinking water in order to change the ratios of their gut bacteria. The control group received sterile water. Afterward, both groups of mice were placed between two boxes -- one in the dark, one with light, as scientists recorded their behaviors. Mice with altered digestive bacteria showed less apprehension and were less afraid to go into the well-lit box, a common sign the animals are under the influence of drugs or illness.

Scientists then euthanized the mice to study their intestines and brains. They also found out that the hippocampus of the rodents with altered gut bacteria produced more brain-derived neurotrophic factor, also called BDNF, which often increases with stress and mood disorders, according to the U.S. National Library of Medicine. Although more research is needed to extend the findings to humans, the team found that the effects of bacterial imbalance were reversible in mice, meaning there might be a way to do the same thing for humans in the future.

Source: U.S. National Library of Medicine

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Astrocytes now can be grown in lab

The most common brain cell, called the astrocyte, is often overlooked in the face of its cousin, the neuron. Researchers are finally realizing their importance and have, for the first time, been able to grow them in the lab.

"Not a lot of attention has been paid to these cells because human astrocytes have been hard to get," study researcher Su-Chun Zhang, at the University of Wisconsin-Madison. "But we can make billions or trillions of them from a single stem cell." Astrocytes are small, star-shaped cells in the brain that act like the neuron's bodyguards, and because of that they play an important role in diseases of the central nervous system, including dementia. They are more common than neurons but have been hard to grow in the lab. Being able to study them could help researchers understand their role in normal brain functioning, and help find new treatments for disease.

"Without the astrocyte, neurons can't function," Zhang said in a statement. "Astrocytes wrap around nerve cells to protect them and keep them healthy. They participate in virtually every function or disorder of the brain." They protect neurons by performing basic housekeeping functions, like regulating blood flow, cleaning up excess neurotransmitters (the communication molecules used by neurons), and playing a key role in controlling the blood-brain barrier, which keeps toxic substances out of the brain.

Zhang created the cells from both embryonic and adult stem cells by treating them with special proteins to get them to grow into astrocytes. These cells could also be useful as a transplant, to treat diseases like Lou Gehrig's disease (also called amyotrophic lateral sclerosis), in which the neurons are overworked. Transplanting healthy astrocytes could rescue the injured neurons.

Source: University of Wisconsin-Madison

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Anxiety may be in your gut rather than in your head

For the first time, researchers at McMaster University have conclusive evidence that bacteria residing in the gut influence brain chemistry and behaviour.The findings are important because several common types of gastrointestinal disease, including irritable bowel syndrome, are frequently associated with anxiety or depression. In addition there has been speculation that some psychiatric disorders, such as late onset autism, may be associated with an abnormal bacterial content in the gut.
"The exciting results provide stimulus for further investigating a microbial component to the causation of behavioural illnesses," said Stephen Collins, professor of medicine and associate dean research, Michael G. DeGroote School of Medicine. Collins and Premysl Bercik, assistant professor of medicine, undertook the research in the Farncombe Family Digestive Health Research Institute.The research appears in the online edition of the journal Gastroenterology.
For each person, the gut is home to about 1,000 trillium bacteria with which we live in harmony. These bacteria perform a number of functions vital to health: They harvest energy from the diet, protect against infections and provide nutrition to cells in the gut. Any disruption can result in life-threatening conditions, such as antibiotic-induced colitis from infection with the "superbug" Clostridium difficile.Working with healthy adult mice, the researchers showed that disrupting the normal bacterial content of the gut with antibiotics produced changes in behaviour; the mice became less cautious or anxious. This change was accompanied by an increase in brain derived neurotrophic factor (BDNF), which has been linked, to depression and anxiety.
When oral antibiotics were discontinued, bacteria in the gut returned to normal. "This was accompanied by restoration of normal behaviour and brain chemistry," Collins said.To confirm that bacteria can influence behaviour, the researchers colonized germ-free mice with bacteria taken from mice with a different behavioural pattern. They found that when germ-free mice with a genetic background associated with passive behaviour were colonized with bacteria from mice with higher exploratory behaviour, they became more active and daring. Similarly, normally active mice became more passive after receiving bacteria from mice whose genetic background is associated with passive behaviour.
While previous research has focused on the role bacteria play in brain development early in life, Collins said this latest research indicates that while many factors determine behaviour, the nature and stability of bacteria in the gut appear to influence behaviour and any disruption , from antibiotics or infection, might produce changes in behaviour. Bercik said that these results lay the foundation for investigating the therapeutic potential of probiotic bacteria and their products in the treatment of behavioural disorders, particularly those associated with gastrointestinal conditions such as irritable bowel syndrome.

Source: Mcmaster University
 

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Body can be re-educated to accept donor organ on its own

British-based researchers have discovered a way to reprogramme immune system cells so that they think the donated organ is a natural part of the recipient's body.Not only will the development avoid patients having to take three different types of costly drugs every day of their life, it will also mean the donated organs lasts indefinitely.
Dr Pervinder Sagoo, co-author at King's College London, said: "We hope this is the holy grail that means that the recipient is completely tolerant to the transplanted organ for the rest of their life."
Currently patients must take around three immunosuppressant drugs a day to prevent a new organ from being rejected after transplantation.However, these drugs suppress the entire immune system, leaving the patient susceptible to infections and tumours.
Transplanted organs are also put under pressure andoften do not last longer than 10 years.
The new approach involves re-educating the immune system so that the body sees the organ as a natural part of the body.The immune system carries on working in exactly the same way but because it does not see the new tissue as alien, leaves it alone.The technique works by mixing the immune cells of the donor and the recipient in the laboratory to produce a kind of hybrid which is then copied millions of times.These new cells of then injected into the recipient – spreading around the body and re-educating the immune system for life.Ultimately this approach could extend the life of a transplanted organ and in turn, could alleviate the organ shortage problem.
The technique has already been used in animals and clinical human trials start at the end of the year.
Scientists hope it could be used in earnest within a decade.Professor Robert Lechler, Vice-Principal for Health at King's, said: "This study is a promising step forward that could lead to dramatic advances in preventing organ rejection and improving the quality of life of transplant patients."
Dr Shannon Amoils, Research Advisor at the British Heart Foundation, which part-funded both studies, said: "If the techniques used in these studies can be transferred to the clinic it could signal a move to replace long term use of immune-suppressing drugs."This would be a huge step forward for transplantation, more than four decades since the revolutionary treatment began."

Source: King's College London
 

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Cross your Arm, Confuse your brain & relieve pain

Simply crossing your hands confuses your brain and distracts it from any pain being administered, a study suggests.The brain is used to your left hand carrying out tasks on your left hand side and the right hand carrying out tasks on the right.By crossing them, the brain is momentarily bamboozled and this makes it less susceptible to pain.
Researchers think the theory has most impact on pain felt in the hands, and have not yet tested it on other parts of the body."Perhaps when we get hurt, we should not only 'rub it better' but also cross our arms," said Dr Giandomenico Iannetti, the lead author of the study at the University College London.
In the study, scientists used a laser to generate a four millisecond pin prick of "pure pain" – which is pain without touch – on the hands of a small group of eight participants, which was repeated with the arms crossed.The hands were over the midline – an imaginary line running vertically down the centre of the body. Participants rated their perception of the intensity of the pain, and their electrical brain responses were also measured using electroencephalography (EEG) scanner.
The pain was rated from 0 to 100, with 100 being the most pain you could possibly imagine.
The results from both participants' reports and the EEG showed that the perception of pain was weaker when the arms were crossed.The effect is said to be "small but significant" and equivalent to a reduction in pain of around three per cent, the study claims.Dr Iannetti believes that the effect was caused by the brain being confused."In everyday life you mostly use your left hand to touch things on the left side of the world, and your right hand for the right side of the world – for example when picking up a glass of water on your right side you generally use your right hand," he said.
"Crossing your hands causes a mismatch and this makes the processing of pain more difficult.
"It works for other stimuli. The sensitivity of the brain is reduced. It is not a huge analgesic but we are testing it on people with chronic pain in their hands."

Source: University College London.
 

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Early HIV Treatment Reduces Transmission

The World Health Organization is calling the results of a new study a "crucial development" in HIV treatment. The U.S. National Institutes of Health studied almost 1,800 couples from countries across Africa, Asia and the Americas in which one partner was infected with HIV. The researchers found that the couples, in which the infected partner was started on antiretroviral medications immediately after diagnosis, had a 96% decrease in the rate of HIV transmission to the uninfected partner, compared to couples in which the infected partner was given antiretroviral drugs only when their white blood cell counts decreased. Among those who started therapy immediately after diagnosis there was only one case of transmission between partners. In the other group there were 27 HIV transmissions. The study was cut short by four years due to the successful outcome thus far, and will no doubt affect current recommendations for HIV treatment.

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LIST OF IMPORTANT INSTITUTES TO PURSUE INTERNSHIP/TRAINING

List of Institutions in India:

1. All India Institute of Medical Sciences, Ansari Marg, New Delhi-110 029.
2. Amravati Uaniversity, Amravati-44 602
3. Banasthali Vidyapeeth, Rajasthan-304 022
4. Bharathiar University, Coimbatore-641 046, TN
5. Bose Institute, P-1/12, CIT Scheme, VII Kankurgachi, Calcutta-700 054.
6. Calicut University, Kozhikode-673 635, Kerala
7. Centre for Biotechnology, Anna University, Chennai, Tamil Nadu-25.
8. Centre for Biotechnology, Pondicherry University, Pondichery-605 014.
9. Centre for Plant Molecular Biology, Tamilnadu Agricultural University, Coimbatore-641 003
10. Consortium India Ltd,. G-6, (3rd Floor), NDSE Part 1, New Delhi.
11. Department of Biotechnology, Devi Ahilya Vishwavidyalaya, Indore-452 001, Madhya Pradesh.
12. Department of Biotechnology, Guru Nanak Dev University, Amritsar-143 005.
13. Department of Biotechnology, Jadavpur University, Calcutta-700 032.
14. Department of Biotechnology, Punjab University, Goa-5.
15. Department of Marine Sciences, Goa University, Goa-5.
16. Department of Microbiology, M.S. University, Vadodara-390 002, Gujarat.
17. Department of Zoology, Poona University, Pune-411 007, Maharashtra.
18. Dr. Babasaheb Ambedkar Marathwada University, Aurangabad-431 004.
19. Faculty of Applied Science, Mahatma Gandhi University, Kottayam-686 560, Kerala.
20. Faculty of Science, G.B, Pant University of Agriculture & Technology, Pant Nagar-263 145, Nainital Dist. Uttar Pradesh.
21. Haryana Agricultural University, Hissar, Haryana.
22. Himachal Pradesh University, Shimla-171 005.
23. Indian Council of Agricultural Research, Pusa Campus, New Delhi-110 012.
24. Indian Institute of Science, Bangalore-560 012.
25. Indian Institute of Technology, Haus Khas, New, Delhi-6.
26. Indian Institute of Technology, Kharagpur-723 102.
27. Indian Institute of Technology, Powai, Mumbai-400 076.
28. Indian Veterinary Research Institute, Izatnagar-243 122, Uttar Pradesh.
29. Jawaharlal Nehru Technological University, Masab Tank, Mahaveer Marg, Hyderabad-Anadhra Pradesh.
30. Jawaharlal Nehru University, New Delhi-110 067.

31. Jiwaji University, Gwalior-474 011.
32. Kurukshetra University, Kurukshetra-136 119.
33. North Maharashtra University, Jalgaon-425 002.
34. Osmania University, Administrative Building, Hyderabad, Andhra Pradesh-500 007.
35. Pt. Ravishankar Shukla University, Raipur-492 010, Chhattisgarh.
36. Punjab Agricultural University, Ludhiana, Punjab.
37. Punjab University, Patiala-147 002.
38. Rajendra Agricultural University, PO Pusa, Samastipur, Bihar.
39. School of Biological Sciences, Madurai Kamaraj University, Madurai-625 021.
40. School of Biotechnology, Banaras Hindu University, Varanasi-221 005.
41. School of Life Sciences, Central University, Hyderabad-500 134.
42. Swami Ramanad Teerth Marathwada University, Nanded-431 603.
43. Tezpur University, Tezpur-784 001.
44. University of Delhi. Delhi-110 007.
45. University of Hyderabad, Hyderabad-500 046.
46. University of Kerala, Thiruvananthaouram-34, Kerala.
47. University of Madras, Centenary Building Chepauk, Triplicane PO, Chennai-600 005, Tamil Nadu.
48. University of Mysore, Mysore-570 005.
49. University of Roorkee, Roorkee-247 667.
 Some of the centres where Biotechnology labs are equipped with advanced facilities are:

1. National Facility for Microbial Type Culture Collection (MTCC) at Institute of Microbial Technology, Chandigarh.
2. National Facility for Collection of Blue Green Algae (BGA) Collection at IARI, New Delhi.
3. National Facility for Marine Cyanobacteria at Bharathidasan University, Tiruchirapalli.
4. National Facility for Plant Tissue Culture Repository at NBPGR, Pusa, New Delhi.
5. National Laboratory Animal House Facilities at Central Drug Research Institute (CDRI), Lucknow.
6. National Institute of Nutrition (NIN), Hyderabad.

Genetic Engineering labs with latest infrastructure facilities are :

1. BHU, Varanasi
2. Biochemical Engineering Research and Process Development Centre at IMTECH, Chandigarh.
3. Centre for DNA Finger Printing and Diagnostics (CDFD), Hyderabad.
4. JNU, New Delhi
5. Madurai Kamaraj University, Madurai, Tamil Nadu.
6. National Facility for Animal Cell and Tissue Culture, Pune
. 7. National Institute of Immunology (NII), New Delhi.
8. The Indian Institute of Science, Bangalore