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A Strange New DNA Edit Has Been Discovered in Animals Under Stress

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Rough times leave a mark on the brain.



A new kind of epigenetic edit recently discovered in the brain cells of mammals has been found to occur when the individual has been stressed, hinting at underlying neurological functions.

Researchers still aren't entirely sure how this particular type of epigenetic modification works, but its elevated presence in mice that suffer through rough times suggests it could play a central role in a number of neuropsychiatric problems.

Broadly speaking, epigenetics describes the variety of changes that alter how a genetic code is read.

One common type of epigenetic edit involves the addition or removal of a methyl group onto a base , made up of a carbon holding onto three hydrogens.

Added to a base making up a nucleic acid sequence, this group can effectively render a gene unreadable. It's a convenient way of switching off a gene without mutating its code.

In most cases, especially among mammals, it's the base cytosine © that's methylated.

Methylation of another base, adenosine (A) , was mostly found in simple organisms such as bacteria.

That all changed in recent years with the discovery of 6-methyl A in the embryos of mice.

While this kind of methylation seems to play an important role in regulating the development of brain cells, it's still early days for investigating the biochemical differences surrounding the two different approaches to epigenetics.

In an effort to better understand the adenosine-based style of genetic tweaking, an international team of scientists led by researchers from the Emory University School of Medicine in the US studied the brains of mice put under stressful conditions.

Environmental factors have long been known to play a significant role in causing cells to methylate their DNA. This often means that events happening during development can have life-long genetic consequences.

These 'switches' can even be inherited, meaning a time of stress for one organism can echo down the generations .

To give the young mice some grief without causing too much anguish, the researchers forced them to go for a swim and picked them up by the tail – the rodent equivalent of a hard day at the office.

Later, they analysed the pre-frontal cortex section of their brain, finding the levels of methylated adenosine had jumped four-fold compared with the less-stressed mice.

They found that 6-methyl A is dynamic, which could suggest a functional role. The enzymes that recognise, add and erase this type of DNA methylation are still mysterious.

They also found the modified base appeared in areas between genes more than in genes that coded for proteins.

In other words, something was removing the methyl groups from the adenosine inside particular genes that were needed to deal with their stress.

Many of the genes that remained methylated appeared to match those that have been associated with neuropsychiatric disorders such as those on the autism and schizophrenia spectrum.

More research is needed to connect the dots between stress, adenosine methylation, and these kinds of neurological conditions.

But detailing the subtle differences in how genes deal with changes in the environment on the fly is the first step for us to find out where it might go wrong.

This research was published in Nature Communications .

Gene Editing Just Became More Precise And Powerful Than Ever Before

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Two groups of scientists have revealed a new, more precise arsenal of gene-editing techniques that could one day help us eradicate genetic diseases with highly targeted surgery at the chemical level.



The new adaptations to CRISPR-Cas9 enable single-letter changes in DNA base pairs and also provide the ability to edit single RNA base pairs in human cells – powerful refinements that some are heralding as the arrival of ' CRISPR 2.0 '.

They developed a new base editor – a molecular machine – that in a programmable, irreversible, efficient, and clean manner can correct [mutations] in the genome of living cells.

"When targeted to certain sites in human genomic DNA, this conversion reverses the mutation that is associated with a particular disease."

About half of human disease-associated ' point mutations ' come down to mix-ups in the nucleobase pairs between the chemicals adenine (A), cytosine ©, guanine (G), and thymine (T), which make up our DNA.

Thanks to CRISPR-Cas9 , however, scientists can alter genome structures with a technique that effectively cuts, copies, and pastes molecular arrangements of these base pairs – but up until now, the technique wasn't able to switch single DNA base pairs and instead removed entire sections.

A new system developed by the team called Adenine Base Editor (ABE) changes this, making much neater edits possible, by rearranging the atoms of adenine to resemble guanine (G), prompting A-T base pairs to becomes G-C instead.

That might not sound like much, but of the 32,000 point mutations that we know are tied to disease, about half could be solved via that single swap.

When combined with other base-editing systems called BE3 and BE4 – which were also devised by Liu's team – the discovery could help us fix almost two-thirds of all disease-causing mutations.

The greater precision of the technique should enable finer genetic manipulations than ever before, introducing fewer random errors carried over from adjacent nucleobases that are inevitably copied over with the targeted DNA.


In a separate but related study published in Science , another team from the Broad Institute details its development of what's called Cas13 – a CRISPR protein that makes editing of RNA possible.

Unlike DNA editing, which makes permanent changes to a genome structure by rearranging nucleobases, RNA editing is a lighter, non-permanent technique, in this case made possible by another precise swap: changing adenosine to inosine, which is interpreted in cells as guanine.

In cells, RNA acts as a kind of messenger that helps to regulate how our genes produce proteins.

Because it doesn't actually mess with the genes themselves like DNA editing, the method wouldn't result in lasting, significant changes to how our bodies function, but could still create temporary ways of addressing mutations.

So far, we've gotten very good at inactivating genes, but actually recovering lost protein function is much more challenging

"This new ability to edit RNA opens up more potential opportunities to recover that function and treat many diseases, in almost any kind of cell."

Of course, it will be some time before either of these new systems find their way into helping patients in clinical situations, as while the technology now exists, we won't ultimately know how reliable, safe, and effective these methods are until more research on them is conducted.

But they're both incredibly promising developments in health science, and ones that may one day be used to treat conditions including genetic blindness, metabolic disorders, Parkinson's disease, and many more.

Creating a machine that makes the genetic change you need to treat a disease is an important step forward, but it's only one part of what's needed to treat a patient.

"We still have to deliver that machine, we have to test its safety, we have to assess its beneficial effects… But having the machine is a good start."

The findings are reported in Nature and Science

About gate BT

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Respected Sir,
I am Aakash Yadav, a 3rd year undergrad and i have started preparing for gate 2019 exam and for it i joined GATEFORUM online test series which i read in an interview of Ameya Dravid (gate BT 2017 AIR-2) and i found it useless,its questions are not at all related to gate and since then i am not able to find a good test series to join or a good book havind MCQ questions other than previous year questions,so can you please help me?

Tumor suppressor genes

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Can please someone give me the detailed information about tumor suppressor genes?

clarification in choosing branch of course in pg?

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i am a ug biotech student.can i pursue mtech in agricultural and food engineering offered by iit kharagpur? if so ,what paper must i write in gate exam?kindly reply.thanking in advance.

Job Opportunity at Panacea Biotec , Mohali

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Designation : Executive / Senior Executive - QC

Location : Panacea Biotec , Mohali


Please refer this attachment for further details :

Job Opportunities at Biocon , Bangalore

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Recruitment Drive by Biocon for Discovery Biology

Date : 11th November 2017 , Saturday

Time : 8.30 am

Venue : Syngene International LTD , Biocon park , Plot 2 & 3 , Bornmasandra,Phase - IV , Jigani Link road , Bangalore -560099

Refer this attachment for further Details :

In search of best biotechnology colleges

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I'm in class 12th presently and wish to have a carrier in biotechnology. I'm having PCB and waht colleges accordingly. I wish to pursue B.tech rather than Bsc.

Online test series

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Anyone here joined Gateforum online test series for gate Biotech exam???

Job Opportunity at Reckitt Benckiser , Haldwani , Uttarakhand

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Vacancy for microbiologist male in Reckitt Benckiser

Officer - Quality Shift roll

Eligibility : M.Sc Microbiology with 2 - 6 years experience

Location : Sitarganj , Haldwani

Vacancies : 3

Pls email the profile at sachinkumar.arora@rb.com

Career decision after 10th | PCB or PCM for Biotechnology

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I am in 10th std, can someone tell me if I should take PCB or PCM for 11th and also, am I supposed to give JEE OR AIIMS

The Walking Leaf : A wonder of Nature

Expression vector

How to get internship after bsc biotechnology in DRDO

job

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Good Evening. Myself mala,I am looking for openings in Full Time Jobs in Biotechnology. Area of Expertise - Biotechnology. Qualification : Post graduate in Biotechnolog from anna iniversity . I am a self-motivated individual, a quick learner and a hardworking person..pls help me sir.

No Bands

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I am Malek, Master student in UPM, Malaysia. currently, I am doing my research about Bacterial panicle blight (BPB) caused by Burkholderia glumae bacteria that associated with rice in Malaysia. After do isolation and biochemical test, I ran PCR by using universal primers (16s). Unfortunately, after Blast the sequences result, there is no Burkholderia glumae detected, but mostly Enterobacter. My supervisor said, try to use specific primers of Burkholderia glumae and do gradient pcr in order to check which annealing temperature is suitable to detect Burkholderia glumae when annealing process occurred. But, after i ran, there is no any bands appeared. I've checked and troubleshoot about concentration and pcr program and so on, but still cannot figure out the problem. Hope you can help me by suggesting other ways.


Thank you. Heart

Regarding Internship

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I am mehak doing BSc (Hons) Biotechnology and currently in 2 year. I am applying for the internship. I want to know about difference between academic and industrial research. I got confused in both of them. I ain't interested in job.
Thanks

AcSIR (CSIR) - APJ Abdul Kalam Summer Training

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You have to dream before your dreams can come true”.
– Dr. APJ Abdul Kalam, probably the best president India ever had, and most importantly one of the greatest but most humble scientific minds, a brilliant scholar, undoubtedly a legend, who inspired and continues to inspire young and old alike by his works, deeds and legacy.

Here is an opportunity for all the students to get the privilege of earning an internship at coveted CSIR labs of India through AcSIR (CSIR) - APJ Abdul Kalam Summer Training under AcSIR-Kalam Fellowship.

Following are the details:


ABOUT AcSIR-Kalam SUMMER TRAINING PROGRAM

Summer Training Program at AcSIR provides an opportunity to spend one of your summers working at premier research Laboratories of CSIR with some of the leading scientists in India, in an environment which promotes trans-disciplinary research.
The program is supported/ funded by AcSIR through its AcSIR-Kalam Fellowship.

IMPORTANT DATES

Registration Start: November 17, 2017
Application Closes: December 31, 2017
Shortlist Declaration: March 2018
Selection Interview: April 2018
Result Declaration: April 2018


FELLOWSHIP DETAILS

Total number of Fellowships : 20*

Duration: Two months; Between the months of May and August

Amount of Fellowship: Rs. 25,000 per student for the duration of the program
(payable after successful completion of the training program and submission of project report to the Laboratory Coordinator)

Travel allowance to the selected student: Reimbursable to a maximum of Rs. 5,000 per selected student

This is a compulsorily Residential Programwhere the selected students would be required to stay on campus of the respective CSIR Labs on charge basis.

WHO CAN APPLY?

First year of M.Sc program or equivalent: minimum first-class at pre-M.Sc degree level

Third to pre-final year of Integrated M.Sc program or equivalent: GPA 6.0 on a scale of 10 (upto IV Sem)

First year of M.E/M.Tech program or equivalent: GPA 8.0 on a scale of 10 OR GPA 7.0 on a scale of 10 for CFTIs at B.E/B.Tech level or GATE Score ≥600 or NET (Engineering) Rank from 1 to 100

Third year of B.E/ B.Tech program or equivalent: GPA 8.0 on a scale of 10 OR GPA 7.0 on a scale of 10 for CFTIs (upto IV Sem)

Third to pre-final year of Integrated M.E/M.Tech program or equivalent: GPA 8.0 on a scale of 10 OR GPA 7.0 on a scale of 10 for CFTIs (upto IV Sem) or GATE Score ≥600 or NET (Engineering) Rank from 1 to 100

SELECTION PROCESS

Screening will be primarily based on a Research Proposal and other screening criteria decided by the Committee.

An applicant can give five preferences of CSIR Labs/Institutes.

Shortlisted applicants will be intimated electronically

Selection Interview will be held at a central location. Appearance at the interview is mandatory for consideration.

Applicant may be allowed to participate through electronic media for interview (Skype etc.) under specific request.

Selection is purely based on merit/ performance at the selection interview.

Food and lodging arrangements shall be made for applicants called for interview only.

IMPORTANT NOTE

The application form has to be completed in all aspects for consideration

Multiple applications from same applicant will result in cancellation of candidature

All filled-in information should be supported by relevant documents at the time of selection interview

Please visit the websites of participating CSIR Labs for information on their research areas

* Reservation shall be applicable as per GoI rules.

Attaching the poster advertisement:
[Image: 3cdb44633365951f25a3509adedde826.jpg]

Share it with everyone, you think must apply for it or should be aware of it.

All the best

Project work topic

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Can u suggest me some topics for project work in MSc biotechnology

Paraplegic rats walk and regain feeling after stem cell treatment

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Paralyzed rats implanted with engineered tissue containing human stem cells were able to walk independently and regained sensory perception in their hind legs and tail. The implanted rats also show some degree of healing in their spinal cords. The research demonstrates the great potential of stem cells to treat spinal cord injury.



Engineered tissue containing human stem cells has allowed paraplegic rats to walk independently and regain sensory perception. The implanted rats also show some degree of healing in their spinal cords. The research, published in Frontiers in Neuroscience, demonstrates the great potential of stem cells -- undifferentiated cells that can develop into numerous different types of cells -- to treat spinal cord injury.

Spinal cord injuries often lead to paraplegia. Achieving substantial recovery following a complete spinal cord tear, or transection, is an as-yet unmet challenge.

Led by Dr. Shulamit Levenberg, of the Technion-Israel Institute of Technology, the researchers implanted human stem cells into rats with a complete spinal cord transection. The stem cells, which were derived from the membrane lining of the mouth, were induced to differentiate into support cells that secrete factors for neural growth and survival.

The work involved more than simply inserting stem cells at various intervals along the spinal cord. The research team also built a three-dimensional scaffold that provided an environment in which the stem cells could attach, grow and differentiate into support cells. This engineered tissue was also seeded with human thrombin and fibrinogen, which served to stabilize and support neurons in the rat's spinal cord.

Rats treated with the engineered tissue containing stem cells showed higher motor and sensory recovery compared to control rats. Three weeks after introduction of the stem cells, 42% of the implanted paraplegic rats showed a markedly improved ability to support weight on their hind limbs and walk. 75% of the treated rats also responded to gross stimuli to the hind limbs and tail.

In contrast, control paraplegic rats that did not receive stem cells showed no improved mobility or sensory responses.

In addition, the lesions in the spinal cords of the treated rats subsided to some extent. This indicates that their spinal cords were healing.

While the results are promising, the technique did not work for all implanted rats. An important area for further research will be to determine why stem cell implantation worked in some cases but not others. As the research team notes, "This warrants further investigation to shed light on the mechanisms underlying the observed recovery, to enable improved efficacy and to define the intervention optimal for treatment of spinal cord injury."

Although the study in itself does not solve the challenge of providing medical treatments for spinal cord injury in humans, it nevertheless points the way to that solution.Although there is still some way to go before it can be applied in humans, this research gives hope.

Representative images of rat posture 43-days following implantation of an induced-construct (bottom) vs. transection only (top).
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