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Category Archives: DNA

DNA in a NY Minute

DNA Analyzer

 

Writers often send me questions about DNA, and most include something about the turn around time for DNA analysis. Ten years ago the answer was weeks, five years ago hours, and now it seems only minutes are required.

Engineers at the University of Washington and scientists at NanoFracture, a company in Bellevue, WA, have developed a DNA extractor that uses electrodes and not spinning centrifuges to perform the critical and time-consuming step of removing DNA from any body fluid. And it does so in only a couple of minutes. Then on to a sequencer and before you know it you have a DNA profile.

Though not commercially available yet, this technology exists and it will be interesting to see how it progresses. Of course, it’s fiction-ready right now.

 
6 Comments

Posted by on June 4, 2013 in DNA, High Tech Forensics

 

Taking a Bite Out of Crime

 

David Stoddard

 

David Stoddard and his buddies apparently thought that home invasion robberies were a slick and low risk way of making a living. After all, who would say no to three armed men?

Turns out the family’s pit bull did.

 

Pit Bull

 

As the thieves fled, the dog attacked and bit Stoddard on his leg and arm. Tragically, the dog was shot and killed. But the investigators realized that the dog had bitten one of the intruders and swabbed the deceased dog’s mouth for DNA.

Very clever.

The profile matched stellar citizen Stoddard who had been arrested for another crime–the shooting of two women, one a pregnant teenager who died. Didn’t I say he was a stellar citizen?

Of course Stoddard has pled not guilty and his defense, as voiced by his attorney John Sinn, seems to be: “My client indicates that he doesn’t have a recollection of those events.”

Really? I guess we would all forget shooting a 16-year-old mother to be and getting bitten by a pit bull. I mean, really, it could happen, don’t you think?

 

Wildlife Forensic Science versus Poachers

There was a time when the killing of endangered animals was fairly easy to cover. Elephants were slaughtered in great numbers for their tusks, bears for their gallbladders, and, of course, tigers and other large cats for their fur. These “byproducts of death” entered the market, the poachers returned to the hunt, never having to look over their shoulders, and life–or is it death?–went on.

Tiger cubs

 

Enter the US Fish and Wildlife Forensic Laboratory in Ashland, Oregon. This one-of-a-kind facility utilizes state-of-the-art forensic science techniques to determine the origin of any animal product. In many cases, this will lead investigators to the animal’s place of origin and then to the poachers themselves. Couldn’t happen to a nicer group.

 

Elephants

 
6 Comments

Posted by on February 3, 2013 in DNA, High Tech Forensics

 

Guest Blogger: Karl M McDonald: DNA Testing Methods, Part 2

Forensic Analysis: Mugs, hair and other samples

From Bones to CSI, these TV series have fed our curiosity and interest in forensic science. We are absorbed and intrigued by how criminal investigations get solved, the science, rationale and the workings of great minds to solve these puzzling murders.

These TV series regularly show forensic experts searching crime scenes, inch by inch, deeply absorbed into their task of trying to pick up that tiny piece of forensic evidence that could be key to solving the crime in question. Here is some interesting information you might enjoy reading about various samples and how they are collected.

 

Amplification of DNA #2

 

The omnipresent hair

The single hair always elicits a sigh of relief. We seem to believe that hairs provide incontrovertible evidence in court, the DNA profile extraction is always successful with such a sample. But hairs are actually a very particular sample because they do not always contain the right DNA. We have two types of DNA in our body:

  • Nuclear DNA: this type of DNA is found in every type of cell in our body, except red blood cells. Nuclear DNA is enclosed in our cell nucleus and contains the vast bulk of genetic information. Each cell has one copy of nuclear DNA.
  • Mitochondrial DNA: this type of DNA is found in a different part of the cell, specifically the cell mitochondria. These are specialize cell organelles which provide energy for the cell to function. There are thousands of copies of mitochondrial DNA in every cell.

So let’s analyze a human hair: a hair is made up of two basic parts, the root and the part which emerges from the root known as the shaft. The root contains nuclear DNA but the shaft contains only mitochondrial DNA. Our body naturally sheds hair and we of course also cut our hair – but these hairs have no nuclear DNA in them. To be able to accurately link DNA found at the crime scene with a specific person we must have samples of nuclear DNA. In other words, for a hair DNA test to be viable, we need the hair to have the root or follicle attached.

Is Mitochondrial DNA useless?

Mitochondrial DNA has a very particular hereditary pattern: it is passed on from a mother to her children, be they male or female but is never passed on by males. People with a common maternal line (perhaps with the same mother) will also share the same mitochondrial DNA profile. However, because people with the same maternal line will have exactly the same MtDNA profile, the profile does not become a good distinguishing factor between people.

Stamps and Licked envelopes

Licked envelopes and stamps provide quite a challenge when it comes to successful extraction of DNA profiles. There are a number of reasons for this:

First and foremost the adhesive glue on the adhesive strip causes any DNA to degrade. Moreover, it is hard to know whether the person actually licked the stamp or envelope. Often, people use a wet finger to lubricate the adhesive part or a damp cloth or glue. This clearly means that there would actually be no DNA at all. Moreover, a lick on the back of stamp using the surface of the tongue would at most provide a minute quantity of DNA. The surface of our tongue is not the best place to collect exfoliated mouth cells. In fact, relationship tests, ancestry tests, paternity tests and the bulk of DNA tests available use oral swabs which need to be rubbed under the tongue rather than above it.

Mugs, cups and glasses

Again, these samples can be rather challenging and extraction of a DNA profile might not always be possible. Forensic DNA evidence can be contaminated in a number of ways or absent for a number or reasons. To bear in mind that any cells collected are by contact of the inner lip with the surface of the glass rather than from the outer lip.

  • People sometimes share glasses. If the glass was shared, it might be impossible to extract individual DNA profiles.
  • People sometimes use straws. The DNA on the tip of a straw would be less than that on the rim of a glass.
  • Make up and cosmetics, such as lip stick, may affect the validity of the sample. Certain chemicals in lipstick can degrade any DNA left on the glass.
  • Contact with the glass might have been minimal or the person might not even have drank anything.

Of course, forensic scientists use every means available and will attempt to extract DNA even from the most degraded, old and unfeasible samples in the hope of getting a few genetic markers. It is thanks to advances in the methods of DNA amplification and analysis, namely polymerase chain reaction, that many crimes are nowadays solved.

Bio: Karl M McDonald is a free lance writer specializing in the field of genetics and DNA testing. Articles by the author can be found on many blogs and info sites, including the article knowledge base for homeDNAdirect.  Karl currently lives in West Sussex, UK with his wife, kids and 2 dogs.

 

 
2 Comments

Posted by on January 23, 2013 in DNA, Guest Blogger

 

Guest Blogger: Karl M McDonald: DNA Testing Methods, Part 1

Method used in Forensic Analysis and Crime investigations

CSI and the many other forensic fictions we so often see on TV have spurred an interest in forensic DNA testing to solve criminal investigations. However, these TV serials also sometimes provide incomplete or inaccurate information and details about the genetic aspect of forensic investigations. Moreover, we rarely get to get a glimpse into some important factors live the validity of a DNA sample and the method chosen for laboratory analysis. Let’s take a look.

 

Blue research photo

 

Methods of DNA analysis 

Any suspected trace of genetic material at a crime scene needs to of course be analyzed in a laboratory. Nuclear DNA is relatively stable due to the strength of hydrogen bonding in base pairs on the helical structure of DNA. However, there are some external factors which come to play and which can affect the validity of the forensic DNA sample:

1–The type of genetic samples (whether it is blood, semen, nails clippings or hair. Different samples provide different chances of successful extraction of a DNA profile)

2–The age of the sample and the conditions, environmental and chemical, to which it has been subject. Has the sample been exposed to very high temperature? Have any caustic agents been used on it?

3–The way in which the sample is collected. The forensic team must be scrupulous and meticulous, following protocol so as not to contaminate the sample. The Meredith Kercher case in Italy is a good example of how callous forensic sample collection can lead to unviable results.

Whilst we are brought to believe that DNA testing is infallible, the truth is somewhat different. The criminal justice system and the individuals that make it up may not be fully aware of the complications and intricacies of DNA evidence. There may be misevaluation of forensic evidence by lawyers involved. Moreover, the statistical calculations undertaken by genetic testing facilities ignore or often fail to exclude two possibilities:

  • A possible match between the DNA profile extracted from the suspect and the real perpetrator of the crime.
  • Whether the possibility exists of the laboratory concluding a match between the profile of the suspect and the forensic evidence at the crime scene, when in fact, the match is not complete.

The following are the two main methods used in forensic analysis

RFLP or Restriction Fragment Length Polymorphism is a method of analysis that is based on the comparison of variations in DNA sequences. This method of analysis is used less frequently since it is only possible if large quantities of DNA are available. This means that tiny blood stains or single hairs will not be suited for this type of analysis.

PCR or Polymerase chain reaction is a method of DNA replication and amplification which enables scientists to create thousands of copies of DNA. This makes it a much more effective method when compared to RFLP as it makes sample analysis possible even with tiny, degraded quantities of DNA.

Mitochondrial DNA analysis is used in cases where there is no viable nuclear DNA. Mitochondrial DNA is a special type of DNA found in a different cell component to nuclear DNA. This type of DNA is exclusively passed on down the maternal line. Mitochondrial DNA is extremely stable and there are moreover many more copies of this existing in the cells when compared to nuclear DNA.

 

Bio: Karl M McDonald is a free lance writer specializing in the field of genetics and DNA testing. Articles by the author can be found on many blogs and info sites, including the article knowledge base for homeDNAdirect.  Karl currently lives in West Sussex, UK with his wife, kids and 2 dogs.

 

 
3 Comments

Posted by on January 20, 2013 in DNA, Guest Blogger

 

Hickock and Smith: Beyond IN COLD BLOOD

Perry Smith (Top) and Dick Hickock

Perry Smith (Top) and Dick Hickock

Perry Smith and Dick Hickok murdered the Clutter family in Holcomb, Kansas back in the 1950s. This gruesome killing of four innocent people, fueled by the duo’s belief that Mr. Clutter had a safe filled with money in his home (not true), rocked the citizens of Holcomb and indeed the nation. The story of the brutal murders caught the attention of Truman Capote who brilliantly rendered the story in his landmark book IN COLD BLOOD.

In Cold Blood

The killers were convicted and executed in a Kansas prison in 1965.

Flash forward to 2012. Investigators in Sarasota County, Florida believe that this dynamic duo might also have murdered the Walker family in 1959. There is a great deal of evidence to suggest this but the proof will come through DNA. Maybe.

Christine Walker was apparently raped before she was murdered and samples obtained from her have yielded DNA. This profile has been matched against several suspects but none have panned out. Now the police have exhumed the bodies of Hickock and Smith and taken bone fragments for DNA testing.

Stay tuned.

 
 

DNA: Chewed Up and Spit Out

Some stories just make you smile.

Raub

It seems that Gary Raub murdered a 70-year-old woman in 1976 and by now I’m sure thought he had gotten away with it. But the police never took him off the suspect list. To nab him they needed his DNA to compare against blood left at the crime scene by the perpetrator. The police came up with a very clever ploy.

teaberry

A fake chewing gum survey.

It seems that old Gary was tricked into taking part in the survey and from the gum his DNA was obtained and the match made.

Lady Justice might be slow but she is relentless.

 
2 Comments

Posted by on December 17, 2012 in DNA, Police Procedure, Stupid Criminals

 

A New Small and Fast DNA Analyzer

One question I’m often asked is how long it takes to get a DNA result back from the lab. Currently it can be a few hours though a day or two, at best, is more realistic for most labs. But now it looks like NEC is working on a new suit-case-sized DNA analyzer that uses microfluidic “lab-on-a-chip” technology and can do the job in about an hour. Their goal is to lower that to around 25 minutes.

This microfluidic technology has many medical and research uses and a couple of the gadgets are roaming around Mars on the rover. This new DNA technology bears watching.

Curiosity Rover

 
3 Comments

Posted by on November 27, 2012 in DNA, High Tech Forensics, Medical Issues

 

Richard III Found?

Richard III, the last Plantagenet King of England, died on August 22, 1485 during the Battle of Bosworth Field. His death wasn’t a pleasant one. Recently skeletal remains that might be those of the King have been unearthed from the ruins of Grey Friars Church in Leicester, the location where many believe Richard was buried.

 

The remains apparently show significant scoliosis, a bending of the spine that often raises one shoulder higher than the other. Historical documents, as well as the famous play by William Shakespeare, indicate that Richard was a “hunchback.” This condition is most often caused by kyphosis, a more forward curving of the spine, which is not the case with these remains. But the distinction probably wasn’t appreciated in 1485 so people who suffered either scoliosis or kyphosis were often termed “hunchback.”

How can researchers prove these are indeed Richard’s remains? The best bet is mitochondrial DNA (mtDNA), which is passed down from generation to generation through the maternal line. This type of DNA doesn’t change often, mutating only about once every 6500 years, making it ideal for ancestry studies.

 

To employ this technique, they will need mtDNA from a known maternal descendent of Richard. And it seems they have located Londoner Michael Ibsen, the 17th great-grand nephew of Richard. His late mother, Joy Ibsen, was apparently a direct descendent of Richard’s eldest sister Anne. If true, and if the mtDNA matches, that would constitute fairly strong evidence that the remains are indeed those of Richard.

 

Maggot DNA Identifies Corpse

Corpse identification is as much art as science. Sometimes no ID is possible and at other times creativity is required. In a recent case, where a badly charred body could not be identified due to the damage, DNA was extracted from the GI tracks of the fly maggots that had populated the corpse. Using the STR technique, DNA from the maggots was compared with DNA from the suspected victim’s father and a paternity-type match was made, proving the ID of the corpse to an accuracy of 99.685% according to the authors of the study.

This is the first time this technique has been used in this manner.

 

 
 
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