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Chromosome 22My Research on Chromosome 22

I am in progress (always!) of describing my research, and I am really endeavoring to make my site clear and understandable for all; please let me know where I am failing so I can try to reword something!

If you have bipolar disorder, you may be able to contribute to the research for the genes involved. Our lab is part of a consortium collecting bipolar families. It's relatively painless (just a small blood sample needed), anonymous (I can attest to that, since I actually get the DNA samples), and you can be part of my research. For more information call 1-888-BPGENES.

On this page:
My Research
General Health Site Links
Bipolar and Chromosome 22 Links
Webrings


My Research

Background
My PhD thesis research is in John Kelsoe's (MD-psychiatry) lab at UCSD. We are searching for the genes involved in bipolar disorder (also known as manic depressive disorder). Notice I say genes. The reality is that discovering genes for most psychiatric disorders is daunting. Most likely several genes are involved, and having one defective gene may not result in illness, but rather some kind of combination of genes results in disorder. Thus, some people who have one or maybe even two defective gene(s) may function well, or perhaps they do have some symptoms but not enough for a classical diagnosis. As a result, bipolar disorder is considered to be non-Mendelian; that is, you can not trace the genes and their effects like Mendel did with peas (green vs. yellow and smooth vs. wrinkled).

Despite the fact that no gene has yet been identified for bipolar disorder (or for any other mental illness), research indicates that genetics play a role. If you have a family member with bipolar, you are much more likely than the general population to also have bipolar or other disorder (such as depression). Although environment (or nurture; how you were raised) probably plays some sort of role, studies of twins indicate that there is a genetic factor. Such studies show that if one identical twin is affected, the other identical twin (sharing 100% genetic information) is 4 times more likely to be affected than if one were comparing fraternal twins (who also share 50% genetic information). These studies also illustrate the difficulty in determining the genetic factor: bipolar disorder in one twin does not necessarily mean that the other twin will also be affected.

How can this be explained? No one really knows for sure, but there are probably at least two things involved: the above-mentioned "nurture" and the concept of genetic penetrance. In genetic terms, penetrance is how often you see a certain effect from a certain gene. For example, in a genetic disorder such a cystic fibrosis, if you have the defective gene, you will get the disease, no question. The gene for cystic fibrosis has 100% penetrance. It is thought that for mental disorders, this is not the case. Rather, a defective gene may result in a 50% or 80% chance of having a disorder. Much more research has to be done to explain why this may occur.

Even though complicated, statistical analysis of DNA samples from affected and non-affected people show evidence for genes involved in bipolar disorder on several chromosomes. At the October, 1998 psychiatric genetics meeting Germany, it was noted that many of the chromosomal regions implicated in bipolar disorder have also been independently implicated in schizophrenia research. This could help explain why there can be an overlap of symptoms of both schizophrenia and bipolar (often diagnosed as schizoaffective disorder, or we're not sure which one they are so let's classify them here).

If it is so hard to find the genes involved in bipolar disorder, why bother?
Well, there are several reasons. Undergoing treatment for bipolar disorder can be hit-and-miss at first, because some drugs work for some people and don't work well for others. (However, let me note that most bipolars are able to do very well on medication; work with your doctor to find the right meds for you.) If we actually know what genes are defective, we can use medication that is specific for the malfunctioning genes for specific individuals. Basically, we may be able to one day make customized meds based on a quick genetic test. Also, if we have medications designed to specifically target the genes involved, they are much less likely to cause side effects. In the future, we may be able to use some form of gene therapy to correct the problem permanently. Additionally, finding the genes involved will help relieve some of the stigma that is often associated with any mental illness. Those who suffer will know the molecular reason for the chaos they feel, and parents of bipolars won't have to hear comments like "you must have done something wrong when they were kids."

My research focus
Our lab is concentrating on two areas right now: the dopamine transporter gene on chromosome 5 and a possible candidate gene on chromosome 22. My research is on 22 (another grad student researches the dopamine transporter). Chromosome 22 has been implicated statistically in both bipolar disorder and schizophrenia, and I am trying to find what gene is triggering the statistical evidence. To help narrow down the search, I am genotyping (finding out what specific DNA people have) markers near a specific location of chromosome 22 called D22S278, which is the region highly implicated in our studies.

Read our lab's paper implicating chromosome 22 in PNAS. I haven't figured out to display the .pdf file yet!, but on a PC you can right click on my link, and choose to save file or save target on your desktop--then you can read it. A genome survey indicates a possible susceptibility locus for bipolar disorder on chromosome 22. Adobe acrobat reader required; get it here for free.

What is a DNA marker?
You probably know that DNA is made of 4 bases (A, G, C, & T), and for the most part everyone has the same DNA sequence. Areas of DNA that don't have the same sequence in all normal people are considered polymorphic (many forms). DNA markers are sometimes located within a gene and are just variations of a gene, but many markers are located in between genes. Even though many markers are not part of genes, they still follow the same heritability patterns, and different variants can be detected in the lab. I am looking at two types of markers: microsatellite repeats and SNPs (pronounce "snips").

A microsatellite marker is a polymorphic section of DNA that repeats over and over (a common repeat is CACACACACA....). For example, some people may have 6 CAs in a row, and others will have 8, 10 or 12.

SNP stands for single nucleotide polymorphism. (Check out the SNP Consortium website.) A SNP is just a single base difference. For example:

Mary's DNA--GCACCATTA
John's DNA--GCATCATTA
Their DNA sequence is exactly the same except at the 4th base shown. Mary has a C, and John has a T.
SNPs have an advantage over microsatellite repeat regions when looking for disease genes. Why? Repeat regions generally have instability over time, meaning somehow, in the DNA replication process, the number of repeats can increase or decrease. Researcher indicates that the DNA replication machinery may "slip" on the repeats. This means that over many generations, one may find changes in the polymorphic regions in families. For example, great-great grandma may have had 4 CAs, and even though you are carrying that strand of DNA, you have 8 CAs. SNPs are much less likely to change over time, and when you read more about mapping with markers, you'll see why that's a benefit.

However, there is a downside to SNPs as well. Usually, there are only 2 variants of a SNP. In the example I gave above Mary had a C and John had a T, and if you looked at other people you would typically find they were either C or T as well; no one has A or G substituted. Microsatellite repeats have many variants, often 8-10 or even more. Although the statistics behind it are complicated, let's suffice it to say that more variation gives one stronger power to find a disease gene. So what is more important, greater statistical power or stronger evolutionary stability? If you know, let me know! This is actually a matter of debate right now in the genetics community, and our lab chooses to look at everything we can because we don't want to miss anything.

Using markers to identify disease genes
Since markers are inherited, one can trace the pattern of inheritance in a family pedigree. When you are searching for a disease gene, you may have no clue where it is in the human genome, but if you find a marker that matches the inheritance pattern of the disease, the marker is most likely near the gene. This can help narrow down the search from the whole genome to a region of a chromosome.

Finding SNPs to genotype
Microsatellite markers have been identified throughout the genome, and a search at the Genome Database will give you the information you need about a marker or locate markers near a region of DNA. However, SNP mapping is just beginning, so I have to identify SNP regions of DNA before I can genotype people. In order to find SNPs, I use PCR (explanation coming soon!) to amplify (make large--relatively--quantities of) regions of DNA in normal (non-bipolar) DNA samples, and then I find the sequence of the regions amplified for each person. When there is variation in sequence at one base, I probably have located a SNP. In order to do PCR, I have to know some sequence information to design primers. I find Chromosome 22 sequence information at The Sanger Centre Human Chromosome 22 Project.

References
Kelsoe, J. The Genetics of Bipolar Disorder. Psychiatric Annals 1997; 27:285-292.
This is a review article that discusses several research studies that indicate a genetic component for bipolar disorder, the complex genetics of the disease, and some linkage studies. I consider it fairly readable for the general public with a basic knowledge of genetics.

Coming soon
What is PCR?
Linkage and Linkage Disequilibrium
More References


Health Site Links

InteliHealth and InteliHealth Professional are sites I use to help me keep up with recent medical research.

HealthlinkUSA scans the web and adds links to their site. You can find links to bipolar disorder under the depression category.

HealthAtoZ.com has links to sites that are reviewed by the staff for usefulness


Bipolar and Chromosome 22 Links

HMS Beagle Reading Room
Excerpt from Mood Genes, which is also featured on my book list page. (You have to register to read the excerpt, but it's free to do so.)

National Alliance for the Mentally Ill (NAMI)

Winds of Change
Description of the types of bipolar disorder and support information.

Chromosome 22 Central--Find out other chromosome 22 related disorders such as trisomy 22, Cat Eye Syndrome, VeloCardioFacial Syndrome, DiGeorge Syndrome, and Ring 22.




Webrings

There is a wealth of information on the web about bipolar disorder. Rather than try to repeat what others have put together so well, check out the following webrings for more info on bipolar disease, other mental illnesses, and support groups.

 

Manic Depression Ring This Manic Depression site owned by
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Biological Unhappiness
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