Cancer genetics: Angelina Jolie’s decision

A life-saving surgery raises profile of cancer genes

Film poster of Lara Croft: Tomb Raider.

Angelina Jolie as Lara Croft: Tomb Raider. The movie was a smash-hit adaptation from a video game.

On May 14, cinema super-star Angelina Jolie announced that she’d had a double mastectomy to prevent the family scourge of breast cancer. With a courageous and medically explicit discussion of her odds and her “medical choice” to remove both breasts, Jolie splashed the issues of cancer prevention and genetic testing for cancer across the front pages.

Jolie explained her decision in the New York Times:

“I am writing about it now because I hope that other women can benefit from my experience. Cancer is still a word that strikes fear into people’s hearts, producing a deep sense of powerlessness. But today it is possible to find out through a blood test whether you are highly susceptible to breast and ovarian cancer, and then take action.”

About 10 percent of breast cancers have a genetic component, and two mutations, called BRCA1 and BRCA2, greatly increase the lifetime risk of breast, uterine and other cancers.

The BRCA genes normally suppress tumors by repairing broken DNA; when the gene is mutated, both suppression and repair may fail. By itself, the BRCA1 mutation raises the lifetime odds of breast cancer to about 65 percent, about five times the U.S. average. The odds are higher if, as in Jolie’s case, many relatives have the cancer.

No longer behind the curtain

Man holds a guitar close to see the strings with a drum set in background.

Jim Janetski holds his bass guitar close to see the strings. Blinded by an accident long ago, he can see faintly. Janetski, who has struggled with colon cancer for much of his life, says, “I love music, it’s helped me through my cancer a lot more than I ever thought.” Colon cancer, and early-onset tumors, are often hereditary.

Just as First Lady Betty Ford’s open discussion of her mastectomy in 1974 brought sunshine to the issue of breast cancer, Jolie’s announcement has fueled discussion of genetic testing and preventative surgery. “Our calls have quadrupled in the last week,” says Suzanne Mahon, a professor of hematology and oncology at the hereditary cancer program at Saint Louis University. “Angelina Jolie … is high profile, and has definitely raised awareness among patients and the community: ‘Is genetic testing something I should consider?’ It begins the conversation about what it means to be a carrier for a gene for cancer predisposition.”

Mahon appeared on radio and television May 14, and had scheduled 67 patients by May 29, about four times the usual rate. Much of the interest has been among women, but the focus goes beyond BRCA. Mahon says many callers knew they had a risk (she had previously tested their relatives), but still had not phoned for an appointment. “Jolie’s announcement gave them the bump to make the call,” Mahon says. “That’s all good.”

In many cases, Mahon says, people who are worried about breast cancer “should actually be worried about another hereditary cancer syndrome. When they give us their history, it may be that colon or another cancer is most relevant.”

Unusual actress, unusual patient

Just as Jolie has played unusual women in her movies, it’s critical to remember that her medical situation is not usual. Carrying the BRCA1 mutation, and having multiple relatives with breast cancer, she said she had 87 percent lifetime odds of breast cancer. Because BRCA1 can affect other organs, she also had a 50 percent chance of ovarian cancer, which she plans to prevent by ovary-removal surgery.

Counselor talks to visitor with genetic testing results in hand.

Photo: NIDCC
A researcher at the National Institute on Deafness and Other Communication Disorders provides a genetic counseling session.

The discussion of genetics and preventive surgery reflects medical progress and changing social norms, says Victoria Raymond, a certified genetic counselor at the University of Michigan Cancer Genetics Clinic. Preventive surgery “is becoming more mainstream because we are more open about discussing the options. Saying ‘breast’ 20 years ago was taboo. It’s more a conversation to have today.”

How would a genetic counselor deal with a patient who, like Jolie, faced scary odds of getting cancer? “When we counsel women,” Raymond says, “we try to get a feel for what they need to do to feel more comfortable, to take control of the risk. Some women cannot fathom doing the surgery. They say, ‘Let’s stick with surveillance.’ Some say, ‘I cannot sleep at night, cancer is all I can think about.’”

“I don’t think a double mastectomy in this case is radical, but it’s not for everyone,” Raymond says.

Jolie had other options, including early detection through intensified screening with MRI and mammograms, or perhaps drugs that could abate the risk of breast cancer (but not as well as mastectomy). Although cost is no object for a rich movie star, we don’t know whether insurance plans would cover prophylactic removal of the breasts, followed by reconstructive surgery.

Who should get tested

As we’ve seen, seeking genetic counseling can be frightful, but it can have benefits even without testing, says Jessica Joines, a certified genetic counselor who specializes in breast and ovarian cancer at the University of Maryland school of medicine. “One of the biggest misconceptions is that meeting a genetic counselor means you are necessarily going to go down the road of testing. We are here to help discuss the pros and cons, and help the patient make the decision on whether genetic testing is right.”

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Graph shows both laboratories offering genetic testing and diseases susceptible to testing increased in last two decades.

As the number of diseases susceptible to genetic testing continues to explode, the count of U.S. and international labs offering in-house testing for inherited disorders began to stabilize in 2003.

The meeting can be valuable in either case, says Joines. “We do a very thorough risk assessment, based on the personal and family history, and the risk factors for the cancer in question. Sometimes women with a family history may overestimate the likelihood that they carry a mutation.”

Even before genetic testing begins, Raymond encourages women to think about how they would use the results. “That’s how we want to use genetics: How is it going to change how we take care of someone?”

Getting testing

With Jolie in the headlines, some people may wonder about saving money by ordering genetic tests over the Internet, but that’s not a smart way to test for a serious disease, Mahon says. “Unfortunately the wrong tests get ordered. It’s an emotionally laden situation, and people really should have counseling with a trained, credentialed genetic counselor.”

In 2006, the Government Accountability Office found that “direct to consumer” genetic tests were misleading.

An informed approach to genetic testing must assess the risks and benefits, and explore insurance issues like preauthorization and coverage, and results are best presented in person, Mahon says. “If the result are positive, we schedule 90 minutes, even multiple appointments” to discuss the results.

Once a mutation is detected, relatives, depending on their relationship to the patient, may need to consider counseling and testing, Mahon says. “And there are questions about insurance discrimination. Do you need to up your life insurance? There is a whole host of issues.”

Federal law prohibits insurance and employment discrimination based on a genetic test.

Definitive? Not always…

Although Jolie’s case was pretty clear-cut, genetic testing does not always give definitive results. Many patterns of hereditary disease, for example, have not been tracked to specific genes. “One of the biggest challenges, when you are working with a family who you feel does have a hereditary component to cancer, is when you do all this testing, and the result comes back negative,” says Joines.

Plenty of gray areas exist, even with the well-known BRCA genes. Not every woman with a harmful BRCA1 or BRCA2 mutation will develop breast and/or ovarian cancer, and not every cancer in these families is linked to these mutations.

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Graph shows BRCA mutations carriers' risks of breast and ovarian cancers are much higher than general population.

The BRCA mutations sharply increase the risk of breast and ovarian cancers, and men are not immune.

Even a failure to find a genetic abnormality can be confusing. “It takes a lot of education, counseling, to convey that the negative result does not mean there is nothing to worry about, that there is not something genetic in the family,” Joines adds. “There are causes we don’t know. Probably one-third of hereditary breast cancers are due to rare or unknown genes.”

Even a field as number-rich as genetics can stumble when it comes time to say, “You have X percent lifetime chance of getting cancer Y.” Variations in individual lifestyle, environment and other genes can all play a role, and so it can be difficult “to give one absolute risk number,” Joines adds. “A lot of times, we give a range for the number; we feel that’s most accurate. Inherent in genetic testing is a certain amount of uncertainty. You have to make a decision on percentage chances, and you need to be comfortable with the decision.”

Genetic testing: treatment aid?

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Proteins colored red intertwine with cellular nuclei colored blue.

Photo: Anna Lasorella and Antonio Iavarone, Columbia University Medical Center
An abnormal protein made by a fused gene causes glioblastoma, a deadly brain cancer.

The BRCA1 mutation that caused Angelina Jolie to choose surgery resides in reproductive cells. Because it is copied into every tissue, people carrying the mutation are prone to cancer in several tissues. But in the vast majority of human tumors, the genetic abnormality is local — due, perhaps, to radiation, chemical assault or spontaneous mutation.

In glioblastoma, the most common and aggressive brain cancer, three percent of cases result from a genetic abnormality called gene fusion, says Antonio Iavarone, a professor of pathology and neurology at Columbia University.

Gene fusion means just what it says: Two genes splice together and start producing a deadly protein.

When Iavarone injected the fusion gene into mice, “100 percent of those mice get very aggressive brain tumors,” he says. “The fusion gene [working through the fusion protein] causes the cancer.”

Last year, Iavarone reported1 that drugs that interfere with the fusion protein dramatically slowed the growth of glioblastomas in mice.

“The possibility to treat patients who were selected for the presence of the fusion gene was there since the first moment,” Iavarone says. “After our work was published, I was hoping that a clinical trial would follow very rapidly. But these drugs would only work for patients who have the fusion gene; it does not makes sense to give the drugs to other patients, so the first step is to screen … for that three percent.”

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Slice of human brain with a tumor in one hemisphere.

Photo: Sbrandner
Brain slice shows pathology of glioblastoma multiforme, one of the most deadly human cancers.

A new view of clinical trials

A simple DNA test could identify the fused genes, he says. “We know how to block the activity of this protein with drugs that are already available [although not approved for marketing] from pharmaceutical companies.” Unfortunately, he says, drug companies want to forego screening and give the candidate drug to everybody in the trial, but that is a recipe for failure. “The vast majority of patient will not benefit.”

And so a clinical trial has not begun, Iavarone says.

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Graph shows cost of DNA sequencing decreased steadily from 2001 to 2013.

The plunging cost of sequencing has enabled the use of genetics in cancer prevention and treatment. In 2008, the price drop began to exceed Moore’s law, which describes the accelerating pace of computer processing. In 12 years, the cost has fallen by a factor of 100,000; one “megabase” is one million units of genetic code.

Because the same gene fusion occurs in other cancers, Iavarone says it no longer makes sense to automatically categorize cancers by their source organ. Ideally, “You don’t treat tumors because of where they originate, but based on their molecular content, the genetic alterations.”

Eventually, Iavarone says, “Breast tumors may be treated exactly like tumors from the brain, as long as they have the same genetic alterations. This is really the genomic revolution in cancer research: using new sequencing technology to understand which patient can benefit from a certain drug.”

Ever since 2003, when the first human genome was decoded, we’ve been waiting for the health benefits touted by supporters of the $3-billion genome project. Finally, Iavarone says, all the knowledge and equipment stimulated by that project are starting to pay practical benefits.

Jolie’s public decision, Iavarone says, “Underscores the possibility of preventing cancer by using genomic knowledge. In brain tumors, and unfortunately for the vast majority of cancers, we don’t have the opportunity, there is no germ-line mutation, we can’t say you are at risk. But we are starting to see treatments, and that is another opportunity raised by genomic knowledge.”

– David J. Tenenbaum
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Terry Devitt, editor; S.V. Medaris, designer/illustrator; David J. Tenenbaum, feature writer; Amy Toburen, content development executive; Emily Eggleston, project assistant

Toms River

Toms River

Dan Fagin • Bantam, 2013, 538 pp.
Book cover: 'Toms River', by Dan Fagin

In 1952, the Toms River Chemical Plant opened a vast factory in rural New Jersey, dedicated to making dyes based on a coal product, anthraquinone. Prized for bright, color-fast colors, the manufacturing process also produced prodigious streams of toxic waste.

As the plant, eventually renamed Ciba after its owner, the Swiss chemical giant, prospered, streams of waste filtered into the sandy soil and reached the Atlantic through a leaky pipe. Less obvious at the time, a field of municipal water wells a mile or so from the plant fence were contaminated by midnight dumping of barrels of toxic trash from chemical giant Union Carbide.

You might guess the outcome: A cancer cluster, a town divided against itself, a massive struggle pitting people who felt victimized against a truculent, entrenched corporation. Caught in the middle: state and federal regulators.

Toms River details the decade-long effort to unravel and repair the environmental damage left by the Ciba plant, which closed in 1996. It explores the 1856 discovery of a bright purple residue that “clung flawlessly to a cotton cloth,” and the rise of the Swiss chemical industry, together with its constant need to dispose of toxic byproducts.

In parallel, author Dan Fagin describes the fitful progress of toxicology and epidemiology — disciplines that were tested so strongly at Toms River.

In 1700, for example, the Italian physician Ramazzini published Diseases of Workers, based on his visits to workplaces, which “included startlingly accurate descriptions of diseases associated with fifty-two occupations, from lead poisoning of potters and mercury poisoning of mirror makers to the hunched spines and overtaxed minds of sedentary ‘learned men.’”

The signature ailment at Toms River, childhood leukemia, afflicted families living near the plant. Repeated investigations of this “cancer cluster,” however, could not quite pin down the source. Although there was obvious aquifer pollution, nobody had stored samples of past drinking water, so it was impossible to know how much poison they contained.

And here is the result, as Fagin describes it: “By the late 1980s, there was no avoiding the unsetting conclusion: [Investigating] neighborhood cancer clusters appeared to be a fool’s errand, and a source of perpetual embarrassment to the agencies that conducted them and the politicians who had to defend their unsatisfying results.”

Toms River the book is anything but unsatisfying. Fagin weaves — without a bit of maudlin grandstanding — strands of chemical invention, corporate behavior, dedicated doctors, nurses and especially citizens, family tragedy, and the invention of epidemiology.

The result is a stunning achievement: A historical-scientific page turner, all fact, all the time!

David J. Tenenbaum

Biobombs blast cancer!

Fighting cancer with virus

The war on cancer goes on and on, and despite limited victories — mainly when tumors are discovered early — the death toll refuses to slacken. One of the more promising innovations uses something seen 100 years ago: Some viruses kill tumors.

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Cell explodes as virus progeny exits.

Viruses commandeer cells, force them to make more virus. When the cell explodes, it dies, releasing thousands of new virus particles.

Nothing in nature rivals the virus for entering a cell, duplicating itself, and then exploding the cell to release thousands of brand-new virus particles. This enter-duplicate-kill-release process relies on biological tools perfected through millions of years of evolution.

And it can be compelling, says Timothy Cripe, chief of hematology and oncology at Nationwide Children’s Hospital in Columbus, Ohio. Cripe, who advocates intensive testing of cancer-fighting viruses, says, “If you look at a virus spreading through a culture dish or animal model after one injection and see the tumor melt away, that’s powerful. It has a lot of promise.”

Outsiders may deem it insane to deliberately infect people with viruses, but this happens by accident all the time. A viral infection may begin with aching, swelling, malaise and mild fever. Although some viruses can be fatal or debilitating, often, we notice little or nothing, or recover fully.

Viruses — and their human hosts — are that variable.

Viruses now under consideration in the struggle against cancer include herpes simplex, the cause of cold sores; measles, cause of epic epidemics through history, and reovirus, a widespread infection that, handily enough, causes no known disease.

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Three-part virus life cycle, virus entering cell, replicating and then bursting the cell.

Oncolytic viruses are designed to emulate the normal infection process, where the virus takes control of the cell to make more of itself, and then ruptures and kills the cell, releasing more virus.

A crisis of lysis?

Still, curing disease with an agent that causes disease reminds us of the bad old days when radium or mercury were considered medicine, and Cripe acknowledges some skepticism among his colleagues. “The whole field is still an area where people who are not involved say it’s interesting, but I will believe it when I see it. When we get the first FDA approval, that will be proof of principle. This is at least going to be another tool in the armamentarium for fighting cancer.”

In the past few years, researchers have shown, in lab dishes and lab animals, that viruses can home in on tumor cells and kill them by exploding – the process of lysis. Tack on “onco-” for cancer, and we meet the “oncolytic viruses.”

No oncolytic virus has yet attained FDA approval, but there are many signs of progress:

A preliminary test of a virus/vaccine combination against advanced melanoma, in 50 patients, had “stunning results,” says Howard Kaufman, associate dean of Rush Medical College in Chicago. Eight patients recovered completely and four partially responded to the treatment. The results were so good that the researchers launched a larger, phase III trial that could provide evidence needed for Food and Drug Administration approval.

A 2012 study1 showed that injecting a reovirus into the blood caused it to “hitchhike” on blood cells and spread through 10 bowel cancer patients. Intravenous delivery, if it works generally, is much simpler than trying to inject every tumor.

A virus called Onyx 015 added no toxicity to standard chemotherapy in 40 head and neck patients2. Sixty-three percent of the patients responded, compared to 35 percent who would be expected to respond to chemo alone.

A preliminary test of reovirus3 against head and neck cancers showed the combined potential of virus plus chemotherapy. The cancers shrank in about one-third of patients who could be evaluated, and disease stabilized in another third, and all signs of cancer disappeared in one patient. “We saw really very impressive response rates,” said Kevin Harrington, oncologist at The Royal Marsden hospital in London, via press release. “These are patients whose cancers had grown despite a great deal of previous treatment. … We’d expect that the average response rate to chemotherapy alone might be as low as single digits figures and the average survival would be somewhere between three to four months.” In the study, average survival was seven months.

How do oncolytic viruses work?

Many types of viruses are under investigation, Cripe says. “There are animal viruses that do not cause disease in people, or human viruses that don’t cause disease, like reovirus.” Viruses can also be genetically hobbled to prevent their running amok.

Using a virus to fight cancer “is not a new idea, it’s been tried for nearly 100 years, since viruses were discovered to kill cells,” says Cripe.

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Black and white photo of discoverer of bacteriophage with his hands crossed on his knee, dressed in a British military uniform and looking directly into the camera.

In 1892, a Russian botanist identified a virus for the first time and 23 years later Frederick Twort (pictured above) was the first person to describe viruses that infect bacteria, or bacteriophages. An Englishman, Twort discovered a bacteriophage, which he called a bacteriolytic agent, in his London laboratory and published the results in The Lancet. Now, almost 100 years later, scientists are using viruses to attack and kill cancer cells.

But if viruses are so great (remember that nobody has proven they are magic bullets against cancer) why the delay? “We went on a long, winding road; it’s only now that the science has matured sufficiently that we can manipulate viruses to our liking, clone in genes, endow them with other properties that make them safe,” says Cripe. “We know enough about cancer biology, cells, viruses, and the immune response, so we are now in a position to harness what I think is a very powerful effect of nature.”

Choosy, choosy!

Traditional cancer treatment is as selective as a shotgun: Radiation and chemotherapy attack fast-dividing cells found in tumors, and in the gut, bone marrow and hair follicles.

The inevitable side effects — hair loss, nausea, weight loss, treatment-induced leukemia — don’t just make patients miserable for the duration. They also limit treatment options.

And so the holy Grail in cancer treatment is selectivity: Identifying and killing tumor cells, without harming normal cells.

Viral selectivity can take many forms. For example, a virus can be engineered so its genes do not work in normal cells, or it can make tiny bits of RNA that regulate which genes work and which lie dormant. Or they can, like reovirus, multiply only in cells with a “ras” mutation.

Interfering with interferon

Ras, named for its discovery in rat sarcoma, is a cellular switch that activates numerous growth signaling pathways that are normally used when a cell grows or divides. These growth pathways are also critical to making more virus and more tumors, says Cripe. “To turn the cell into a virus factory, a virus has to turn on a bunch of genes for making nucleic acids, proteins and enzymes. The virus wants the cell to rev up, so the virus can use the same things a cell needs to grow and divide.”

Among other effects, a ras mutation interferes with the interferon network, which normally protects cells by slowing this production of proteins and DNA. “The interferon pathway was named because it interferes with virus infection,” Cripe says. “Once the interferon protein is expressed, it forces a lot of other genes to turn on and shut down those growth pathways.”

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3 vials of interferon medicine

Interferon was touted as a wonder drug in the 1980s, and although it’s no magic bullet against cancer, several interferons are on the market for treating diseases like cancer and multiple sclerosis.

Reovirus, an oncolytic virus now under intense study, can enter most cells, but it only reproduces if a ras mutation has closed the interferon pathway. As a result, the virus’s “kitchen” is stocked with plenty of those essential proteins and nucleic acids.

And thus the ras defect, found in up to two-thirds of tumor cells, makes those cells vulnerable to reovirus.

Selectivity can work in other ways, says Kaufman, who directs the Rush University Cancer Center. “Oncolytic viruses can infect a wide range of cells, and probably do, but some viruses [including OncoVEX, which he is studying in melanoma] have been rendered a little less powerful. In order for them to really divide and kill the cell, they need a big pool of nucleic acid [used to make DNA or RNA]; they can’t assemble it themselves.”

Although most normal cells lack such a supply of nucleic acids, “cancer cells are abnormal to begin with,” he says, “and there is a large pool of nucleic acid because they have to divide so often. The virus can take advantage of that; if they are only able to grow inside a cancer cell, those are the cells they kill, and that’s why the oncolytic virus is more specific than radiation or chemotherapy.”

Although the OncoVEX-melanoma trial will not use chemotherapy, oncolytic viruses seem ideal for combination therapy, as they have, by all accounts, minimal side effects (typically including fever and aching). Clinical tests already under way are comparing the activity of oncolytic viruses, combination therapy, and chemotherapy alone.

Methods of an experimental anti-cancer virus: Reolysin.

A combination of assaults

But exploding cells is not the only way that oncolytic viruses can attack cancer. Viruses, after all, usually spark an immune response, and that is the second half of their allure, says Kaufman, who is leading a 430-patient phase III study of OncoVEX in melanoma.

OncoVEX is oncolytic, so it can directly kill tumor cells, but, “part of the goal is to take a dying tumor cell and initiate a vaccine response,” says Kaufman, “in a kind of individual self-vaccine.”

Derived from a test vaccine against herpes virus, OncoVEX contains the granulocyte and macrophage colony stimulating factor gene, which “has a particular effect on the dendritic cells that initiate the immune response,” says Kaufman. “Dendritic cells search through the body for potential antigens, bacteria, virus or tumor cells, and activate the T-cells that go back and directly fight the cancer.”

This immune attack seemed to work in a preliminary study, completed in 2010, Kaufman says. “Even tumors that were not injected could be destroyed by the immune system. If we injected a tumor in the skin, sometimes a lung or liver tumor did go away.”

We had to comment that medical magic bullets always seem to misfire, and that oncolytic viruses sound too good to be true. “In a way, they do,” Kaufman admits. “It’s well tolerated, can be done in the office with very few side effects.”

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Woman connected to intravenous tubes administering chemotherapy.

Although she’s smiling, we’re guessing that this patient would rather not have to undergo chemotherapy, with its attendant side effects. If oncolytic viruses continue to prove themselves, they could either replace chemo or become part of the treatment regime.

As leader of the melanoma trial, Kaufman does not know who is getting the virus. But he thinks he’s seeing something good. “I saw a patient this morning, who said, ‘I’m so happy I don’t need surgery, toxic drugs.’”

The real proof will come when a randomized, controlled clinical trial proves that an oncolytic virus — whether OncoVEX or something else — provides a significant survival benefit.

The larger melanoma trial, like several others now under way4, should give a definitive answer, Kaufman says. “I believe we will learn whether it is really effective in a larger number of patients. It’s important to see the long-term outcome. Some of my patients are two-plus years, and have no disease. When we get a complete response that seems to be durable, we are very cautiously optimistic that this is a major advance.”

The question of resistance

Cancer cells are brilliant at evading our weapons; when chemo or radiation works, tumor cells often evolve resistance. The same could happen with oncolytic virus, says Cripe. “If the virus depends on a particular receptor [to enter the cell], it can [find a way to] turn that receptor off. But it only takes one infectious virus particle to kill a cell, and if every cell that is infected gets killed, the tumor cells don’t have the opportunity to mutate and develop resistance. Tumor cells may or may not be receptive to a given virus, but if they are, it’s unlikely they can change, as they will get killed.”

The situation differs from chemotherapy, Cripe says. “If chemotherapy inhibits an enzyme, one cell may figure out how to overcome this. With a virus, it’s all or nothing.” Tumor cells will not see the virus, so they will have no reason to mutate. “If they see the virus, it will kill them,” Cripe says.

But cancer teaches that miracle cures never seem miraculous in the long run. Magic bullets can miss their target. Progress takes time. And, as oncologists remind themselves, “cancer is smarter than we are.”

– David J. Tenenbaum

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Terry Devitt, editor; S.V. Medaris, designer/illustrator; David J. Tenenbaum, feature writer; Amy Toburen, content development executive; Emily Eggleston, project assistant

Bibliography

  1. Cell Carriage, Delivery, and Selective Replication of an Oncolytic Virus in Tumor in Patients, Robert A. Adair et al, Science, 13 June 2012.
  2. Vasey PA, et al. Phase I trial of intraperitoneal injection of the E1B-55-kd…J Clin Oncol 2002; 20: 1562–1569.
  3. Phase I/II trial of carboplatin and paclitaxel chemotherapy in combination with intravenous oncolytic reovirus …, Eleni Karapanagiotou, et al, Published OnlineFirst February 7, 2012; doi: 10.1158/1078-0432.
  4. Clinical development directions in oncolytic viral therapy, RM Eager and J Nemunaitis, Nature, published online 25 March 2011.
  5. Cancer-killing virus waits in the wings
  6. Interactive atlas of U.S. cancer statistics
  7. Mesmerizing reovirus animation
  8. American Cancer Society’s 2012 Cancer Facts & Figures
  9. Research findings on using viruses to fight gastrointestinal cancer
  10. Cancer survival rate: What it means for your prognosis

Ties that bind


Black cells clustered together surrounded by thick red; green cells around periphery surrounded by thinner red.

Pannexin1, a tumor-suppressing protein,
plays a vital role in binding tissue together.
Photo: Brian Bao/Brown University

Pannexin1, a tumor-suppressing protein, plays a vital role in binding tissue together.
When cells expressing Pannexin1 touch, the protein initiates a response that includes developing tight networks of actin, a structural protein. A looser cell structure can ease the spread of cancer cells. Here, cancerous rat cells that have been altered to make Pannexin1 (black) have a highly developed, tightly bound actin network (red), and those that don’t make the protein (green) have a much looser actin network.

When cells turn cancerous, they stop making Pannexin1 and with that, the ability to bind together in a strong actin network. Researchers are now working on the implications of Pannexin1’s binding abilities: it is possible that reintroducing the Pannexin1 protein to tumors will make cells bind tighter, slowing the spread of cancer.

Short of meds…

Dawn of a new (legal) drug crisis?

With little notice until recently, a shortage of medicine is starting to impair treatment at America’s hospitals. Common, cheap and necessary drugs needed to fight bacteria or cancer, to ease pain or to nourish premature infants are running out.

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Photo: Rhoda Baer, National Cancer Institute
Cancer treatment is basically a medical emergency, and chemotherapy drugs are a major part of the ongoing shortages. What happens when they are hard to get?

Many of these meds are injectables, which must be made under sterile conditions. All are generics, which sell for pennies compared to the buck-buster drugs that feed the bottom lines at the big-name drug companies.

Most shortages are unnanounced until a wholesaler’s shipment arrives lacking an ordered drug. “It’s unbelievable,” says Sara Shull, manager of the drug policy program at the University of Wisconsin Hospitals and Clinics in Madison. “Today I was trying figure out alternatives to papaverin,” an old drug used to prevent spasm in the many surgeries that involve grafting a blood vessel. “We have identified some alternatives, and I am now I working with the surgeon to figure out how to dose them, how to apply them. Is it bathed on? Sprayed on? He’s busy, we’re all busy, and sorting this all out takes a lot of time. The continual need to find replacements gives me a headache.”

Shortage-induced substitution played a role in Alabama, where nine hospital patients were killed by intravenous nutrients this summer, says Allen Vaida, executive vice president of the Institute for Safe Medication Practices, a non-profit that targets medicine hazards. “Because of a shortage, this compounding pharmacy was making a product from raw material, and it got a bacterial contamination.” (The maker of the nutrient solution, Meds IV pharmacy in Birmingham, Ala., is apparently out of business.)

(drug refills) A wall of rows of pegs with thick stacks of paper slips hanging on each peg, a hand takes one slip off peg
Medications on this rack will restock a robot that fills individual patient envelopes that will be sent tomorrow to nurses’ stations in the hospital. Actually, the robot restocks itself in its 24/7 delivery of thousands of prescription drugs.
Photo: The Why Files

Injectable nutrients are a shortage with broad implications, says Shull. “No matter what your disease process, you need normal calcium levels [and] normal potassium levels to maximize your therapy, and products needed to build total parenteral nutrition [for patients who can't take food by mouth] have been short for months. Patient care has been impacted.”

Last month, Richard D. Paoletti, a vice president of Lancaster General Health in Pennsylvania, told Congress that wholesalers had failed to supply one-fifth of the 4,344 individual drugs ordered during August 2011.

Total shortages rise from 61 in 2005 to 178 in 2010. Injectables rise from 31 in 2005 to 132 in 2010.

Shortages are growing, especially for injectable medicines.
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 Intravenous bag partly full with clear liquid; sticker shows patient and dose

On Oct. 6, 2011, the common chemotherapy drug paclitaxel was listed as short. Two manufacturers cited increased demand, two others cited manufacturing delays and a fifth manufacturer “cannot provide a reason for the shortage.”

Running long on shortages

Pharmacists have always had to find substitute medicines, as patients keep coming through the door, but Vaida cites Food and Drug Administration numbers to argue that shortages are now at “crisis” proportions. “The FDA shows 70 shortages in 2006, 129 in 2007 and last year, there were 211. So far this year, we are already above 200 shortages, and the year isn’t done. Shortages have been around forever, but they have never reached this number.”

Some drugs can be substituted, says Vaida, but “especially with chemotherapy and nutritional products, it’s not like are three alternatives for some medications, as there are with blood-pressure drugs. Some chemotherapies are specific for certain cancers, and if they are not available, you may have no alternative or [you] may have to use a third-line alternative.”

The pharmaceutical situation has never been more complicated, with more than 45,000 prescription drug products on the market, from about 1,400 manufacturers. Although we could not easily find numbers, drug shortages are also rising in the United Kingdom, where the supply situation is complicated by the restriction on exports within the European Union.

Shortages have many possible causes, but because manufacturers tend to be closed-mouthed, it’s not clear which problems are most momentous or easiest to solve:

Quality control. Injectable and intravenous drugs must be made in sterile conditions, a complication that helps explain why they dominate shortage lists. Even common, low-tech items, needed for total parenteral nutrition, are running short, Vaida says. “We see shortages of injectable nutrients and electrolytes, potassium phosphate, sodium phosphate, even multivitamins in injectable form,” he says.

enlarge

A machine fills envelopes from hundreds of pegs holding small packages

To help a hospital pharmacy process about 14,500 medication orders per day, this robot fills envelopes for delivery to patient rooms. The robot is tightly linked to the medical records system; bar codes, redundancy, process design and automation have slashed the rate of medication errors, but not to zero.
Photo: The Why Files

Profitability. The key benefit of generic drugs — a low price — ironically sets the stage for shortages, says Vaida. “Over the years, many of these generic prices have come down dramatically. With biological and immunological products, manufacturers can make lot more money,” he says. It sounds obvious and straightforward, but Vaida says “a lot of manufacturers may not own up” to withdrawing unprofitable drugs.

Consolidation. Mergers among manufacturers making the same products render future shortages more severe, Vaida says. “If three plants go down to one plant, and there is a quality issue at the plant, you can’t start producing somewhere else, unless those plants have been [FDA] inspected for that drug.”

Failure to communicate. Companies are not required to notify the FDA — or anybody else — when they stop producing a drug, either deliberately or due to a manufacturing problem. No matter the human costs, a decision to quit manufacturing is considered a normal business decision not subject to agency review or influence.

How short is short?

A drug is considered “short” if a specific dosage and formulation is unavailable, and in some cases, a similar item can be substituted. But Shull says that’s still a problem in a big hospital. If a product that is normally purchased in a pre-loaded syringe is only available in a vial, University of Wisconsin Hospitals and Clinics can no longer send a “unit of dose” to the nurse, and “that’s what the nurses are expecting,” Shull says.

ENLARGE

Crying baby girl sits on mother's lap as nurse bandages her leg

Photo: CyrilChen
We can’t tell what’s in that needle, but vaccines for hepatitis A, rabies and measles, and mumps and rubella are all on the shortage list.

Changing procedures complicate care and raise costs, Shull adds. “All our people are working in a complex system, with lives on the line. These shortages can be a recipe for increased errors.” Her hospital must dedicate one staffer to securing supplies of the common blood-thinner heparin, she says. Searching for alternate sources is less rewarding than studying the efficacy of various medication treatments, she adds. “It’s not what I was taught in pharmacy school, but when your back is up against the wall, you have no other options.”

Beyond impairing patient care, shortages have also become a major burden in medical research. Tests of new medicines, often set up to run at several hospitals nationwide, must give standardized meds to the treatment and control groups, and chaos can result when the drugs become unavailable. “These shortages are now affecting clinical trial options for patients with cancer,” Robert DiPaola, director of the Cancer Institute of New Jersey, told the House Energy and Commerce Subcommittee on Health on Sept. 23. “Due to the uncertainty of being able to obtain many of these drugs, enrollment of patients on clinical trials has been delayed or stopped in several of our trials.”

ENLARGE

Woman in medical scrubs measures out fluid for an intravenous treatment bag

Photo: University of Michigan Health System
Cancer drugs are a common shortage category.

Howard Koh, assistant secretary of health and human services, reinforced that message to the committee: “Many of the cancer drugs in short supply … are mainstays of the anti-cancer arsenal, and were largely developed through federally funded research begun 20, 30, even 40 years ago. They are still essential to treatment and research,” he said. The National Cancer Institute is currently sponsoring 349 clinical trials that require these drugs, Koh added. “Taken together, these studies represent thousands of patients, as well as a significant federal investment in clinical trials research.”

At the same hearing, Mike Alkire, chief operating officer of Premier healthcare alliance, told Congress how widespread the shortages have become. In a recent Premier survey, 53 percent of hospital pharmacists said they had faced at least six shortages “that had the potential to cause a medication safety issue or an error in patient care.” And 34 percent of respondents said at least six shortages had “resulted in a delay or cancellation of a patient-care intervention.”

Premier estimates that the 2,500-plus non-profit U.S. hospitals in its membership pay an extra $66 million per year due to these shortages — which translates to $415 million at all U.S. hospitals.

Market going gray?

When the usual sources run dry, hospital pharmacists often get emails, faxes and phone calls from the “gray market,” sources outside the usual supply chain. In the summer of 2011, the Institute for Safe Medication Practices surveyed 549 hospitals and found that:

tiny syringe56 percent were getting solicitations “daily” from as many as 10 gray marketeers;

tiny syringeOne-third to one-half of hospitals reported that gray market prices were 10 times above their usual sources;

tiny syringeOnly 23 percent of gray-market purchases were “authenticated” to verify drug source, purity and dosage; and

tiny syringe12 percent of the respondents knew of a problem related to purity, dose or storage, or sale of recalled, counterfeit or stolen products.

Gray market prices for medications: Nice work if you can get it?

Wholesale price of meds in middle column, alternate supplier prices in next column are hundreds of dollars higher

The gray market for meds charges a pretty hefty markup.

Alkire, of the Premier alliance, told Congress that the gray market is “appalling,” with an average markup of 650 percent. Forty-five percent of the offers were marked up at least 1,000 percent above normal price, and drugs for leukemia and non-Hodgkin’s lymphoma were marked up 4,000 percent. “We saw similar markups for medicines for sedation during surgeries; to dilate veins and prevent brain or heart spasms; and to prevent damage during a heart attack,” Alkire said.

For these reasons, University Hospital at UW-Madison does not buy gray, says Shull, although it does buy from a wholesaler that seems to have supplies of drugs when nobody else does.

The gray market arouses suspicion: How do some firms know about shortages before anybody else? How do they obtain drugs when normal sources are short?

“There is speculation going on,” says Vaida. “Some secondary wholesalers may try to buy up some available drugs and sell them for higher prices. Often times, they are looking for people who need the product, and try to obtain it from whatever sources. Some are playing it almost like Wall Street, anticipating what may go on shortage — if two manufacturers have just consolidated, and there’s a generic product that is only going to be made by one of them.”

Cures for missing meds

Many measures have been proposed to ease the medication shortage:

tiny syringeEase the imports: If drugs sold in other countries were exported from the United States, or made in foreign factories with reliable inspection, why not allow accelerated importation? Although re-importation from Europe is now permissible, it takes a long time to get FDA approval, says Vaida, but the shortage is forcing that process to be accelerated. “If the product is available in Europe, the FDA is moving quicker to evaluate and approve it,” he says.

tiny syringeFDA funding and flexibility. Although the FDA has bragged that it has averted 99 medicine shortages so far this year, many observers say the agency needs more money to do the kind of policing and coordination that would eliminate more shortages. “We need to make sure the FDA has the resources necessary to carry out its mission, and we need communication within the FDA, so offices are on same page as headquarters,” says Joseph Hill, director of federal legislative affairs at the American Society of Health-System Pharmacists. “There are situations, for example, where the bar code on a product is damaged, and technically they maybe can’t offer the product for sale, but if it’s in short supply, and obviously is still safe, we believe there ought to be exceptions.”

tiny syringeStockpiling: Some advocate amassing reserves of medically necessary drugs that seem particularly vulnerable to shortage, due to a history of poor supply, manufacturer consolidation or a difficult manufacturing process. This logical solution, however, is costly: drugs are varied, expensive and subject to decay in storage.

tiny syringeLet’s talk: The cardinal countermeasure concerns communications. Under a bill now before Congress, manufacturers would be required to notify the FDA before discontinuing a drug. Currently, says Vaida, “The biggest frustration is that hospitals find out there is a shortage when a drug does not come in with their order. That’s all the notice they are getting, and all of a sudden they have to switch, they have two hours to let everybody know in a 700-bed hospital, ‘Here’s the new drug: it may have to be dosed differently, administered differently and prepared differently.’”

Hand holds syringe, with drop of liquid at the tip.

Generic, injectable drugs comprise the majority of shortages.

The FDA seems to be getting the message. In testimony to the subcommittee on Sept. 23, Koh claimed that the agency had already headed off 99 looming shortages in 2011, compared to 38 for all of 2010. But Koh added that today’s shortages “include standard therapies for the treatment of lung, breast, ovarian, testicular and colorectal cancers, as well as several types of lymphomas and leukemias.”

Sometimes, Koh said, common-sense, proven measures can sidestep shortages. “… the FDA was able to mitigate a shortage by allowing the use of a filter to safely remove foreign particles contained within vials of injectable drugs, averting the obvious risk to patients of having metal shavings or other particulate matter injected into their veins.”

A pessimist, of course, could say the higher number of averted shortages simply reflects the greater number of shortages overall.

At any rate, organizations concerned with shortages say they are in a vise. “From our members’ perspective, it’s become [a] crisis,” says Hill. “We are seeing shortages nationwide. We have been tracking this for about 10 years, but in the last few years, we’ve seen a spike in the numbers.”

Given the problem’s multiple and sometimes obscure, roots, Hill sees “no single solution, and that’s the troublesome part. Unfortunately we will be dealing with this for a while. But there are some things we can do. We’d like to establish a mandatory early-warning system, so a manufacturer that has a problem has to notify the FDA. The FDA says it has avoided 99 shortages in the past year when it had that information. When there are multiple sources, the FDA can reach out to other manufacturers and urge them to ramp up production.”

David J. Tenenbaum

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Terry Devitt, editor; S.V. Medaris, designer/illustrator; David J. Tenenbaum, feature writer; Amy Toburen, content development executive; Emily Eggleston, project assistant

Bibliography

  1. FDA shortages info.
  2. FDA: drug shortages list.
  3. Another listof drug shortages.
  4. Podcast: managing drug shortages.
  5. Deaths due to shortages.
  6. Social media account of drug shortage workshop.
  7. Another workshop account: the cancer impact.
  8. Drug rationing.
  9. Effect of shortages on cancer research.
  10. Forced into the Gray Market.
  11. ISMP: gray market, black heart.
  12. The big shortage.

Genetic solution to cancer, diabetes?

Dwarf gene cuts both ways

ENLARGE

Two adult men stand behind a row of 11 women and two children, who come up to men's waist in height

Photo: Journal of Clinical Endocrinology and Metabolism
Study co-author Jaime Guevara-Aguirre (left) and Arlan Rosenbloom stand with some of their study participants back in 1989.

Can a gene that causes dwarfism also confer major health benefits? Perhaps, according to a new study showing that a group of extremely short people in Ecuador get no diabetes, even though they are unusually obese.

The 22-year study of people living in villages on the slopes of the Andes mountains also found just one case of cancer in the 99 patients it tracked, many fewer than among non-dwarf relatives.

The absence of two of the worst diseases of aging was strong evidence that the mutation that causes what’s called “Laron syndrome” has an upside, says Valter Longo, a gerontologist at the University of Southern California, and the senior author on the new study. “If you talk to anybody in the field, there is no way you can have a population with increased obesity and no diabetes. What was particularly strange was having zero deaths from cancer with 22 years of direct monitoring.”

Unfortunately, the subjects did not outlive the comparison group of relatives, due to large numbers of accidents and other alcohol-related problems.

ENLARGE

Painting of dozens of people in medieval clothing in a long line down a road leaving an old city

Conversos flee Spain to avoid persecution. Conversos brought Laron’s syndrome, a genetic condition that causes dwarfism, to Ecuador, but it may also protect against diseases of aging.

The Laron’s patients are descendants of “Conversos,” Jews who were forcibly converted to Catholicism in Spain after 1492, and who emigrated to Latin America to escape continued persecution. Laron’s syndrome is also found in Israel and several other Middle-eastern countries.

The root of Laron’s syndrome, AKA growth hormone receptor deficiency, is a genetic mutation that disables the growth-hormone receptor, says Arlan Rosenbloom, a professor emeritus of pediatric endocrinology at the University of Florida who has long studied the Ecuadorian group but was not involved with the current report. “Growth hormone binds to its receptor on cell surfaces to stimulate production of insulin like growth factor-I (IGF-I) which is the real ‘growth hormone,’” Rosenbloom says. “Failure of the growth-hormone receptor cuts growth after birth by 50 percent. The Ecuadorians with this condition, 99 living individuals, comprise upwards of one-third of all individuals in the world with growth-hormone receptor deficiency.”

Upper half of naked man, growth hormone arrows from brain to liver and muscle, IGF-1 arrow from liver to bone

Growth hormone, secreted by the pituitary gland, travels to the liver, where it stimulates the formation of insulin-like growth factor 1, which stimulates bone growth.

The genetic angle

The new comparison of genetic differences between Laron patients and their non-dwarf relatives emerged from what Rosenbloom calls “spectacular epidemiological observations” by first author Jaime Guevara-Aguirre, an Ecuadorian endocrinologist who treats the Laron’s patients.

Working with Rafael de Cabo, a collaborator at the National Institute on Aging, Priya Balasubramanian from Longo’s research group exposed human epithelial cells, where most human cancers originate, to blood serum from control and Laron subjects. Serum is the cell-free portion of blood. “We wanted to know how this would affect the expression of dozens of genes,” says Longo, who studies cellular changes in aging.

The springboard of modern aging research is caloric restriction, because a diet with roughly 65 percent of normal calories is the only life-extension technique that works in a vast range of organisms. Although a similar group of protective genes activate under caloric restriction in yeast, fruitflies and mice, “We did not expect that a lot of the genes we study in yeast would come out as the most affected” in patients with a broken growth-hormone receptor, Longo says. “Serum from the Laron patients caused changes that we and others have shown to be highly protective in simple systems [like yeast]. We hoped for this but never really expected that many of the same genes would be coming up.”

At the molecular level, a key mechanism of aging is “oxidative stress,” damage to proteins and DNA caused by reactive molecules and fragments containing oxygen. When the researchers exposed human cells to the oxidant hydrogen peroxide, far fewer DNA breaks appeared in cells bathed in serum from the Laron patients, suggesting that they were protected against cancer.

ENLARGE

satellite image highlights western South America, specifically Ecuador and the Loja region in red at southern tip of the country

Ecuador’s Loja province, highlighted on this map, is home to a third of world’s people with Laron syndrome.

The study found a second critical difference: When the DNA was damaged, cells in Laron serum were much more likely to commit suicide through apoptosis. Because apoptosis is a major obstacle to cancer, this suggested that cells in a Laron patient that had started on the path toward cancer would be more likely to kill themselves before going rogue.

Combined, the two phenomenon seem to explain why during the 22-year study only one of the Laron’s patients being tracked had a cancer, which was successfully treated. About 17 percent of their normal-height relatives had cancer during the same period.

Growing more confident

The study illuminates the role of insulin-like growth factor-1 (IGF-1), a growth hormone that, while required during development, may cause problems later on. “Large population studies show that people with the highest levels of IGF-I are at increased risk for certain types of cancer,” says Rosenbloom.

Longo notes that the effects of IGF-1 may depend on whether it is formed in an individual organ or distributed in blood. “Our hypothesis is that we do not need a ton of circulating IGF-1,” Longo says. Laron patients have between 0 and 10 percent of the normal level of IGF-1, “but they are fine, several made it into their 80s.”

“To have zero cases of diabetes! Anybody in the field will say, there is no way you can have a population with increased obesity and no diabetes.”

The Ecuadorian study was more evidence that IGF-1 formation requires a functioning growth-hormone system. A drug that blocks the growth-hormone receptor has been approved for treating acromegaly, or gigantism, which is caused by excessive production of growth hormone.

You don’t have to be a hypochondriac to wonder if such a drug could prevent cancer and diabetes in adults, but the new study shows correlation, not proof, and Longo advocates a more modest first step in clinical trials. Return to caloric restriction for a moment: Studies in mice show that fasting reduces IGF-1 and protects healthy cells — but not tumor cells — from damage during chemotherapy, and some cancer patients have begun fasting to reduce collateral damage during chemo. “I think that soon enough, we will start with a clinical trial of this growth-hormone receptor antagonist to protect cancer patients against chemotherapy toxicity,” Longo says.

The new study is further proof, that, up and down the line from yeast to mice to people, similar “conserved” biochemical mechanisms influence aging, cancer and diabetes, Longo says. “The conservation hypothesis is something I am very convinced of, but I did not expect what we saw. Maybe we would see major reductions in cancer and insulin resistance [a marker of diabetes], but to see not one case of diabetes, not one cancer death, and to see the genetic matches with the simple systems that we study, that was as good as we could hope for.”

– David J. Tenenbaum
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Terry Devitt, editor; S.V. Medaris, designer/illustrator; David J. Tenenbaum, feature writer; Amy Toburen, content development executive; Emily Eggleston, project assistant

Bibliography

  1. YouTube: Laron dwarfs.
  2. Ecuadorian dwarfs may unlock cancer clues.
  3. Growth hormone resistance.
  4. Growth hormone pathway.
  5. IGF-1.
  6. Converso.
  7. Crypto-Judiasm.
  8. Human growth foundation.
  9. Growth Hormone Receptor Deficiency Is Associated with a Major Reduction in Pro-Aging Signaling, Cancer, and Diabetes in Humans, by J. Guevara-Aguirre et al, Science Translational Medicine, 17 Feb. 2011.

Psychedelics are back – as therapy

Legal pot? “No,” says California

Untangling cancer’s genetic trajectory

POSTED 8 OCTOBER 2009

The evolution of a cancer

Genetically, cancer is a mess. Tumor cells don’t do the work of a healthy cell, but they are awfully good at making sloppy copies of themselves. Removed from the normal restraints and error-checking that keep healthy cells honest, cancer cells can change over time as they evolve to fight the immune system and cancer drugs.

Bar chart showing greater rates of breast cancer for women as they advance in age

 

Chart: NIH
The new study in Nature tracks the evolution of a breast cancer, a diagnosis that becomes more common with age.

Until now, getting a picture of these genetic changes has been an insurmountable task. Just “reading” the normal DNA in one person cost billions and took about a decade. But now, techniques for hyperspeed DNA sequencing are starting to produce libraries of genetic data, raising the hope of unraveling the varying genetics of cancer.

Nature is now reporting the most thorough study of evolution in a single patient’s breast cancer. “This week, for the first time, we have looked in detail at the evolution of a cancer genome over time,” says Samuel Aparicio, a professor at the BC [British Columbia] Cancer Research Center and the paper’s senior author. The study compared the cancer’s genes before and after it had spread, nine years later.

One disease, or many?

The ability to look in detail at cancer genes raises the prospect of eventually understanding the cause of the many diseases we call cancer. Cancer is a curious beast, and its genetics can get more bizarre with time. In the Aparicio study, the tumor cells nine years after diagnosis showed 32 significant mutations, only five of which were common in the original tumor.

Understanding these early and late mutations could shed light on the origin and spread of cancer.

Four images showing cancer progression from a benign tumor to the disorganized malignant tumor

 

From original graphic by DOE
Understanding the genetics of cancer could help in prevention and in treatment.

High-speed sequencing could eventually help doctors select treatments based on the genetics of the cells in the tumor, and Aparicio says his team has already begun tracking patient’s genes. “We will be able to build up our idea of what mutations might be conferring resistance or sensitivity to drugs. Eventually, we can ask, ‘did this or that genome respond better to this drug?’”

Making treatment decisions could be complicated, however, as even the original tumor showed genetic weirdness that is not found in healthy tissue. This genetic diversity is important, Aparicio says. “When one considers developing a therapeutic strategy, we tend to regard the cancer genome as a single entity. Cancer biologists have known this for decades, but we just have not had the means to see it.”

Moral of the story: Weapons against a “single” cancer are actually confronting multiple foes, which have — or may evolve — multiple genetic tricks for evading cancer-killing medicines and the immune system.

Double helix DNA drawing showing chemical components with their match on the opposing strands

 

From graphic by NIH
Sequencing DNA relies upon matching pairs of components that have specific preferences for partners. If you know the sequence on one strand, you can predict the sequence of the other.

Consequential sequencing system

Scientists have wanted to understand the changing genetics of cancer for decades, but this study was only possible due to phenomenal advances in sequencing speed that are meanwhile causing the cost to drop, some say, faster than the price of computers.

Ultra-speed “synthesis DNA sequencing” relies on DNA’s ladder-shaped, double-stranded structure. The molecule is built of pairs of components called “bases” that are picky about partners: The base nicknamed “A” will only link to “T”. Likewise, “G” is specific to “C.”

Any time you see a C, you know it’s got to be linked to a G. So knowing the sequence on one strand tells you the sequence on its complementary strand.

Technicians start synthesis sequencing by splitting the DNA ladder lengthwise and anchoring millions of short strands to a sample plate. The sequencing machine then introduces new bases and watches as they complete the anchored strands. Because each base will only link to its complementary pair member, the process of attachment shows the structure of the DNA fragments that were originally attached to the plate.

Synthesis sequencing is just catching on, and the current study looked at one tumor, from one patient. To understand which mutations are most dangerous, “one really has to … look at multiple cancers,” Aparicio says.

However, one mutation that already seems portentous is HAUS3, which causes defects in proteins that organize the chromosomes as they undergo the delicate process of uncoiling, duplicating, and recoiling during cell division, Aparicio says. “We know from other studies that if we deplete those proteins, cell division becomes error-prone, which leads to instability in the genome, so conceivably mutations in those genes might have been involved in the early stages of cancer.”

Stages of metastasis: 1 tumor attachment, 2 tumor breakdown, 3 cell transport, 4 formation of secondary tumor

 

The secondary cancer, called a metastasis, is more likely to cause death than the primary tumor.

A first look

As an early look into the tangled genomics of cancer, the study is a good first step, says Michael Gould, an oncologist at the University of Wisconsin-Madison School of Medicine and Public Health. “In this data from one patient, the original tumor had a lot fewer meaningful mutations than previous reports on breast cancer cell lines. If this holds up for other solid tumors, and I believe it will, there will not be a huge catalog of mutations in any individual [primary] tumor, and that’s good.”

However, Gould adds that compared to a previous study of the blood cancer leukemia, the British Columbia study also found more genetic change over time. “In leukemia, the primary and metastatic tumors had the same spectrum of mutations, and people concluded there was not necessarily genetic evolution going on, that maybe when the cancer first comes up, you either have a metastatic mutation or you don’t. In this [breast cancer] study, and maybe it’s generalizable to other solid tumors, there is some evolution going on between the primary and metastatic tumor.”

As Aparicio says, the treatment goal of this type of genomic analysis is already beginning, as researchers try to correlate different genetics with treatment outcomes. But learning about gene damage in the primary tumor may also identify the original cause of the cancer. Whether that cause resides in the environment or the patient, such insights should become the basis for better cancer prevention.

David J. Tenenbaum

Related Why Files

Gene therapy: Success at last!

Targeting tumors: A new approach proven?

Skin Cancer – Why so Much?

Bibliography

• Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution, Sohrab P. Shah et al, Nature, Vol 461, 18 October 2009, doi:10.1038/nature08489.

Metastatic Cancer: Questions and Answers

• The Cancer Genome Atlas

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