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GAO Analysis Highlights Lab Samples Excluded in Sloppy FBI Anthrax Investigation

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As the last Friday before Christmas, late yesterday afternoon was the most obvious Friday news dump hour of the year, and the government didn’t disappoint. The Government Accountability Office released the results of a twenty-three month long study of the genetic analysis that was used to tie the material found in the anthrax attacks of 2001 to the laboratory of Bruce Ivins, whom the FBI concluded (pdf) was solely responsible for the attacks. The FBI’s conclusion is highly suspect for many reasons. On the science side, it is very unlikely that Ivins could have produced all of the attack material on his own and the detailed chemistry of the attack spores suggests that highly sophisticated materials and techniques unavailable to Ivins likely were used to prepare the attack material. Regarding that second point, note that even William Broad refers indirectly to the chemistry concerns in his New York Times article on the GAO report:

To the regret of independent scientists, the report made no mention of an issue beyond genetics: whether the spores displayed signs of advanced manufacturing. They have pointed to distinctive chemicals found in the dried anthrax spores that they say contradict F.B.I. claims that the germs were unsophisticated.

Evidence of special coatings, they say, suggests that Dr. Ivins had help in obtaining his germ weapons or was innocent.

The GAO study was undertaken, in part, because of questions raised by the National Academies study released in 2011 and with special prompting by Representative Rush Holt, from whose district the letters likely were mailed. The GAO study focused on obtaining a better understanding of the validity of the genetic analysis that was carried out and the statistics underlying the conclusions reached.

For a refresher, a helpful illustration from the GAO report shows the underlying biology of the genetic analysis that was carried out in the Amerithrax investigation. Here we see photos of a typical colony of the Ames strain of Bacilus anthracis on an agar plate and four variant colony types that occurred at low frequency when the attack material was spread out on agar so that colonies arose from single cells of the overall population of bacteria that were present in the attack material:
morphs

DNA sequence analysis was employed to identify the changes that led to these variant colony shapes. The FBI then commissioned private laboratories to develop DNA-based tests (relying on polymerase chain reaction, or PCR, methodology) that could be used to screen the large bank of isolates of the Ames strain that the FBI had accumulated through a subpoena submitted to all 20 laboratories known to have isolates of the Ames strain. Developing these assays represented a new frontier in forensic genetics and it did not prove possible to develop tests for all of the mutations identified in the original DNA sequencing. In the end, four tests were developed by the four different contractors.

The Amerithrax report stated that of the 947 samples included in the final analysis, only eight showed all four of the DNA changes the tests were designed to detect. Seven of those samples came from the laboratory where Ivins worked (U.S. Army Medical Research Institute of Infectious Diseases, or USAMRIID) and one came from Batelle Memorial Institute in Columbus, Ohio. The FBI noted that there was a record of material being transferred from USAMRIID to Battelle, accounting for the sample found there.

The GAO analysis finds a number of significant issues with the FBI’s work: Read more →

FBI’s Lone Wolf Case Against Ivins Continues to Crumble

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Ivins' RMR-1029 flask, identified genetically as the likely source from which the attack material was cultured.

Back in May, McClatchy provided new information that added signficant doubt to the FBI’s accusation that Bruce Ivins worked alone in the 2001 anthrax attacks.  The key information McClatchy reported was that in addition to the already known abnormally high silicon content in the spores found in the attack material, high concentrations of tin were often found in association with the silicon.  They then went on to provide convincing evidence that this unique chemical fingerprint could have come about from a process in which a tin-catalyzed polymerization of silicon-containing precursor molecules was employed to confer on the spores their unique properties which allowed them suspend very easily in air.  The key point in this observation is that this highly sophisticated chemical treatment of the spores requires both expertise and equipment that Ivins did not have, making it impossible for him to have carried out the attacks alone if the spores were indeed treated with this process.

This morning, William Broad and Scott Shane continue this thread of argument in a New York Times article. Broad and Shane report that the scientists who first raised the tin-silicon combination issue now have a scientific article coming out in the Journal of Bioterrorism & Biodefense:

F.B.I. documents reviewed by The New York Times show that bureau scientists focused on tin early in their eight-year investigation, calling it an “element of interest” and a potentially critical clue to the criminal case. They later dropped their lengthy inquiry, never mentioned tin publicly and never offered any detailed account of how they thought the powder had been made.

The new paper raises the prospect — for the first time in a serious scientific forum — that the Army biodefense expert identified by the F.B.I. as the perpetrator, Bruce E. Ivins, had help in obtaining his germ weapons or conceivably was innocent of the crime.

Here is how I described the science behind the current question when the McClatchy article was published:

The FBI carried out a special form electron microscopy that could identify the location of the silicon in the spores from the attack material. They found that the silicon was in a structure called the the spore coat, which is inside the most outer covering of the spore called the exosporium. If silica nanoparticles had been used to disperse the spores, these would have been found on the outside of the exosporuim (see this diary for a discussion of this point and quotes from the scientific literature) because they are too large to penetrate it.  No silicon signature was seen on the outside edge of the exosporium.  What is significant about the type of silicon treatment suggested in the McClatchy piece is that both high silicon and high tin measurements were found in several samples and that there is an alternative silicon treatment that would involve a tin-catalyzed polymerization of silicon-containing precursor molecules. McClatchy interviewed scientists who work with this process and they confirmed that the ratio of silicon to tin found by the FBI is in the range one would expect if such a polymerization process had been used.

What McClatchy doesn’t mention in their report is that it would seem for a polymerization process of this sort, the silicon-containing precursor molecules would be small enough to penetrate the exosporium before being polymerized, or linked together into much larger molecules, once they reached the spore coat. This would mimic the location of silicon incorporated “naturally” into spores.

In today’s article, Broad and Shane report that both Alice Gast, who chaired the National Academy of Science panel that reviewed the FBI’s scientific work and Nancy Kingsbury, the head of an ongoing Government Accountability Office analysis, agree that the silicon-tin issue is worthy of further investigation.

In my ongoing analysis of the known scientific facts surrounding the anthrax attacks, I have been insistent that further attention needs to be paid to secret government laboratories as the potential real source of the attack material.  Broad and Shane appear to be headed in that same direction:

If Dr. Ivins did not make the powder, one conceivable source might be classified government research on anthrax, carried out for years by the military and the Central Intelligence Agency. Dr. Ivins had ties to several researchers who did such secret work.

Note that since Ivins “had ties” to several researchers within these classified facilities, that opens a direct route by which such a facility could have received a sample from Ivins’ RMR-1029 flask which has been identified genetically as the likely precursor from which the attack material was cultured.

We also learn this morning that on Tuesday evening, the PBS series Frontline will air an episode produced in cooperation with McClatchy and ProPublica.  This report will center on the tremendous pressure the FBI applied to Ivins and how such pressure “can shred an individual’s life”:

According to this hard-edged report done in partnership with McClatchy Newspapers and Propublica, the FBI did more than zero in. Under tremendous pressure to solve the case that started in 2001 with anthrax mailed to U.S. senators and network anchors, the agency squeezed Ivins hard — using every trick in the book to get a confession out of him even as he insisted on his innocence to the end.

Ivins was a troubled guy with some distinctive kinks, the report acknowledges, but even FBI consultants in the case now admit that the agency overstated its evidence and never found a smoking gun to prove the researcher’s guilt. In fact, evidence was revealed last summer that shows Ivins did not have the equipment needed to make the powdery kind of anthrax sent through the mail. That didn’t stop the FBI then — or now — in acting like it found its man.

Even as both scientists and journalists poke gaping holes in their now-closed investigation, the FBI continues to stand firm in its position that Ivins acted alone in the anthrax attacks, and their spokesman reiterated this position to Broad and Shane.  Given the apparent momentum of the scientists and journalists, though, the FBI’s position begins to look more and more like something Saddam Hussein’s infamous “Baghdad Bob” would spout.