Monthly Archives: February 2017

“Reflex Testing: A Hot Potato”

A reflex test in the laboratory setting is most simply defined as a test that the laboratory automatically adds on based on the result of the initial requested test, in order to optimise the diagnostic process.

Sounds like a no-brainer…

For example one might add a Hepatitis C viral load test to a sample which is positive for antibodies to Hepatitis C. Or one could add cytomegalovirus (CMV) serology to a sample which is negative for Epstein Barr virus (EBV), but with clinical and blood count parameters consistent with infectious mononucleosis. Within molecular testing, an example might be reflex testing for trichomonas in a patient who tests positive for either chlamydia or gonorrhoea. There is not so much potential for reflex testing in classical culture based bacteriology, unless of course you consider antibiotic susceptibility testing to be a reflex test, which of course it is to a certain extent. And once you delve into the field of immunology, the potential for reflex testing is massive…

The potential list of reflex tests for a clinical laboratory is actually extremely long.

So what reflex testing should be performed by the laboratory? This is actually a bit of a political hot potato.

Because everyone has their different agendas on reflex testing:

The laboratory’s view of reflex testing will depend to an extent on how they are funded. If they are funded on a fee per service/test model, they will welcome reflex testing with open arms, and utilise every opportunity to implement and encourage it. More tests equals more revenue.

If however the laboratory is funded on a “capped budget”, they will shy away from reflex testing. Extra tests in this setting means extra expenditure.

With regards to the laboratory funders, occasionally they will see that reflex testing might save them money in the long run through decreased hospital care etc. In general however, funders aren’t big fans of reflex testing, as it essentially means extra tests to fund (see idealism and realism below)

Requestors generally like the idea of reflex testing. It prevents a further consultation, further sampling etc. Anything to make the system run smoother. Occasionally though requestors get annoyed at getting a result on a test which they have not requested.

For patients also, reflex testing is generally a good thing. One must always be wary however of the consent process. Will the reflex test be included in the initial consent for laboratory testing? Personally I think that consent for laboratory testing should be on the premise that the laboratory will do “whatever it takes” to diagnose the cause of the patient’s symptoms. We don’t do test consenting very well as a rule…

Reflex testing demonstrates the difference between idealism and realism. For example 100 patients have a positive test X necessitating test Y. If test Y was reflexed by the laboratory then all 100 patients  would receive test Y. If the undertaking of test Y depended on the requestor reviewing the result of test X and actively requesting test Y, only a proportion of the 100 patients would end up getting test Y done. This is the real world.

The clinical value of reflex testing is also a continuous spectrum. For some reflex tests, the clinical value of adding on the test automatically is unequivocally high. For others the clinical value (and cost-effectiveness) is much more debatable.

Because it is such a political area, I think it is important that none of the groups above have undue influence in what reflex testing is done. Ideally a completely independent panel should set the criteria for reflex testing, and preferably on a national basis.

“No science is immune to the infection of politics and the corruption of power.”  (Jacob Bronowski)

Michael

 

“The Microbiology Sabbatical”

I am looking to take a sabbatical from work next year and I am currently trying to work out what shape or form such a break might take…

From a microbiological point of view, I am keen to either do locum work in, or observe a few other clinical microbiology laboratories. We always get lulled into thinking “our way is the only way” in the microbiology laboratory, which is clearly not the case. I want to experience other Kiestra TLAs to ascertain what they do differently and whether further improvements and efficiencies can be made. I am also keen to visit  a few other molecular departments to see how to maximise clinical impact from new molecular technology.

Needless to say a good proportion of my sabbatical will be nothing to do with microbiology! I have always wanted to do an intensive French language course at the Sorbonne University in Paris. I will make sure that is part of my sabbatical programme.

I am also keen to do some travelling. I have never visited Thailand, Vietnam, Malaysia, etc. before, so I foresee another (mad) road trip for the family coming up!

I am not sure how much time it will take me to fit all the above in, probably 3 months minimum. I will need to start saving hard!

I suspect I am the type of person that will be “forced” to take a sabbatical from work every few years. For the things I want to do in my life, a few weeks holiday a year doesn’t quite cut it.

Employers are becoming more and more amenable to sabbaticals these days. As well as saving on your wages for a while, they know they are likely to get a rejuvenated and refreshed employee back in return.

Win, win…

Day to day work in the clinical microbiology laboratory can be fairly monotonous and dull. Arriving at the same bench or office space day after day, month after month, year after year, can slowly but surely grind you down. Everyone should at least consider a sabbatical in order to renew themselves. The duration obviously depends on what you can afford and what you plan to do.

Don’t assume you have to work 10 or 20 years in the one place in order to “earn” a sabbatical. This is nonsense. Also don’t think that your sabbatical needs to be microbiological in nature. In fact it might even be better if it isn’t…

Are you thinking of taking a sabbatical?

If not, why not? You only live once.

Can’t afford it? I bet you can if you put your mind to it.

Scared to ask for one? Don’t be, you may well find yourself pleasantly surprised…

Michael

Plasmids and Team Players

Let’s say you have a problem at your hospital with carbapenemases.

One of the obvious solutions would be to reduce the use of carbapenems in order to reduce the selection pressure.

However even if you stopped carbapenem usage altogether the carbapenemases would not necessarily disappear…

This is because carbapenemases are often plasmid borne, and there are often antibiotic resistance genes for other antibiotics, e.g. A, B & C sitting on the same plasmid.

As long as the (high) usage of antibiotics A, B & C continued then the selection pressure would favour plasmid retention in the bacterium, and thus allowing persistence of the carbapenemase.

Selection pressure by proxy.

Are we all doomed?

Not necessarily…

A gene expressing one antimicrobial resistance determinant comes at an energy cost to a bacterial cell. Plasmids expressing multiple resistance genes come at even more energy cost to the cell. You can be sure if it did not need the plasmid to ensure its survival, it would be mercilessly dumped, and probably sooner rather than later.

Therefore even a modest reduction in carbapenem usage, along with a reduction in antibiotics A, B & C may go a long way to solving your problem.

Advances in molecular methods and whole genome sequencing over the next decade will mean that it will become much easier to work out exactly which resistance genes are contained in the plasmids circulating in our local hospitals, and anti-microbial stewardship can thus be optimised accordingly.

Sounds space age?

Not really, we just need to be aware that resistant bacteria are very smart in an evolutionary sense, and we need to stay alert, and not give them the niches they are looking for…

Michael

Illustration courtesy of www.biologyfun.blogspot.co.nz