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The Ebola Spatial Care Path : point – of – care lessons learned for stopping outbreaks

Ebola profoundly elevated the impact of point-of-care testing, now recognized worldwide as essential to detect the disease, reduce risk, monitor patients in isolation, achieve recovery, and importantly, contain outbreaks. The goal is to become resilient – a new and possibly more contagious threat might appear. We must stop it where it starts!

by Prof. G. J. Kost, W. Ferguson, A.-T. Truong, D. Prom, J. Hoe, A. Banpavichit and S. Kongpila

Introduction – the essential role of point-of-care testing
Point-of-care testing (POCT) is propelling the convergence, integration and sustainability of global diagnostics. We should not be caught off guard at points of need! Using fever to screen patients for Ebola virus disease (‘Ebola’) occurs too far downstream in the clinical course, casts an excessively wide net confounded by other febrile illnesses, defeats rapid epidemiological control of outbreaks and inhibits evidence-based karma essential for compatible point of care culture. In fact, poor focus misleads the public, who, once cognizant of the essential role, importance and comprehensiveness of rapid POC diagnosis, will be receptive to containment and disposed to enter treatment centres, if they are more certain they have Ebola.
The Ebola ‘newdemic’ (an unexpected and disruptive problem that affects the health of large numbers of individuals in a crowded world) moved POCT from parochial fiduciaries often stalled by analysis paralysis to action-oriented value generators, that is, inventors and innovators leading the way with next-generation technologies and high stakes strategies, as summarized in this article, which are beneficial for reducing risk and enhancing resilience. It inspired the Ebola Spatial Care Path™ (SCP) and a useful Diagnostic Centre (DC) design equipped with POCT, presented here as well [1].

Rapid evolution of diagnostic tests for Ebola virus disease
Table 1 chronicles the pioneering ongoing efforts of industry, academia and government to produce workable immunoassays and molecular diagnostics for the detection of Ebola. In fact, this research development will spill over to energize POC diagnostics for highly infectious diseases in general. Novel research also is exploring digital detection of Ebola virus and viral load, which is higher in fatal cases and may be related to the development of virus-induced shock. Aside from the logistic challenges of getting assays ready in time, new assays, which might be implemented on instruments like the GenePOC, must be proven to work in clinical studies. As far back as 2006, investigators reviewed laboratory diagnostics for Ebola. Now, nearly a decade later, the FDA is accelerating the ongoing development, validation and approval of new diagnostic tests by issuing emergency use authorizations (EUAs) more or less continuously since autumn 2014 (Table 1).

Ebola-specific challenges for molecular diagnostics include: (a) reduction in initial false negatives (FN), FN = FN(t), as a function of time, to ramp up sensitivity, {TP/[TP + FN(t)]} (where TP=true positive), to ultrahigh levels in infected patients during the first 72 hours when symptoms may be mild or absent, in order to avoid shunting false negative cases to community hospitals ill prepared to receive high-risk patients; (b) automation of totally self-contained and sealable specimen cassettes and cartridges to eliminate need for expensive high-level biosafety cabinets; (c) proof of effectiveness in controlling internal contamination in portable instruments, thereby sustaining high specificity [TN/(TN + FP)] (where TN=true negative) and minimizing false positives (FP), which place people at risk when near infected patients; and as more sophisticated but compact technologies become available in the future, (d) determination of quantitative viral genome titers, which will be useful for early detection of exposure in smaller volumes of specimen and also for de-escalating the level of care and quarantine as the patient improves.

When performed properly with biohazard precautions in the near-patient testing area of a DC, results will be available much more quickly than sending specimens to a public health laboratory or to the Centers for Disease Control and Prevention (CDC). The gain in time can be substantial, just 1 hour or less needed to obtain an answer (see Table 1), which facilitates rapid screening, focused triage, and effective workflow. Self-contained cartridge/cassette-based rapid molecular tests are available on small portable platforms that test for infectious diseases. Development of POC molecular diagnostics for high risk infectious diseases forecasts the feasibility of introducing Ebola assays on light-weight platforms, such as the Alere I (see http://www.alere.com/us/en.html), and the tiny light-weight Roche Diagnostics cobas Liat (see https://usdiagnostics.roche.com/en/instrument/cobas-liat.html); both of these nucleic acid testing devices are Clinical laboratory Improvement Amendments (CLIA)-waived, user-friendly and, therefore, good candidates for point-of-need testing.

If tests satisfy certain conditions, they can be ‘waived’. In other words, the tests are cleared by the US Food and Drug Administration (FDA) to be performed in clinics and possibly even at home. Testing is simple to carry out and the instruments are operator-friendly, which make chances of an inaccuracy less likely. Such tests are referred to as a CLIA-waived. We will see facilitated-access, self-testing (FAST) POC solutions emerge as industry moves forward in the chronological evolution of Ebola EUAs in Table 1, some of which will be appearing commercially as inexpensive, portable, safe, and appropriate for detection of virus in the early stages of clinical illness. True, we are behind on the timeline. However, the good news is that everyone recognizes the need, the problem has been defined, POCT is part of the solution, and the feasibility of immediate testing at points is proven, as summarized in Table 2.

The Ebola Spatial Care Path
We define a Spatial Care Path (SCP) as the most efficient route taken by the patient when receiving definitive care in a small-world network (SWN). SCP principles include: (a) start diagnosis immediately wherever the patient is located; (b) implement POC technologies according to needs in the home, ambulance, primary care, SWN hubs, and at the bedside in critical care; (c) thereby achieve timely evidence-based decision making based on POC test results as the patient progresses through the SWN of healthcare; (d) coordinate access to the most critical elements and scarce specialists of the SWN to achieve a continuum of care; and (e) optimize the use of medical resources for the problem at hand, especially when the SWN becomes compromised or patients are selectively quarantined.

Spatial in this definition refers to shrewd positioning of POCT, elimination of unnecessary process steps, use of geographic information systems (GISs) to identify effective and efficient routes from population clusters to the nearest medical care, and in the case of Ebola, consolidation of SWN dispersion into one or more community alternative care facilities (ACFs) and DCs in which the useable space and workflow are optimized. Figure 1 illustrates the Ebola SCP with ACF and embedded POCT (on the left) integratively connected to a current expedient solution (on the right) of an individual hospital isolation area with a limited number of beds. A strategic Ebola SCP will deploy the best available molecular diagnostic testing at the point of initial patient contact and eliminate time-consuming steps in the sequence of care, such as transporting high risk Ebola patients from one community to another or sending hazardous samples to reference laboratories in heavily populated cities. Designing SCPs will facilitate prevention, intervention, and resilience in the event of wider presence of Ebola and simultaneously, will fulfill community recommendations of the CDC. We propose that each regional SWN analyse and ready its own SCP with POCT.

The Diagnostic Centre and interpretation of test results
Figure 2 shows the DC designed for Ebola care in Southeast Asia. POCT within the biosafety cabinet (top left) comprises: (a) the Spotchem EZ (Arkray, http://www.arkrayusa.com/) for determination of glucose, total protein, albumin, ALT, AST, alkaline phosphatase, cholesterol, triglycerides, HDL, urea nitrogen, creatinine, calcium, and total bilirubin, or combinations thereof (this instrument has been used for support of patients with viral hemorrhagic fever in Ghana); (b) the Opti CCA-TS2 whole blood analyser  (http://www.optimedical.com/products-services/opti-CCA-TS2.html) for measurements of pH, pCO2, pO2, total hemoglobin, oxygen saturation, Na+, K+, Ca++ (ionized or free calcium), Cl, glucose, urea nitrogen, and lactate, but only eight of these analytes at one time using a directly loading syringe cartridge that minimizes contamination; (c) a hematology instrument (optional), such as the QBC Star (http://www.druckerdiagnostics.com/hematology/qbc-star/qbc-star-centrifugal-hematology-analyzer.html), a dry reagent analyser that produces a nine-component complete blood count [hematocrit, hemoglobin, MCHC (mean corpuscular hemoglobin concentration), platelet count, white blood cell count, granulocyte count and percentage, and lymphocyte/monocyte count and percentage] from a specialized sample tube with stains and float separator inside, or the HemoCue CBC-DIFF (http://www.hemocue.com/en/products/white-blood-cell-count/wbc-diff); and within the isolation confines, (d) a vital signs monitor (e.g. VTrust TD-2300).

Premonitory POC test results, such as initial leukopenia, suppressed lymphocyte count on the differential, increased percentage of granulocytes and thrombocytopenia help confirm the diagnosis of Ebola. Later, patients have increased white blood cells (WBC), immature granulocytes and atypical lymphocytes. West Africa should be replete with POCT and DCs, but is not, thereby handicapping expeditious detection of premonitory signs and evidence-based critical care support in treatment centers. Striking electrolyte changes need monitoring to support repletion. Unfortunately, there is no small FDA-cleared handheld device for monitoring of coagulation (except PT/INR when adjusting warfarin anticoagulant, where PT is prothrombin time and INR is international normalized ratio). Filoviral hemorrhagic fever is accompanied by prolonged PT, activated PTT and bleeding time, potentially progressing to DIC with elevated D-dimer. D-dimer is available on the handheld cobas h232 (Roche Diagnostics, http://www.cobas.com/home/product/point-of-care-testing/cobas-h-232.html) available outside the U.S. As demonstrated by the two recent U.S. Ebola patients, platelets are consumed rapidly early in the course of the infection, and should be trend mapped to see recovery, possibly along with assessment of platelet function. Note that fatally infected patients fail to develop an antibody response. Thus, the detection of virus-specific IgM and IgG is a good prognostic sign. In critically ill Ebola patients, plasma loss and bleeding affect hemoglobin and the hematocrit, both of which should be monitored at the point of care.

Conclusions
POCT is facilitating global health. Now, global health problems are elevating POCT to new levels of importance for accelerating diagnosis and evidence-based decision making during disease outbreaks. Authorities concur that rapid diagnosis has potential to stop disease spread. New technologies offer minimally significant risks for personnel and can be used in conjunction with risk prediction scores for patients. With embedded POCT, strategic SCPs planned by communities fulfill CDC recommendations. POC devices should consolidate multiplex test clusters supporting Ebola patients in isolation. The ultimate future solution is FAST POC. DCs in ACFs and transportable formats also will optimize Ebola SCPs. In short, POCT can help stop outbreaks.

Acknowledgements and disclaimer
Spatial Care Path™ is a trademark by William Ferguson and Gerald Kost, Knowledge Optimization®, Davis, CA. Figures and tables were provided courtesy and permission of Knowledge Optimization®, Davis, California, and Visual Logistics, a division of Knowledge Optimization®. Figure 2 was created by Lab Leader Company, Ltd., Bangkok, Thailand. Devices must comply with jurisdictional regulations in specific countries, operator use limitations based on patient conditions, federal and state legal statutes, and hospital accreditation requirements. Not all POC devices presented in this paper are cleared by the FDA for use in the U.S.A. FDA emergency use authorization is limited in scope and term. Please check with manufacturers for the current status of Ebola diagnostics and POC tests within the relevant domain of use.

References and notes
1. Kost GJ, Ferguson WJ, Hoe J, Truong A-T, Banpavichit A, Kongpila S. The Ebola Spatial Care Path™: accelerating point-of-care diagnosis, decision making, and community resilience in outbreaks. American Journal of Disaster Medicine 2015 [accepted for publication].
2. The FDA Emergency Use Authorization (EUA) status can be found at: http://www.fda.gov/EmergencyPreparedness/Counterterrorism/MedicalCountermeasures/MCMLegalRegulatoryandPolicyFramework/ucm182568.htm#current.
3. See WHO Emergency Quality Assessment Mechanism for EVD IVDs Public Report. Product: RealStar® Filovirus Screen RT-PCR Kit 1.0 Number: EA 0002-002-00. http://www.who.int/diagnostics_laboratory/procurement/141125_evd_public_report_altona_v1.pdf?ua=1.
4. FierceMedicalDevices. One-hour Ebola test receives FDA emergency use authorization.  http://www.fiercemedicaldevices.com/story/one-hour-ebola-test-biom-rieux-receives-fda-emergency-use-authorization/2014-10-27.
5. Jones A, Boisen M, Radkey R, Bidner R, Goba A, Pitts K. Development of a multiplex point of care diagnostic for differentiation of Lassa fever, Dengue fever and Ebola hemorrhagic fever. American Association for Clinical Chemistry Poster. http://www.nano.com/downloads/Ebola%20testing_PCR%20vs%20Immunoassay.pdf.
6. Instrumentation and corporate/academic relationships may have changed. See ‘Letters of Authorization’ on the FDA EUA webpage for details. Contact company and investigator sources for updates.
7. Benzine J, Manna D, Mire C, Geisbert T, Bergeron E, Mead D, Chander Y. Rapid point of care molecular diagnostic test for Ebola virus. Poster at ASM-Biodefense 2015. http://www.douglasscientific.com/NewsEvents/News/2014-10-21%20Lucigen%20to%20Seek%20FDA%20Emergency%20Use%20Approval%20for%20Isothermal%20Point-of-Care%20Ebola%20Test.pdf
8. See Piccolo xpress for test clusters. http://www.piccoloxpress.com/products/panels/menu/.
9. See Siemens website for details. clinitekhttp://www.healthcare.siemens.com/point-of-care/urinalysis/clinitek-status-analyzer/technical-specifications.
10. FDA-cleared for warfarin monitoring only.
11. See Sysmex website for list of variables and parameters. https://www.sysmex.com/us/en/Brochures/Brochure_pocH-100i_MKT-10-1025.pdf for list of variables and parameters.
12. Ebola assay FDA-cleared for emergency use only.
13. Beckman-Coulter, La Brea, California, manufactures the DxI800 and DXC800i.
14. Walker NF, Brown CS, Youkee D, Baker P, Williams N, Kalawa A, et al. Evaluation of a point-of-care blood test for identification of Ebola virus disease at Ebola holding units, Western Area, Sierra Leone, January to February 2015. Euro Surveillance 2015; 20(12): pii=21073.
15. Owen WE, Caron JE, Genzen JR. Clin Chim Acta 2015; 446: 119-127.
16. Nicholson-Roberts T, Fletcher T, Rees P, Dickson S, Hinsley D, Bailey M, et al. Ebola virus disease managed with blood product replacement and point of care tests in Sierra Leon. QJM 2015; pii: hcv092 [advance access publication]. http://qjmed.oxfordjournals.org/content/qjmed/early/2015/05/07/qjmed.hcv092.full.pdf.

The authors
Gerald J. Kost* MD, PhD, MS, FACB (emeritus); William Ferguson BS, MS; Anh-Thu Truong; Daisy Prom; Jackie Hoe; Arirat Banpavichit MS, MBA; Surin Kongpila MS
Point-of-Care Center for Teaching and Research (POCT•CTR), School of Medicine, University of California, Davis, CA, USA

*Corresponding author
E-mail: gjkost@ucdavis.edu

Sound diagnostics: rapid point-of-care nucleic-acid based tests for sexually transmitted infections

One of the major avenues for addressing the rising impact of sexually transmitted infections lies with rapid, early diagnosis to break the cycle of transmission. Here we discuss the potential of a new technology, using the mechanical energy of sound waves, to drive integrated point-of-care diagnostics.

by Dr Julien Reboud, Gaolian Xu and Prof. Jonathan M. Cooper

Point-of-care diagnostics for sexually transmitted infections
Infectious diseases have a huge impact on both health and morbidity – causing more than half of the deaths in low-resource countries. To reduce the impact of these diseases, it is now accepted that early diagnosis is needed in order to break the cycle of infection and transmission. The development of rapid, high performance molecular diagnostic technologies, such as those involved in nucleic acid testing (NAT), has the potential to provide a much-needed step-change in treatment, through the early diagnosis of infection. Importantly, NATs can also be used to identify resistant strains of bacteria, an important step-change in the fight against the evolution of antimicrobial resistance (AMR).

One group of diseases that continues to increase in all areas of the world are the sexually transmitted infections (STIs). For example, chlamydia (caused by Chlamydia trachomatis) and gonorrhoea (caused by Neisseria gonorrhoeae) remain highly prevalent throughout the world. The WHO/CDC estimate chlamydia to affect 11m in Europe/Central Asia and 5.2m in the US per year; with gonorrheoa affecting 1.1m in Western Europe and >0.7m in the US per annum.

Sexual health clinicians have rated point-of-care (POC) testing as their top priority with their key concern being ‘in-clinic’ latency. Current testing protocols using NATs require an amplification process such as polymerase chain reaction (PCR) or isothermal amplification (e.g. loop-mediated isothermal amplification (LAMP)). When implemented in a laboratory or clinic, the workstream often requires sending samples to an external laboratory, a process that takes several hours. This results in the patient leaving the clinic. Patients then have to be recalled to the clinic for treatment, during which time they remain infectious for others and at risk of developing complications from the infection. Some never return, and remain untreated and a risk to others. The most vulnerable patients from high-risk groups such as the very young or men who have sex with men are less likely to engage with services. About 10% of all those diagnosed in the National Chlamydia Screening Programme in England in 2012 have never been treated. Those patients presenting to clinical services who report recent exposure to chlamydia or gonorrhoea may be treated with antibiotics pending their lab results, even though around half will turn out not to be infected. Treatment for gonorrhoea now involves parenteral third-generation cephalosporins combined with an oral antibiotic, and there is evidence of increasing drug resistance. Good antibiotic stewardship seeks to limit unnecessary exposure of the population to these agents.

POC testing is a paradigm closely associated with self-diagnosis. Such near-patient devices are easy to use (by untrained people) and are rapid. Other characteristics include the integration of processing steps from sample to answer at a low cost [1]. POC testing of STIs would not only be relevant in developed healthcare systems, but also in the home (bathroom testing) as well as in resource-limited countries (where testing would often be delivered by a healthcare worker within a community) [2]. In all cases, the ability to ‘multiplex’ (testing multiple possible infections) and provide decision support around treatment are desirable. As stated, much evidence already exists that such a test would be desired by both by clinicians [3] and patients [4]. POC testing for chlamydia for example is also likely to be cost-effective. A mathematical model using costings from one of the few commercially available POC tests (Cepheid Xpert CT/NG) was shown to reduce testing costs by up to £16 and save 10 minutes of a healthcare professional’s time per patient [5].

Although there has been significant development in technological research for highly sensitive sensors, along with integrated microfluidic devices, the widespread adoption of POC tests has been limited by appropriately sensitive performance in real patient samples (blood, saliva, urine or feces, for example). Notwithstanding this, the relevance of decentralizing testing has been evidenced in Australia, for example, where a historical systematic review of interventions to prevent HIV and STIs in young people found that testing increased if a non-clinical, non-primary care healthcare setting was used [6]. This data confirms what many clinicians are aware of, that in the specific case of sexual health, there is a reticence for individuals to engage formally with healthcare systems.

Acoustic technology for lab-on-a-chip POC diagnostics
Many proposed lab-on-a-chip devices currently rely on a variety of different mechanisms for preparing the sample prior to sensing, such as external pumps and heaters, leading to expensive and complex systems. In addition, microfluidic systems are often constrained by both difficulties associated with the chip interconnection to other instruments, and by difficulties that arise as the sample is moved through the chip (not the least of these being blockages). One outcome is that such diagnostic chips tend to be complex – a fact that increases the cost of the manufacture of the chip and ultimately the cost of the test. We have developed a new technology based on surface acoustic waves to integrate sample manipulation onto low cost disposable devices to enable the multiplexed detection of chlamydia and gonorrhoea, using isothermal amplification [7].

Acoustic waves contain a mechanical energy that can be used to manipulate fluids. A range of ultrasonic transducers have already been developed, including those using both bulk acoustic waves (BAWs) and surface acoustic wave (SAW) devices [8]. Here we use a widespread configuration where a high frequency electric field is applied to a piezoelectric chip to create an ultrasonic wave, which propagates into the sample. We have now demonstrated a new proprietary technology using the interaction of SAW with fluids and phononic metamaterials [9] that has enabled us to create a tool-box’ of different diagnostic/medical instrumentation functions (including sample processing, cell separation [10], cell lysis [11], PCR [12] and nebulization [13]). Just as in electronics, where discrete components are combined to create a circuit, so we have begun to use different combinations of phononic lattices to create fluidic microcircuits, each of which provides a unique diagnostic function. The approach removes the need for any off-device processing, making sample processing a seamless, simple and fully automated process. Unlike conventional microfluidics, where the sample moves through the chip, our technology simply relies upon controlling the excitation frequency of the acoustic fields within a stationary droplet.

We have recently demonstrated the implementation of isothermal amplification (through LAMP) on our acoustic platform [7], enabling the multiplexed detection of both chlamydia and gonorrhoea on a single disposable device, down to a sensitivity of 10 copies. Uniquely, the acoustic platform results in faster detection, through accelerated mass transfer, which is of paramount importance for a POC platform. We believe that the ease of implementation of both SAW technology and LAMP will have the potential to significantly impact upon near-patient diagnostics.

Acknowledgements
The authors are grateful for the help of Dr Rory Gunson and Andrew Winters (NHS) for their input into the development of the STI technology.

References
1. Su W, Gao X, Jiang L, Qin J. Microfluidic platform towards point-of-care diagnostics in infectious diseases. J Chromatogr A 2015; 1377: 13–26.
2. Derda R, Gitaka J, Klapperich CM, Mace CR, Kumar AA, Lieberman M, Linnes JC, Jores J, Nasimolo J, Ndung’u J, Taracha E, Weaver A, Weibel DB, Kariuki TM, Yager P. Enabling the development and deployment of next generation point-of-care diagnostics. PLoS Negl Trop Dis. 2015; 9(5): e0003676.
3. Hsieh YH, Gaydos CA, Hogan MT, Jackman J, Jett-Goheen M, Uy OM, Rompalo AM. Perceptions on point-of-care tests for sexually transmitted infections – comparison between frontline clinicians and professionals in industry. Point Care 2012; 11(2): 126–29.
4. Rompalo AM, Hsieh YH, Hogan T, Barnes M, Jett-Goheen M, Huppert JS, Gaydos CA. Point-of-care tests for sexually transmissible infections: what do ‘end users’ want? Sex Health 2013; 10(6): 541–45.
5. Adams EJ, Ehrlich A, Turner KM, Shah K, Macleod J, Goldenberg S, Meray RK, Pearce V, Horner P. Mapping patient pathways and estimating resource use for point of care versus standard testing and treatment of chlamydia and gonorrhoea in genitourinary medicine clinics in the UK. BMJ Open 2014; 4(7): e005322.
6. Kang M, Rochford A, Skinner SR, Mindel A, Webb M, Peat J, Usherwood T. Sexual behaviour, sexually transmitted infections and attitudes to chlamydia testing among a unique national sample of young Australians: baseline data from a randomised controlled trial. BMC Public Health 2014; 14(1): 12.
7. Xu G, Gunson RN, Cooper JM, Reboud J. Rapid ultrasonic isothermal amplification of DNA with multiplexed melting analysis – applications in the clinical diagnosis of sexually transmitted diseases. Chem Commun. 2015; 51(13): 2589–2592.
8. Yeo LY, Friend JR. Surface acoustic wave microfluidics. Ann Rev Fluid Mech. 2014; 46(1): 379–406.
9. Wilson R, Reboud J, Bourquin Y, Neale SL, Zhang Y, Cooper JM. Phononic crystal structures for acoustically driven microfluidic manipulations. Lab Chip 2011; 11(2): 323–328.
10. Bourquin Y, Syed A, Reboud J, Ranford-Cartwright LC, Barrett MP, Cooper JM. Rapid ultrasonic isopycnic separations of cells for low cost diagnostics. Angew Chem Int. 2014; 53: 5587–5590.
11. Salehi-Reyhani A, Gesellchen F, Mampallil D, Wilson R, Reboud J, Ces O, Willison KR, Cooper JM, Klug DR. Chemical-free lysis and fractionation of cells by use of surface acoustic waves for sensitive protein assays. Anal Chem. 2015; 87(4): 2161–2169.
12. Reboud J, Bourquin Y, Wilson R, Pall GS, Jiwaji M, Pitt AR, Graham A, Waters AP, Cooper JM. Shaping acoustic fields as a toolset for microfluidic manipulations in diagnostic technologies. Proc Natl Acad Sci U S A 2012; 109(38): 15162–15167.
13. Reboud J, Wilson R, Zhang Y, Ismail MH, Bourquin Y, Cooper JM. Nebulisation on a disposable array structured with phononic lattices. Lab Chip 2012; 12(7): 1268–73.

The authors
Julien Reboud* PhD, Gaolian Xu MSc, Jonathan M. Cooper PhD
Division of Biomedical Engineering, School of Engineering, University of Glasgow, Glasgow, UK

*Corresponding author
E-mail: Julien.reboud@glasgow.ac.uk

C203 Tosh

New standards, clinical pathways required to maximize benefits

Point-of-care testing (POCT or POC testing) describes diagnostic tests which are performed at or physically close to a patient. This distinguishes POCT from traditional testing, which involves extracting specimens from a patient and transporting them to a laboratory for analysis. Settings for POC tests range from in-hospital bed sites and primary care offices to patient homes.

Over a half century of use
The POCT era is considered to have begun in 1962, after development of a system that measured blood glucose levels during cardiovascular surgery. The year 1977 saw the US launch of the first POC test for application wholly outside a hospital – the so-called ‘epf’ rapid pregnancy test.

POCT is increasingly used to diagnose and manage a range of diseases, from chronic conditions such as diabetes to acute coronary syndrome. One of the latest additions is a genetic test – CYP2C 19*2 allele for anti-platelet therapy.
Common POC tests includes “blood glucose testing, blood gas and electrolytes analysis, rapid coagulation testing, rapid cardiac markers diagnostics, drugs of abuse screening, urine strips testing, pregnancy testing, fecal occult blood analysis, food pathogens screening, hemoglobin diagnostics, infectious disease testing and cholesterol screening.” Nevertheless, just three tests – urinalysis by dipstick, blood glucose and urine pregnancy – are believed to account for the majority of POCT.

Turnaround time key to POCT appeal
The principal objective of POC testing is to reduce turnaround time (TAT) – a reference to the duration between a test and the obtaining of results which aid in making clinical decisions. In the past, such a process was unavoidable because of the sophistication and size of equipment required for the vast majority of medical diagnostic tests. However, technology developments have since made it possible to perform a growing number of tests outside of the laboratory.

Product miniaturization
Since the late 1980s, one of the key drivers of POCT has been product miniaturization with dedicated onboard integrated circuits. As described in a recent book on biomedical engineering, increasingly sophisticated microdevices have made it feasible to diagnose disease at point-of-care. These include “microfilters, microchannels, microarrays, micropumps, microvalves and microelectronics”, with their mechanical and electrical components “integrated onto chips to analyse and control biological objects at the microscale.” The authors list the key advantages offered by miniaturizing diagnostic tests as compared to centralized laboratory testing:  portability, small size and low power consumption, simpler operation, smaller reagent volumes, faster analysis, parallel analysis, and functional integration of multiple devices.

Healthcare reforms drive POCT
Healthcare reforms have also driven POCT demand.
Spending controls and hospital mergers have led to shorter stays and faster patient turnaround. There have been growing demand for tests in outpatient clinics and patient homes. Test results have been needed quickly, not only for reasons of clinical urgency but also to ease patient waiting lists and reduce backlogs in emergency departments. Accompanying this has been the closure of several large central laboratories, which have further enhanced demand for POCT.

Making a case
The case for POCT has grown with time. In 2004, it was associated with a significant reduction in the time to treatment initiation and a shorter length of stay. More recently, a POCT cardiac marker screening stage at six UK hospitals led to a marked increase in the percentage of successful home discharges.
Such breakthroughs will increase as POCT use grows further, and as the tests become more sophisticated.

Early POC tests were based on the simple transfer of traditional methods from a central laboratory, accompanied by their downscaling to smaller platforms.
Subsequently, unique and innovative assays were designed specifically for POCT (such as the rapid streptococcal antigen test). Wide arrays of POCT-specific analytic methods have also been developed, ranging from simple (such as pH paper for assessing amniotic fluid) to the ultra-sophisticated (for example, thromboelastogram for intraoperative coagulation assessment).

Contemporary POCT systems are usually based on test kits and portable, often handheld, instruments. Many tests are realized as easy-to-use membrane-based trips, often enclosed by a plastic cassette. This requires only a single drop of whole blood, urine or saliva, and they can be performed and interpreted by any general physician within minutes.

Hospital emergency departments
Given its time-sensitive relevance, one of the fastest growing users of POCT have been hospital emergency departments (EDs).
In 2008, a study in  ‘Academic Emergency Medicine’ simulated the impact of reduced turnaround times and established grounds for a “compelling improvement in ED efficiency.” Though its authors concluded that specific outcomes such as the length of stay and throughput in the emergency department warranted further investigation, they categorically recommended POCTs as a means to improve turnaround time.
Over recent years, favourable perspectives on POC tests in the ED have strengthened. At the end of last year, a study in ‘Critical Care’ found POCT increased the number of patients discharged in a timely manner, expedited triage of urgent but non-emergency patients, and decrease delays to treatment initiation. The study quantitatively assessed several conditions such as acute coronary syndrome, venous thromboembolic disease, severe sepsis and stroke, and concluded that POCT, when used effectively, “may alleviate the negative impacts of overcrowding on the safety, effectiveness, and person-centeredness of care in the ED.”
Other POCT users include ICUs as well as endocrinology, cardiology, gastroenterology and hematology.

Primary care remains principal user
The bulk of POC tests are however conducted by primary care physicians. 
In 2014, the ‘British Medical Journal’ published the findings of the first-ever survey of POCT use by primary care physicians in five countries (Australia, Belgium, the Netherlands, the UK and the USA). The study found that blood glucose, urine pregnancy and urine leukocytes or nitrite were the most frequently used POC tests. Overall, more respondents in the UK and the USA reported using POC tests than respondents in the other countries. The widest gap in use of POC test was for fecal occult blood, used by 83% of US doctors against only 2–18% of primary care clinicians in the other countries.
One of the key findings of the ‘British Medical Journal’ study, however, was that there was an unmet need for new POC tests. Included here were tests for D-dimer, troponin, chlamydia, gonorrhea, B-type natriuretic peptide, CRP, glycated hemoglobin, white cell count and hemoglobin, which were desired by more than half of respondents across all the five countries.

Fast growing market
Over the past two-and-a-half decades, the availability and use of POCT has steadily increased. By 2012, nearly 100 companies worldwide were developing, manufacturing or marketing POC tests. One study, cited by the National Institutes of Health in the US, places POCT sales in 2011 at about $15 billion (€13.5 billiion). Of this figure, the US accounted for a share of 55%, Europe for 30% and Asia for 12%. The market is projected to show compound annual growth of 4% to reach $18 billion (€16.2 billion) by 2016.
Further growth in the use of POCT is expected to be driven by increases in accuracy, reliability and convenience. Alongside, one of the biggest catalysts for increased POCT use may consist of quality standards.

The quality challenge
Issues about POCT quality continue to vex experts. Variability in the interpretation of POC test results is a widespread concern, given differences in the education and experience of staff who conduct the tests. In addition, POCT results may also not be comparable across sites (e.g. when patients travel) and differences in specimen types (serum, plasma or whole blood) can impact on results – as compared to those from a traditional central laboratory.
In a laboratory setting, analytical quality is usually assessed by QC (quality control) and QA (quality assurance) procedures. Their aim is “to monitor the stability of the analytical measurement system and to alert the operator to a change in stability”… “that may lead to a medically important error.” While these processes serve a laboratory well, it is unclear whether these processes are relevant, transferable and practical for monitoring quality on POCT devices.

Regulators and POCT in the US and the EU
Future developments are expected to be driven by regulatory bodies.
In the US, CLIA88 (Clinical Laboratory Improvement Amendments of 1988) provided a major impetus for growth in POCT. The rules, published in 1992, expanded the definition of ‘laboratory’ to include any site where a clinical laboratory test occurred (including a patient’s bedside or clinic) and specified quality standards for personnel, patient test management and quality.
One of CLIA88’s biggest contributions to POCT growth was to define tests by complexity (waived, moderate complexity and high complexity control), with minimal quality assurance for the waived category.
CLIA88 has been followed by US federal and state regulations, along with accreditation standards developed by the College of American Pathologists and The Joint Commission. These have established POCT performance guidelines and provided strong incentives to ensure the quality of testing.

In Europe, POCT devices are regulated under the 1998 European Directive 98/79/EC on in vitro diagnostic medical devices, although the term itself is not specifically mentioned. There have since been several amendments, most recently in 2011 (2011/100/EU), as well as standards based on the Directive’s framework.
However, at the European level, specific coverage of POCT is referred by international standard ISO 22870:2006, used in conjunction with ISO 15189 which covers competence and quality in medical laboratories. It is important to note that patient self-testing in a home or community setting is not covered by ISO standards.

The role of ICT
The role of ICT in driving the growth of POCT is also likely to become crucial. In the late 1990s, there were concerns that POCT implementation, especially in the real-time critical care context, was accompanied by little understanding of its information technology requirements.
However, the situation has since changed dramatically, especially as ICT is seen as the only appropriate interface between POC test results and computerized patient records – seen as the means to restructure clinical care pathways.
ICT is also accepted as the best means to standardize care protocols. In 2012, a study found that the impact of point-of-care panel assessment on successful discharge and costs varied markedly from one hospital to another and that outcomes depended on local protocols, staff practices and available facilities. In effect, the study highlighted the importance of optimizing clinical pathways to derive maximum benefit from the reduced turnaround times provided by POCT.

C211 Cook LAMP 1

Point-of-care diagnostics for malaria

In spite of increased publicity in the Western world about malaria and drives to provide mosquito nets, the disease is still endemic in a large part of the world. This article discusses different methods of malaria diagnosis and the role that point-of-care tests can play in the ultimate goal of malaria elimination.

by Dr Jackie Cook

Finding the balance: over- and under-diagnosing malaria
Malaria remains a huge burden in many parts of the world, particularly in sub-Saharan Africa. Despite increased availability of effective treatments and interventions, malaria elimination is still out of reach for many countries. Whilst availability of effective interventions that reduce contact with infected mosquitoes, such as insecticide treated bed-nets or indoor spraying with insecticide are key to reducing malaria prevalence, case management also plays a key role. Many who need treatment are unable to get it, either through lack of access to healthcare, or because infections remain undiagnosed. Conversely, some studies suggest that many patients are receiving anti-malarials unnecessarily due to a tendency to diagnose based solely on clinical symptoms, many of which are similar to other infections, rather than using a diagnostic. In under-resourced settings, this can result in any child presenting with a fever being prescribed malaria drugs. This simultaneously means non-malaria fevers remain undiagnosed and untreated, as well as a large proportion of unnecessary prescriptions for malaria drugs, which increases healthcare costs and the risk of drug resistance, a very potent threat. In order to counteract this, the last few decades have brought a push from health officials, researchers, donors and governments alike to confirm every suspected case of malaria before prescribing treatment.

Microscopy
For many, malaria diagnosis is performed using microscopy, a procedure that is relatively cheap but requires a skilful operator. Malaria is caused by the plasmodium parasite and it undergoes several developmental and replication stages in the human. These stages can be seen through a microscope when blood is prepared on either a thin or thick film and stained, normally, with Giemsa or Wright’s stains. Experienced microscopists can detect down to 1 parasite per microlitre of blood, although the typically quoted sensitivity for microscopy is approximately 100 parasites per microlitre. In reality, the sensitivity of the test depends greatly on the microscopist. In areas where malaria transmission is declining, microscopists can go months without seeing a positive slide, and as such, skills may begin to decline. In addition, the need for well-maintained microscopes and access to slides and stain can mean microscopy is not always available.

Rapid diagnostic tests
The first malaria rapid diagnostic test (RDT) was developed in 1993 and in the decades since many variations have proliferated on the market. RDTs are typically immunochromatograhic tests that use monoclonal antibodies to detect the presence of plasmodium antigens (proteins produced by the parasite) which are present in the blood of infected, or recently infected, individuals. They are generally stable at a range of temperatures and do not require special storage conditions. RDTs require significantly less training for use than microscopy and a positive infection is easy to identify by visualization of a ‘positive’ line, meaning the results are much less subjective. Most RDTs require 15–20 minutes for development, meaning treatment can be given while patients wait at health facilities.

However, there are a few downsides to the use of RDTs. The presence of parasite antigen doesn’t always equate with a current infection, but can signify a recently cleared infection from within the previous two weeks. In addition, several studies have reported the deletion of certain antigens detected by RDTs in plasmodium parasites, meaning false-negative results may be obtained in areas using these types of RDTs [1]. The World Health Organization (WHO), in collaboration with the Foundation for Innovative New Diagnostics (FIND), has set up an RDT product testing programme, an essential quality assurance component considering the huge influx of RDT brands that have popped up in the past 20 years [2]. The reports from the programme make worrying reading with very low sensitivity for some brands, differences between batches of RDT and a general lower sensitivity for non-falciparum infections for nearly all brands.

The hidden reservoir: asymptomatic, low-density infections
In general, the limited sensitivity of both microscopy and RDT (unreliable detection in infections with a parasite density less than 100 parasites per microlitre) is not an issue for symptomatic malaria infections, the majority of which will consist of high parasite densities. However, asymptomatic infections are numerous, in high and low transmission settings. These asymptomatic infections pose a problem for control programmes. The carriers do not feel unwell so have no reason to present to a health facility for testing and yet, they may be infectious to mosquitoes, meaning they pose a risk for onward transmission. In order to detect and treat these asymptomatic infections, malaria programmes are now taking their diagnostics into the community in a strategy termed Mass Screening and Treatment (MSAT). This involves testing everyone within a community regardless of whether they have symptoms. Many of these infections are asymptomatic and therefore also likely to be low-density; hence which test you use can mean the difference between detecting 10 infections or 100 infections. Whilst RDT is ideal for field conditions, studies have shown that they can miss a large proportion of infections that are present [3].

Molecular tests
Polymerase chain reaction

More sensitive diagnostics are available in the terms of molecular tests. The most commonly used is polymerase chain reaction (PCR). Numerous PCR assays have been developed, many based on amplifying the 18S ribosomal RNA (18SrRNA), first published by Snounou and colleagues in 1993 [4]. PCR detects parasite nucleic acids and can detect much lower parasite densities than RDT or microscopy, with tests reportedly able to detect down to 1 parasite per microlitre of blood, as well as being able to accurately distinguish between plasmodium species. However, the number of assays available has resulted in calls for a standardized test so results can be compared across the world. PCR tests are generally performed on blood collected on filter paper but the equipment required for PCR and the expense of maintaining a sterile lab environment precludes PCR from being available in many health facilities. This means that samples need to be sent away, with an often long wait for results. Although more field-friendly PCR methods are in the pipeline, currently, PCR is not generally considered suitable for a point-of-care test, although it’s use in epidemiological studies is undisputed.

Loop-mediated isothermal amplification
Loop-mediated isothermal amplification (LAMP) was first developed in 2000, with the aim to amplify DNA in a sensitive, specific and speedy manner (Figs 1, 2). One of the main advantages is the fact it can be performed under isothermal conditions, and thus averting the need for a thermocycler. LAMP can be thought of as a ‘rough-and-ready’ PCR, as it is also less sensitive to inhibitors present in biological samples, and therefore allows the use of simple and cheap DNA extraction methods. The fast time-to-results and the minimal equipment required make LAMP an attractive option for field diagnosis. In order to make this a viable option, FIND and partners Eiken Chemical Ltd, Japan, and the Hospital for Tropical Diseases (HTD), London, UK have developed a field-stable kit with all reagents freeze-dried into the lid of the reaction tube, which means minimal processing is required. Although still in the development and testing stage, current results of the use of the kit are promising, with strong agreement with PCR results and a considerably higher sensitivity than RDT [5-8]. Whilst seemingly the most sensitive of the point-of-care tests available, there are some downsides to LAMP. Results still take considerably longer than RDT, requiring patients to wait at clinics for 2 hours for results, or leaving the health facility staff with the complicated task of contacting and following up any positive patients. In addition, electricity is required for the processing of samples, making it not practical for many places.

Future for point-of-care diagnostics for malaria
These advances in molecular diagnostics mean infections that would previously have remained undetected can now be confirmed, treated and cleared. Identifying and treating all infections becomes a greater priority as transmission reduces and the possibility of elimination comes into focus. This is occurring in areas around the world such as Swaziland and Zanzibar in Africa and in South East Asia, where the need to eliminate has become ever more important with the emergence of drug-resistant parasites. In these areas, identification of every last parasite is the aim and development of a quick, sensitive and reliable diagnostic is key to that.

As more studies reveal the extent of the low-density parasite reservoir, there is a sense of ‘the more we look the more malaria we will find’. But do we need to find all these infections in order to eliminate malaria? It should be noted that these ‘super-sensitive’ tests are a relatively recent phenomena and that countries have succeeded in malaria elimination without them. The role these low-density parasitemias play in transmission is not fully understood but for now the aim remains to clear the last parasite standing.

References
1. Houze S, Hubert V, Le Pessec G, Le Bras J, Clain J. Combined deletions of pfhrp2 and pfhrp3 genes result in Plasmodium falciparum malaria false-negative rapid diagnostic test. J Clin Microbiol. 2011; 49(7): 2694–2696.
2. WHO, FIND, CDC. Malaria rapid diagnostic test performance: Results of WHO product testing of malaria RDTs: Round 5. 2013; http://www.who.int/malaria/publications/atoz/9789241507554/en/.
3. Cook J, Xu W, Msellem M, Vonk M, Bergström B, Gosling R, Al-Mafazy AW, McElroy P, Molteni F, Abass AK, Garimo I, Ramsan M, Ali A, Mårtensson A, Björkman A. Mass screening and treatment on the basis of results of a plasmodium falciparum-specific rapid diagnostic test did not reduce malaria incidence in Zanzibar. J Infect Dis. 2015; 211(9): 1476–1483.
4. Snounou G, Viriyakosol S, Zhu XP, Jarra W, Pinheiro L, do Rosario VE, Thaithong S, Brown KN. High sensitivity of detection of human malaria parasites by the use of nested polymerase chain reaction. Mol Biochem Parasitol. 1993; 61(2): 315–320.
5. Hopkins H, González IJ, Polley SD, Angutoko P, Ategeka J, Asiimwe C, Agaba B, Kyabayinze DJ, Sutherland CJ, Perkins MD, Bell D. Highly sensitive detection of malaria parasitemia in a malaria-endemic setting: performance of a new loop-mediated isothermal amplification kit in a remote clinic in Uganda. J Infect Dis. 2013; 208(4): 645–652.
6. Polley SD, González IJ, Mohamed D, Daly R, Bowers K, Watson J, Mewse E, Armstrong M, Gray C, Perkins MD, Bell D, Kanda H, Tomita N, Kubota Y, Mori Y, Chiodini PL, Sutherland CJ. Clinical evaluation of a loop-mediated amplification kit for diagnosis of imported malaria. J Infect Dis. 2013; 208(4): 637–644.
7. Aydin-Schmidt B, Xu W, González IJ, Polley SD, Bell D, Shakely D, Msellem MI, Björkman A, Mårtensson A. Loop mediated isothermal amplification (LAMP) accurately detects malaria DNA from filter paper blood samples of low density parasitaemias. PLoS One 2014; 9(8): e103905.
8. Cook J, Aydin-Schmidt B, González IJ, Bell D, Edlund E, Nassor MH, Msellem M, Ali A, Abass AK, Mårtensson A, Björkman A. Loop-mediated isothermal amplification (LAMP) for point-of-care detection of asymptomatic low-density malaria parasite carriers in Zanzibar. Malar J. 2015; 14(1): 43.

The author
Jackie Cook PhD
London School of Hygiene and Tropical Medicine, London, UK

E-mail: Jackie.cook@lshtm.ac.uk

C194 Punyadeera HPV Pathway crop

Tumour markers for oropharyngeal cancers

Head and neck cancers (HNC) are a globally prevalent malignancy. Despite the efforts of reducing several known etiological factors such as smoking and drinking to lower the incidence of HNC at the population level, the incidence of oropharyngeal cancers (OPC) is on the rise. OPC is caused by human papillomavirus (HPV) and most prevalent in a younger age group. This review critically examines the epidemiology, biology and laboratory detection of OPC and provides future insights into combating this debilitating disease.

by X. C. Sun, P. Tran and Dr C. Punyadeera

Introduction
Head and neck cancers (HNC) are the sixth most prevalent neoplasm in the world with approximately 650 000 cases diagnosed each year [1–5]. Oral and oropharyngeal squamous cell carcinomas (OSCC & OPSCC) together constitute 90% of malignancies in the head and neck region. Several known traditional etiological factors such as tobacco and alcohol use are recognized in the development of these cancers. More recently, human papillomavirus (HPV) infection is recognized as an additional risk factor for the development of a subset of HNCs, mainly OPSCC [6].

In recent decades, the overall incidence of HNC caused by smoking and alcohol is on the decline. In contrast, HPV+ve OPSCC is on the rise. In developed countries such as the United States of America, the incidence of HPV+ve OPSCC is escalating, with predictions that more than 50% of patients will be HPV+ve by 2030 [7]. Interestingly, patients who are HPV+ve OPSCC are relatively younger than HPV-ve HNC patients and are therefore less likely to have any history of chronic or excessive alcohol or tobacco use but are more likely to engage in social habits that increase the likelihood of HPV transmission (oral sex). The clear distinction between HPV+ve OPSCC and HPV-ve cases provides multiple downstream inputs that can be applied into clinical treatment modalities. Conversely, it provides an exciting opportunity for the development of early diagnostic and screening methods to combat HNC at a population level through prevention strategies.

HPV+ve OPSCC are both clinically and biologically distinct tumour entities compared with HPV-ve counterparts. Classically, HPV+ve OPSCC patients present with a molecular profile that includes retinoblastoma (pRB) pathway inactivation, p53 degradation and p16 upregulation. Clinically, HPV+ve OPSCC patients often present with smaller primary tumours but more advanced nodal disease, similar rates of metastasis and differing patterns of metastasis [8, 9]. In addition, patients with HPV+ve tumours have better prognosis with 5-year survival at 75% (c.f. 25% for HPV-ve patients). There are a number of techniques for the diagnosis and detection of HPV+ve OPSCC, including histopathology, polymerase chain reaction (PCR) and immunohistochemistry (IHC).

Biology
Upon integration of HPV DNA into the host genome, E6 and E7 viral oncoproteins activate a number of pathways within the host cell. The primary molecular target of E7 is the Rb protein and the E7 viral oncoprotein reprogrammes terminally differentiated epithelial cells to re-enter the cell cycle. E7 disrupts the Rb–E2F complex leading to the release of E2F, subsequently resulting in cyclin A and E activation and entry of the cell into S phase. As a consequence p16 is overexpressed [10, 11]. The E6-associated protein (E6-AP) is a specific ubiquitin-ligase that binds to the viral E6 oncoprotein, resulting in p53 degradation. E6 and E7 have also been shown to interfere with growth inhibitory cytokines [such as tumour necrosis factor-α (TNFα)] and to disrupt the mitochondrial apoptotic pathway by interfering with pro-apoptotic BAK and BAX [10]. E6 and E7 alone are insufficient to cause malignant cell transformation; however, due to their interference with proliferation checkpoints and apoptotic pathways, it is certain that the accumulation and damaged DNA, mitotic defects and integration of foreign DNA substantially increase the risk of malignant progression [10].

Detection methods
A number of diagnostic methods are currently available to evaluate whether a tumour is HPV+ve. These methods include both indirect as well as the direct methods; i.e. the latter includes the detection of HPV genomic DNA (gDNA). Besides clinical examination, current methods for the diagnosis of HPV status include tissue biopsy staining for p16 (indirect method). Biopsies may fail when tumours are too small to access or when they are located in hidden anatomical sites [10]. Other methods include the detection of HPV gDNA using PCR and in situ hybridization (ISH) as well as the detection of HPV viral transcripts E6 and E7 by PCR.

p16 detection by IHC is widely used in cervical cancer cases for the detection of HPV and it is being studied extensively in the field of HNC [12]. During immortalization of host cells, the E7 protein binds to Rb, resulting in the compensatory overexpression of the tumour suppressor gene p16 in HPV-infected tumour cells. Therefore, IHC detection of p16 is considered as an indirect surrogate marker to determine the presence of HPV [11]. However, there are pitfalls associated with p16 IHC detection. A number of studies have shown suboptimal specificity of IHC [10, 11]. As a consequence of the extreme anatomical and biological heterogeneity in HNC, elevation of p16 by non-viral materials may contribute to a considerable false positive rate [11]. Although it has been reported that p16-positive patients have a better prognosis and increased radiosensitivity, it has been advised that p16 detection by IHC alone cannot accurately identify HPV infection in HNC [12].

Detection of HPV gDNA is a widely used method because of its high sensitivity and cost-effectiveness. Common primers (MY09/MY11 and GP5/GP6) that target the L1 open reading frame are used to detect wide-spectrum HPV genotypes [11]. However, standard PCR primers do not allow detection of specific HPV genotypes [10]. In addition, the target L1 region could also be deleted upon viral integration, which may affect sensitivity of the test [10, 11]. Although, specific E6 and E7 primers have been designed and used to overcome L1 deletion, this method still lacks the ability to distinguish stromal/tumour and episomal/integrated DNA materials and is prone to contamination interference, which undermines the clinical usefulness [11].

The HPV DNA ISH method is unique because of its high specificity and the ability to be evaluated microscopically. The visible hybridization signals that precipitate within the nuclei help distinguish integrated and episomal DNA [11]. It is noteworthy that the presence of HPV DNA detected by ISH significantly correlates with p16 detection by IHC. [10]. However, ISH methods carry lower sensitivity compared to its excellent specificity [11]. The detection of HPV-16 viral transcripts E6 and E7 can highlight whether a patient is suffering from persistent infection – information that is clinically more valuable [12]. However, because of the fragile nature of mRNA, formalin-fixed paraffin-embedded (FFPE) specimens are often not ideal for RNA analysis and frozen fresh specimen are required [12].

The detection of HPV-specific IgG in serum is a useful biomarker to determine previous and current HPV infection status [13]. Serological biomarkers are not site-specific, and can arise due to HPV infections at sites other than the oral cavity, hence potentially affecting the specificity of the assay.

The effect of Gardasil™
From treatment and management of HPV-related diseases, the paradigm of HPV care has shifted to a preventative approach since the breakthrough introduction of the HPV vaccine, Gardasil™ (Merck & Co.). The biologic basis of HPV vaccines relies on the mechanism of neutralizing antibodies generated against virus-like particles (VLP), which consist of the major capsid protein HPV L1 [10]. The quadrivalent HPV 6/11/16/18 vaccine Gardasil™ was licensed by the FDA to prevent cervical, vaginal and vulvar infections in women in 2006 and genital warts in men in 2009, followed by the licensing of bivalent HPV 16/18 vaccine Cervarix™ (GlaxoSmithKline), in women in 2009 [14].

The benefits of HPV vaccination for the oral cavity include not only the biologically-plausible direct effect on oral infections, but also the sequential oral infection reduction following genital infection reduction, due to the sexually transmitted nature of HPV. To date, there are only a few studies examining the effect of Gardasil on oral infection; however, the results showed a promising outlook with high vaccine efficacy (as high as 93% in 4 years time, as recorded by randomized controlled trial in Costa Rica) [15] and reduced viral prevalence (oral prevalence dropped to 1.4% from 9.3% in the 15–23 age group in youth clinics in Sweden) [16].

Future outlook
As previously mentioned, HPV-related OPSCC involve a new segment of the population, which is distinctively different to the traditional HNC patient cohort caused by excessive smoking and drinking. This requires clinicians to conduct thorough cancer screening of at-risk groups. Such screening programmes should pay particular attention to cervical lymph nodes as some subtypes of HNC, especially OPSCC, involve hard-to-examine areas for clinical visual examination.

As a result of the sexually transmitted nature of HPV, some studies have advocated routine sexual behaviour education in clinical practice. However, this practice carries inherent controversies of sexual harassment and confidentiality [17]. Public awareness campaigns have been argued to be a more efficient preventative means in altering patients’ behaviour. Studies have shown that many oral health practitioners have limited knowledge with regards to HPV-related HNC and HPV vaccinations [17]. Professional bodies and health authorities are required to address this knowledge gap by establishing new clinical guidelines and using continuing educational methods, in order to effectively control the rising trend of HPV-related HNC.

Conclusion
All current diagnostic methods require excision of tumour tissue and this can be challenging when they are located in hidden sites. Efforts have been made globally to develop a less invasive, more cost-effective and clinically-relevant test. Serology tests that detect HPV-specific IgG have been shown to indicate viral presence and are linked with prognostication; however, this method inherently lacks site specificity [10]. Oral specimens, more specifically oral rinse, have shown promise in this field. Oral rinse samples not only are non-invasive and cost-effective, the proximity of collection to the area of interest ensures the localized sampling field. It is also important to note that shedding of normal cells into the oral cavity/oral pharynx may interfere with and/or decrease the HPV detection level [10]. OraRisk® HPV test, uses oral rinses for HPV detection [10]. Translational collaborations between scientists and clinicians have resulted in an assortment of tumour markers and diagnostic techniques for OPSCC. However, these need to be tested in clinical trials to determine the cost-effectiveness.

Acknowledgments
This work is supported by Garnett Passé & Rodney Williams Memorial Foundation and the Queensland Centre for Head and Neck Cancer funded by Atlantic Philanthropies, the Queensland Government and the Princess Alexandra Hospital.

References
1. Pfaffe T, Cooper-White J, Beyerlein P, Kostner K, Punyadeera C. Diagnostic potential of saliva: current state and future applications. Clin Chem. 2011; 57(5): 675–687.
2. Nagadia R, Pandit P, Coman WB, Cooper-White J, Punyadeera C. miRNAs in head and neck cancer revisited. Cell Oncol (Dordr). 2013; 36(1): 1–7.
3. Ovchinnikov DA, Cooper MA, Pandit P, Coman WB, Cooper-White JJ, Keith P, Wolvetang EJ, Slowey PD, Punyadeera C. Tumor-suppressor gene promoter hypermethylation in saliva of head and neck cancer patients. Transl Oncol. 2012; 5(5): 321–326.
4. Kulasinghe A, Perry C, Jovanovic L, Nelson C, Punyadeera C. Circulating tumour cells in metastatic head and neck cancers. Int J Cancer 2015; 136(11): 2515–2523.
5. Ovchinnikov DA, Wan Y, Coman WB, Pandit P, Cooper-White JJ, Herman JG, Punyadeera C. DNA methylation at the novel CpG sites in the promoter of MED15/PCQAP gene as a biomarker for head and neck cancers. Biomark Insights 2014; 9: 53–60.
6. Warnakulasuriya S. Global epidemiology of oral and oropharyngeal cancer. Oral Oncol. 2009; 45(4–5): 309–316.
7. Chaturvedi AK. Epidemiology and clinical aspects of HPV in head and neck cancers. Head Neck Pathol. 2012; 6(Suppl 1): S16–24.
8. Galbraith NS. Infectious disease control. BMJ 1990; 300(6738): 1477–1478.
9. Powell NG, Evans M. Human papillomavirus-associated head and neck cancer: oncogenic mechanisms, epidemiology and clinical behaviour. Diagn Histopathol. 2015; 21(2): 49–64.
10. Chai RC, Lambie D, Verma M, Punyadeera C. Current trends in the etiology and diagnosis of HPV-related head and neck cancers. Cancer Med. 2015; doi: 10.1002/cam4.424.
11. El-Naggar AK, Westra WH. p16 expression as a surrogate marker for HPV-related oropharyngeal carcinoma: a guide for interpretative relevance and consistency. Head Neck 2012; 34(4): 459–461.
12. Bussu F, et al. HPV infection in squamous cell carcinomas arising from different mucosal sites of the head and neck region. Is p16 immunohistochemistry a reliable surrogate marker? Br J Cancer 2013; 108(5): 1157–1162.
13. Castle PE, Shields T, Kirnbauer R, Manos MM, Burk RD, Glass AG, Scott DR, Sherman ME, Schiffman M. Sexual behavior, human papillomavirus type 16 (HPV 16) infection, and HPV 16 seropositivity. Sex Transm Dis. 2002; 29(3): 182–187.
14. Sanders AE, Slade GD, Patton LL. National prevalence of oral HPV infection and related risk factors in the U.S. adult population. Oral Dis. 2012; 18(5): 430–441.
15. Herrero R, Quint W, Hildesheim A, Gonzalez P, Struijk L, Katki HA, Porras C, Schiffman M, Rodriguez AC, Solomon D, Jimenez S, Schiller JT, Lowy DR, van Doorn LJ, Wacholder S, Kreimer AR; CVT Vaccine Group. Reduced prevalence of oral human papillomavirus (HPV) 4 years after bivalent HPV vaccination in a randomized clinical trial in Costa Rica. PLoS One 2013; 8(7): e68329.
16. Grün N, Ährlund-Richter A, Franzén J, Mirzaie L, Marions L, Ramqvist T, Dalianis T. Oral human papillomavirus (HPV) prevalence in youth and cervical HPV prevalence in women attending a youth clinic in Sweden, a follow up-study 2013-2014 after gradual introduction of public HPV vaccination. Infect Dis (Lond). 2015; 47(1): 57–61.
17. Daley E, DeBate R, Dodd V, Dyer K, Fuhrmann H, Helmy H, Smith SA. Exploring awareness, attitudes, and perceived role among oral health providers regarding HPV-related oral cancers. J Public Health Dent. 2011; 71(2): 136–142.
18. Salazar C, Calvopiña D, Punyadeera C. miRNAs in human papilloma virus associated oral and oropharyngeal squamous cell carcinomas. Expert Rev Mol Diagn. 2014; 14(8): 1033–1040.

The authors

Xiaohang Charles Sun1, Peter Tran1 and Chamindie Punyadeera*2 MSc, PhD
1School of Dentistry, The University of Queensland, Brisbane, Australia
2The Institute of Health and Biomedical Innovation, Queensland University of Technology, Brisbane, Australia.

*Corresponding author
E-mail: chamindie.punyadeera@qut.edu.au

C205 Algeciras Figure ddPCR manuscript cropped

Detection of von Hippel–Lindau (VHL) gene copy number variation

Detection of copy number variations (CNV) in the VHL gene is part of the genetic workup of VHL-related tumours. Current methods for CNV determination have complex workflows and limitations. Digital droplet PCR is a promising methodology that could be used for CNV determination. Its advantages include shorter turnaround time, decreased DNA input and superior precision.

by Dragana Milosevic, Dr Stefan K. Grebe, Dr Alicia Algeciras-Schimnich

Background
Von Hippel-Lindau (VHL) disease is an autosomal dominant cancer syndrome with an incidence of approximately 1 in 36,000 live births. It predisposes affected individuals to the development of five main types of neoplasms: retinal angioma (>90% penetrance), cerebellar hemangioblastoma (>80% penetrance), clear-cell renal cell carcinoma (~75% penetrance), spinal hemangioblastoma (~50% penetrance), and pheochromocytoma (~30% penetrance). The disease is caused by mutations or large deletions in the VHL tumour suppressor gene (VHL). The VHL gene is located on chromosome 3p25-26 and encodes a protein that is involved in ubiquitination and degradation of a variety of proteins, most notably hypoxia-inducible factor (HIF) [1]. HIF induces expression of genes that promote cell survival and angiogenesis under conditions of hypoxia. It is believed that diminished HIF degradation due to inactivation of the VHL protein causes the tumours in VHL disease. Tumours form when the remaining intact copy of the VHL gene is somatically inactivated in target tissues.

VHL patients are subdivided in two groups, based on the genotype/phenotype correlations; those at low risk of developing pheochromocytoma are designated type I, whereas those with a high risk of pheochromocytoma (with or without renal cell carcinoma) are classified as type II. Deletions in the VHL gene are more common in type II VHL syndrome [2, 3]. To date, there have been more than 300 germline mutations and large deletions identified in the VHL gene that cause loss of function [2]. Germline loss-of-function point mutations and small deletions or insertions accounts for approximately 70–80% of cases; whereas large germline deletions of one copy of the VHL gene accounts for approximately 20–30% of cases.

VHL genetic testing
The clinical diagnosis of VHL disease is suspected in individuals who present with one or several of the characteristic tumours described above. Molecular genetic testing of VHL is performed to confirm the clinical diagnosis. The genetic testing includes sequencing of the three exons of VHL gene and evaluation of copy number variations (CNV) to assess deletions of large regions of the gene. Historically, detection of these large deletions was done by Southern blot. Today, most clinical laboratories offering CNV determination use multiplex ligation probe amplification (MLPA)-based assays. MLPA is a method based on sequence specific probe hybridization, ligation and PCR amplification and detection of multiple targets with a single set of universal primers. CNVs are detected by comparison of the signal from each target region to control genes and normal control samples.

Although MLPA-based assays are of superior quality and more robust than previous technologies, technical success of MLPA assays is dependent on input of high quantities (at least 400ng of germline DNA) of high quality DNA. Although less labour intensive than Southern blotting, the MLPA work flow is still more complex than PCR-based assays and typically takes two days until completion. Finally, MLPA does not allow for absolute quantification and cannot distinguish copy numbers greater than three with high accuracy.

Digital droplet PCR
Digital droplet PCR (ddPCR) is a methodology that has gained favour as a robust alternative with improved precision to quantitative real-time PCR (qPCR) for DNA quantification. DdPCR also lends itself to exact CNV determination, detection of rare variants, translocations, and/or point mutations (SNP genotyping).

DdPCR is based on traditional PCR amplification and fluorescent probe-based detection methods, but partitions each reaction into 15 000–20 000 nanodroplets. Provided that the starting DNA concentration is not too high, some of these reactions will contain one or more target DNA molecules, whereas others will not contain any. Those with at least one target DNA molecule will yield an amplification product, while those without won’t. Quantification is based on counting the proportion of droplets that show amplification, using a microfluidic counting device. The proportion of reactions with and without amplification obeys Poisson statistics and allows back-calculation of the starting concentration based on the distribution function. When enough droplets are used, copy number ascertainment is of unprecedented accuracy and reproducibility (CVs of 2–10%) [4]. Compared to standard qPCR methods, ddPCR eliminates the need for standard curves and measures both target and reference DNA within the same well. Applications where ddPCR has been used include: rare allele detection in heterogeneous tumours, assessment of tumour burden by analysis of peripheral body fluids (mainly blood), non-invasive prenatal diagnostics, viral load detection, CNV, assays with limited sample material such as single cell gene expression and archival formalin-fixed paraffin-embedded (FFPE) samples, DNA quality control tests before sequencing, and validation of low frequency mutations identified by sequencing.

Recently, ddPCR has become commercially available in a format that allows for rapid microfluidic analysis of thousands of droplets per sample making it practical for routine use in clinical laboratories. A recent study on the analytical performance of ddPCR has shown greater precision (CVs decreased by 37–86%) and improved day-to-day reproducibility and comparable sensitivity to real-time PCR for absolute quantification of microRNAs [5]. A study that evaluated the use of ddPCR to detect BCR-ABL1 fusion transcripts demonstrated that ddPCR is able to achieve lower limit of detection and quantification than currently used in quantitative PCR methods [6].

Our group has evaluated ddPCR for VHL CNV and shown improved performance compared to MLPA [7]. The method showed 100% concordance with the MLPA method and 100% self-concordance within and between runs. The method showed reproducible results with DNA inputs as low as 10 ng, a 40-fold DNA-input reduction compared with MLPA. Because of this advantage, difficult specimen types, such as archival FFPE specimens, are now capable of being characterized for VHL CNVs, a feat previously impossible by MPLA, because of the often poor DNA quality of such samples (Fig. 1). Additionally, same-day results are available with the ddPCR method, reducing the total run-time from 48 hours for the MLPA method to 3 hours.

One limitation of current ddPCR platforms is the limited ability for multiplexing. For example the Bio-Rad’s ddPCR system can detect only two colours (FAM and HEX), limiting the number of genes that could be evaluated simultaneously in a single reaction. Development of platforms that allow greater multiplexing should, therefore, further facilitate the adaptation of this technology in clinical laboratories.

Conclusions
Improvement of current methods for VHL CNV testing is desired to obtained accurate and cost-effective results in clinical laboratories. Currently used methods are still labour intensive and not suitable for rapid turnaround time. DdPCR is an elegant adaptation of the current quantitative PCR format and has the potential to be applied widely in clinical laboratories. For VHL CNV, ddPCR provides a greatly improved turnaround time and requires only minimal nucleic acid input that does not have to be of the highest quality. With no need for standard curves or controls, ddPCR overcomes the issues associated with traditional qPCR, while increasing both robustness (superior sensitivity, specificity, and precision) and utility in other specimen types such as paraffin-embedded tissue, circulating cell-free DNA, circulating tumour cells, and microRNA detection [8–10].

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The authors
Dragana Milosevic MS; Stefan K. Grebe MD, PhD; Alicia Algeciras-Schimnich* PhD
Department of Laboratory Medicine and Pathology, Rochester, MN, USA

*Corresponding author
E-mail: Algeciras.Alicia@mayo.edu