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Archive for category: Featured Articles

Featured Articles

C289 CRC Young thematic

The potential of the microbiome for colorectal cancer screening

, 26 August 2020/in Featured Articles /by 3wmedia

Alterations of the microbiome are associated with colorectal cancer. Research suggests that microbiome data could improve colorectal cancer screening. Analysis of the microbiome directly from existing screening methods offers the opportunity to rapidly translate this research into practice, with the potential to develop a multifactorial colorectal cancer screening tool.

by Dr Caroline Young and Professor Philip Quirke

Current colorectal cancer screening methods
Different countries have adopted various approaches to colorectal cancer screening. They share a common goal: detection of asymptomatic adenomas or early stage carcinomas, as detection and treatment at an earlier stage is associated with improved survival [1]. Two main screening methods are in use: detection of fecal occult blood and visualization of the colon. Stool DNA testing has recently been approved but is currently prohibitively expensive.

Detection of fecal occult blood can be achieved using the guaiac fecal occult blood test (gFOBT) or an immunochemical method, fecal immunochemical test (FIT). The gFOBT method requires participants to apply stool to a gFOBT card on three occasions and return this to a screening centre through the post. Hydrogen peroxide is applied and if heme is present, blue discolouration occurs. This method has been shown to reduce mortality by 16 % [2]. The FIT method requires participants to insert a FIT probe into stool and return this to a screening centre through the post. An antibody-based assay is used to detect globin. FIT is more sensitive and specific, can be analysed quantitatively and has improved acceptability [3]. Participants in whom fecal occult blood is detected above a threshold, by either method, are referred for colonoscopy.

Alternatively, direct visualization of the colon by colonoscopy/sigmoidoscopy can be undertaken as first-line screening. Limitations include procedural risks, associated costs, workforce capacity and reduced acceptability [4].

The microbiome and colorectal cancer
The microbiome can be characterized using a number of technologies: next generation sequencing (NGS) of bacterial 16SrRNA, whole genome shotgun metagenomics of bacterial communities or the analysis of fecal metabolites (metabolomics). These techniques have enabled an appreciation of the diversity and function of the microbiome in health and disease.

Epidemiological studies demonstrate that the incidence of colorectal cancer is highest in countries with a Western culture, which encompasses Western diet, sanitation and hygiene, medication use, urbanization, etc. [5]. Migrant populations to such countries acquire the increased risk, suggesting an environmental risk factor. African Americans, who typically have a high incidence of colorectal cancer, have been shown to have different microbiomes to Native Africans, who have a low incidence of colorectal cancer [6] and the diets typical of these two groups have been shown to differentially influence the microbiome [7].

Numerous studies have found differences in the microbiome, ‘dysbiosis’, of patients with colorectal adenomas or carcinomas compared to healthy controls [8]. In general, dysbiosis is characterized by a decrease of short chain fatty acid-producing bacteria, an increase of bacteria that produce bile salts or hydrogen sulphide, an increase of pathogenic bacteria and inflammation [9]. In particular, the species Fusobacterium nucleatum, a Gram-negative oral commensal, has been associated with colorectal carcinoma in many studies.

Animal models have explored potential mechanisms [10] and interestingly show that risk is transferable with transplant of dysbiotic microbiomes. This suggests that dysbiosis may be causative or promotional of the development of colorectal cancer, rather than merely associative.

Given the association between dysbiosis and colorectal cancer, researchers have considered whether the microbiome could be used as a screening tool.

The microbiome compared to gFOBT
Several studies have compared the accuracy of the microbiome as a screening tool to gFOBT. Amiot et al. showed that a screening model combining age plus microbiome (typed by qPCR) was no better than a model combining age plus gFOBT [11]. However, metabolomic analysis [by 1(H)-NMR spectroscopy] was more accurate than gFOBT [12]. Zeller et al. created a screening model that combined metagenomic data with gFOBT results, which lead to an increase in sensitivity compared to gFOBT alone. This model was subsequently validated in a cohort of a different nationality. It showed some ability to distinguish colorectal cancer from a distinct bowel condition (inflammatory bowel disease) and could be extrapolated to NGS of 16SrRNA (a cheaper method) [13].

Zackular et al. used 16SrRNA analysis of the microbiome to create models combining microbiome data and patient metadata that were more accurate than models based on metadata alone [14]. A model comprising BMI, microbiome data and gFOBT was more accurate at distinguishing adenoma from carcinoma than gFOBT alone. Yu et al. used metagenomics to identify two discriminatory bacterial genes that they then validated as biomarkers by qPCR (a cheaper method) in a cohort of a different nationality. The area under the receiver operating characteristic (ROC) curve for discriminating carcinoma from controls was 0.84, although gFOBT or FIT screening was not performed for comparison [15].

The microbiome compared to FIT
As FIT is replacing gFOBT in many screening programmes and has a higher sensitivity, comparing the accuracy of the microbiome as a screening tool with FIT is more appropriate.

Baxter et al. used 16SrRNA to create a screening model that combined microbiome data and FIT to discriminate healthy controls from cases with either adenoma or carcinoma [16]. This model was more sensitive but less specific than FIT alone; it detected 70% of cancers and 37% of adenomas which were missed by FIT. Liang et al. [17] identified four bacterial species (one being F. nucleatum) by qPCR that could distinguish colorectal carcinoma from healthy controls with greater accuracy than FIT. Combining microbiome and FIT data afforded greater accuracy still.

Goedert et al. [18] analysed the microbiome by 16SrRNA in patients with a positive FIT result at baseline. The microbiome data gave an area under the ROC curve for discriminating between healthy controls and colorectal adenoma of 0.767.

Limitations of current research
The studies mentioned above show promise for the microbiome as a potential colorectal cancer screening tool. However, they should be interpreted with a degree of caution, owing to a number of limitations which mean that aspects of the studies do not realistically reflect screening conditions. Several of the studies assessed participants at increased risk of colorectal cancer or who were symptomatic. Some collected stool samples following bowel preparation and colonoscopy; one study found that this did not affect the significance of results [16], whereas another found that it did [15]. Several studies included adenomas <10 mm within their control groups. Many of the studies created models that distinguished adenomas from carcinomas or carcinomas from healthy controls; few designed models to discriminate between healthy controls and participants with any colorectal lesion (i.e. either adenoma or carcinoma).

All of the studies used whole stool samples that were refrigerated or frozen by participants at home or delivered within a limited time window to research centres. This method of sample collection would not translate to national screening programmes, which already struggle with poor participant uptake. In light of this, researchers have, therefore, investigated whether the microbiome can be analysed directly from the existing screening tools, gFOBT or FIT.

Analysing the microbiome directly from existing screening tools
Sinha et al. emphasize the need to assess reproducibility, stability over time and how accurately results reflect the gold standard (fresh or immediately frozen stool) when analysing different methods of microbiome sample collection [19]. They found that 16SrRNA microbiome results were similar when analysed from unprocessed or processed gFOBT cards and, in addition to Dominianni et al. [20], showed stability after storage at room temperature for several days. This work was extended by Taylor et al. [21] who demonstrated that the microbiome is stable when analysed by 16SrRNA from processed gFOBT cards stored at room temperature for up to 3 years.

Lotfield et al. showed that metabolomic assessment of the microbiome by ultra-performance liquid chromatography and high resolution/tandem mass spectrometry was stable and accurate (albeit with a degree of bias affecting certain metabolite groups) when analysed directly from gFOBT samples but not from FIT samples [22]. This suggests that different methods of sample collection may be more or less appropriate dependent upon the method of microbiome analysis.

These studies have assessed methods of microbiome sample collection from healthy volunteers. Baxter et al. [23] have analysed the microbiome directly from processed FIT from subjects with normal bowels, colorectal adenomas or carcinomas. Their study comes with the caveat that some of the stool samples were collected after bowel preparation and colonoscopy; samples were stored at −80 °C before being thawed and transferred to FIT; FIT was refrigerated for up to 2 days, processed, then stored at −20 °C before being thawed for microbiome analysis. The study demonstrated that a screening model to discriminate between healthy controls and subjects with any colonic lesion had a similar area under the ROC curve whether microbiome analysis was performed directly from FIT samples or whole stool samples.

As an alternative to stool, Westenbrink et al. analysed microbiome-related volatile organic compounds from urine [24] and described a similar sensitivity for the detection of colorectal cancer as gFOBT or FIT.

Conclusion
Research suggests that there is potential for microbiome analysis to both augment and to be integrated with existing screening methods. The landscape of colorectal cancer screening is changing [25]; it seems likely that a more sophisticated, multifactorial screening tool will be adopted. Microbiome analysis is likely to contribute and may even offer information beyond that of screening, e.g. prevention or treatment targets [26]. Furthermore, collection of longitudinal, population-based microbiome data via national screening programmes will transform the field of microbiome research.

References
1. Cancer Research UK (http://www.cancerresearchuk.org).
2. Hewitson P, Glasziou PP, Irwig L, Towler B, Watson E. Screening for colorectal cancer using the faecal occult blood test, Hemoccult. Cochrane Database Syst Rev. 2007; DOI: 10.1002/14651858.CD001216.pub2
3. Schreuders EH, Grobbee EJ, Spaander MC, Kuipers EJ. Advances in fecal tests for colorectal cancer screening. Curr Treat Options Gastroenterol. 2016; 14(1): 152–162.
4. US Preventive Services Task Force, Bibbins-Domingo K, Grossman DC, Curry SJ, Davidson KW, Epling JW Jr, García FA, Gillman MW, Harper DM, et al. Screening for colorectal cancer: US preventive services task force recommendation statement. JAMA 2016; 315(23): 2564–2575.
5. Haggar FA, Boushey RP. colorectal cancer epidemiology: incidence, mortality, survival, and risk factors. Clin Colon Rectal Surg. 2009; 22(4): 191–197.
6. Ou J, Carbonero F, Zoetendal EG, DeLany JP, Wang M, Newton K, Gaskins HR, O’Keefe SJ. Diet, microbiota, and microbial metabolites in colon cancer risk in rural Africans and African Americans. Am J Clin Nutr. 2013; 98(1): 111–120.
7. David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, Ling AV, Devlin AS, Varma Y, et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature 2014; 505(7484): 559–563.
8. Borges-Canha M, Portela-Cidade JP, Dinis-Ribeiro M, Leite-Moreira AF, Pimentel- Nunes P. Role of colonic microbiota in colorectal carcinogenesis: a systematic review. Rev Esp Enferm Dig. 2015; 107(11): 659–671.
9. Sun J, Kato I. Gut microbiota, inflammation and colorectal cancer. Genes Dis. 2016; 3(2): 130–143.
10. Keku TO, Dulal S, Deveaux A, Jovov B, Han X. The gastrointestinal microbiota and colorectal cancer. Am J Physiol Gastrointest Liver Physiol. 2015; 308(5): G351–363.
11. Amiot A, Mansour H, Baumgaertner I, Delchier JC, Tournigand C, Furet JP, Carrau JP, Canoui-Poitrine F, Sobhani I; CRC group of Val De Marne. The detection of the methylated Wif-1 gene is more accurate than a fecal occult blood test for colorectal cancer screening. PLoS One 2014; 9(7): e99233.
12. Amiot A, Dona AC, Wijeyesekera A, Tournigand C, Baumgaertner I, Lebaleur Y, Sobhani I, Holmes E. (1)H NMR spectroscopy of fecal extracts enables detection of advanced colorectal neoplasia. J Prot Res. 2015; 14(9): 3871–3881.
13. Zeller G, Tap J, Voigt AY, Sunagawa S, Kultima JR, Costea PI, Amiot A, Böhm J, Brunetti F, et al. Potential of fecal microbiota for early-stage detection of colorectal cancer. Mol Syst Biol. 2014; 10: 766.
14. Zackular JP, Rogers MA, Ruffin MT 4th, Schloss PD. The human gut microbiome as a screening tool for colorectal cancer. Cancer Prev Res (Phila). 2014; 7(11): 1112–1121.
15. Yu J, Feng Q, Wong SH, Zhang D, yi Liang Q, Qin Y, et al. Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer. Gut 2015; DOI: 10.1136/gutjnl-2015-309800.
16. Baxter NT, Ruffin MT 4th, Rogers MA, Schloss PD. Microbiota-based model improves the sensitivity of fecal immunochemical test for detecting colonic lesions. Genome Med. 2016; 8(1): 37.
17. Liang JQ, Chiu J, Chen Y, Huang Y, Higashimori A, Fang JY, Brim H, Ashktorab H, Ng SC, et al. Fecal bacteria act as novel biomarkers for non-invasive diagnosis of colorectal cancer. Clin Cancer Res. 2016; DOI: 10.1158/1078-0432.CCR-16-1599.
18. Goedert JJ, Gong Y, Hua X, Zhong H, He Y, Peng P, Yu G, Wang W, Ravel J, et al. Fecal microbiota characteristics of patients with colorectal adenoma detected by screening: a population-based study. EBioMedicine 2015; 2(6): 597–603.
19. Sinha R, Chen J, Amir A, Vogtmann E, Shi J, Inman KS, Flores R, Sampson J, Knight R, Chia N. Collecting fecal samples for microbiome analyses in epidemiology studies. Cancer Epidemiol Biomarkers Prev. 2016; 25(2): 407–416.
20. Dominianni C, Wu J, Hayes RB, Ahn J. Comparison of methods for fecal microbiome biospecimen collection. BMC Microbiol. 2014; 14: 103.
21. Taylor M, Wood H, Halloran S, Quirke P. Examining the potential use and long term stability of guaiac faecal occult blood test cards for microbial DNA 16srRNA sequencing. J Clin Pathol. Accepted for publication.
22. Loftfield E, Vogtmann E, Sampson JN, Moore SC, Nelson H, Knight R, Chia N, Sinha R. Comparison of collection methods for fecal samples for discovery metabolomics in epidemiologic studies. Cancer Epidemiol Biomarkers Prev. 2016; 25(11): 1483–1490.
23. Baxter NT, Koumpouras CC, Rogers MA, Ruffin MT 4th, Schloss P. DNA from fecal immunochemical test can replace stool for microbiota-based colorectal cancer screening. Microbiome 2016; 4(1): 59.
24. Westenbrink E, Arasaradnam RP, O’Connell N, Bailey C, Nwokolo C, Bardhan KD, Covington JA. Development and application of a new electronic nose instrument for the detection of colorectal cancer. Biosens Bioelectron. 2015; 67: 733–738.
25. Nguyen MT, Weinberg DS. Biomarkers in colorectal cancer screening. J Natl Compr Canc Netw. 2016; 14(8): 1033–1040.
26. Pitt JM, Vetizou M, Waldschmitt N, Kraemer G, Chamaillard M, Boneca IG, Zitvogel L. Fine-tuning cancer immunotherapy: optimizing the gut microbiome. Cancer Research 2016; 76(16): 4602–4607.

The authors
Caroline Young* MA, BMBCh; Philip Quirke BM, PhD, FRCPath, FMedSci
Wellcome Trust Brenner Building, St James University Hospital, Leeds LS9 7TF, UK

*Corresponding author
E-mail: caroline.young4@nhs.net

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p29 1

Complete laboratory diagnosis of Zika virus infections

, 26 August 2020/in Featured Articles /by 3wmedia

Laboratory diagnosis of Zika virus (ZIKV) infections is based on two main pillars: direct detection of the viral RNA genome and serological detection of anti-ZIKV antibodies. Direct detection of the virus by reverse transcriptase real-time polymerase chain reaction (RT real-time PCR) is the most important method for diagnosing early acute infections. A new RT real-time PCR system with fully automated data evaluation provides highly standardized and streamlined detection of ZIKV RNA. Serology is useful for acute diagnostics as well as for longer term monitoring and epidemiological studies. An ELISA based on ZIKV NS1 antigen provides exceptionally high specificity with virtually no cross reactivity to other flaviviruses.

by Dr Jacqueline Gosink

Introduction
ZIKV has become firmly established in South and Central America and the Caribbean and is increasingly spreading to other parts of the world. The infection is now classified by the World Health Organization as an enduring public health challenge. Nearly one million people in 48 countries have been infected with ZIKV since the beginning of 2015, according to the Panamerican Health Organization. The actual number of cases is presumably much higher, since many infections are mild and go unreported. The virus is transmitted predominantly by mosquitos of the Aedes genus, which are ubiquitous in many topical and non-tropical regions. Transmission by sexual contact is also increasingly described. ZIKV infections are difficult to distinguish clinically from dengue virus (DENV) and chikungunya virus (CHIKV) infections, which manifest with similar symptoms of fever, exanthema and arthritis and are endemic in much the same geographic regions. There is, however, a growing body of evidence linking ZIKV to birth defects in fetuses and newborns and neurological complications such as Guillain-Barré syndrome in adults. Therefore, accurate diagnosis of ZIKV infections and differentiation between acute and past infections is critical for effective patient care.
ZIKV direct detection
The ZIKV RNA genome can be detected during the viremic phase of infection. The viral RNA is detectable for up to around 5 days after the onset of symptoms in serum and up to 10 days in urine. Molecular diagnostic detection is therefore highly effective for early diagnosis of ZIKV infections and discrimination of ZIKV from clinically similar infections such as DENV or CHIKV.
Novel RT real-time PCR assay
A new assay provides fast detection of ZIKV RNA in serum or urine by reverse transcriptase real-time polymerase chain reaction (RT real-time PCR) with fully automated data analysis. The EURORealTime Zika virus test is based on a one-tube reaction, comprising reverse transcription of the viral RNA into complementary DNA (cDNA) followed by PCR amplification and fluorescence-based real-time detection of defined sections of the ZIKV genome. The reverse transcription, amplification and detection of ZIKV cDNA are carried out by means of ZIKV-specific DNA primers and real-time DNA probes. RNA-based internal and positive controls verify the correct performance, integrity and functionality of the complete procedure. Ready-to-use reagents provide added reliability and convenience.
The evaluation of results is fully automated using the EURORealTime Analysis software and is therefore highly standardized and objective. All results, including those of the controls, are documented and archived. The software also supports simple and error-free test performance by guiding every step of the workflow. The entire detection procedure (excluding RNA extraction) takes less than 90 min.
Specifications and evaluation of the EURORealTime Zika virus test
Highest test sensitivity and specificity is ensured by the meticulous design of the primers and probes. Moreover, cross reactivity with other pathogens that may be present in serum or urine samples and/or are closely related to ZIKV has been excluded experimentally.
In clinical evaluation, 29 serum and 26 urine samples from patients with suspected ZIKV infection were analysed using the EURORealTime Zika virus and another CE/IVD-labelled ZIKV test system. There was a positive agreement of 95.2% and a negative agreement of 97.0% between the results obtained with the two tests (Table 1).
ZIKV serology
Serological detection is effective from soon after symptom onset (4-7 days) to beyond convalescence. Serology serves as a supplement to RT-PCR in acute cases. It is especially useful in cases where viral RNA is no longer detectable, for example if the infection is resolved or has moved into the chronic phase. Serological detection is particularly relevant in prenatal diagnostics, sexual healthcare and epidemiological surveys. Pregnant women with serological evidence of an infection can be offered intense prenatal monitoring, while seronegative women may be spared unnecessary worry. Due to the lengthy presence of ZIKV in semen, men who have resided in or travelled in endemic regions are advised to abstain from unprotected sexual intercourse for six months after returning to prevent sexual transmission, especially when their partner is or could be pregnant. Serological testing can be helpful in these cases for excluding or identifying an infection. As ZIKV continues to move into previously unaffected areas, epidemiological studies using serological methods can help to monitor the spread of the virus and probe its associated complications.
Relevance of immunoglobulin classes
Primary acute ZIKV infections are generally characterized by the occurrence of specific IgM antibodies, with IgG appearing at the same time or shortly afterwards. IgM can remain detectable for several months, while IgG is assumed to persist lifelong. Detection of specific IgM or a rise in the specific IgG titre in a pair of samples taken at least 7 to 10 days apart is evidence of an acute infection.
In secondary flavivirus infections, for example following a previous vaccination or infection with another flavivirus, specific IgM is often found at a low or undetectable titre. Therefore, additional tests like the detection of IgG or plaque reduction neutralization test are recommended.
Specific IgA may also be useful for diagnostics. In secondary flavivirus infections synthesis of IgG is rapidly stimulated. Shortly after infection the IgG titre levels off and is indistinguishable from IgG titres in convalescent infections, making seroconversion difficult to detect. This pattern has been observed in ZIKV patients from regions endemic for other flaviviruses. IgA has recently been proposed as a putative additional marker of acute infection in cases where IgM is not detectable and the IgG titre is already high.
Highly specific NS1-based ZIKV ELISA
Serological diagnosis of ZIKV is challenging due to the high cross-reactivity between flavivirus antibodies. This obstacle has been overcome by the use of recombinant non-structural protein 1 (NS1) from ZIKV as the antigenic substrate in ELISA. Use of this antigen avoids the cross-reactivity typically associated with tests based on whole virus antigens or viral glycoproteins. The NS1-based ELISA provides highly sensitive and specific ZIKV diagnostics, as demonstrated in numerous studies.
Clinical evaluation of IgM/IgG ELISA
The NS1-based Anti-Zika Virus ELISA was used to examine anti-ZIKV antibodies of classes IgG and IgM in various serum panels. In samples from patients with RT-PCR-confirmed infections (n=71), taken 5 days or more after symptom onset, the sensitivity of the test amounted to 100% for IgG/IgM (Table 2) (1). In a panel of blood donors the specificity of the ELISA was 99.8%.
In studies with a total of over 450 patients harbouring other arboviral infections, including DENV, CHIKV, tick-borne encephalitis virus (TBEV), West Nile virus (WNV), Japanese encephalitis virus (JEV), and individuals vaccinated against yellow fever virus (YFV) or TBEV, the specificity lay between 96% and 100% (Table 3) (1, 2). In particular, a specificity of 100% was observed in DENV- and CHIKV-infected patients, demonstrating the suitability of the ELISA for discriminating these infections. In a further study (3) the Anti-Zika Virus ELISA showed no cross reactivity (100% specificity) in sera from patients with early convalescent DENV infections or suspected secondary DENV infections.
Usefulness of IgA testing
In a recent study investigating the diagnostic usefulness of IgA antibodies, anti-ZIKV antibodies of class IgA, IgM and IgG were analysed at serial time points in patients with confirmed ZIKV infections (4, 5). In two German travellers, IgM was detected early in infection as expected, followed by IgG seroconversion. IgA antibodies showed an initial increase and subsequent decrease. In two Columbian patients with a presumptive background of past flavivirus infection, IgM was persistently below the cut-off in both NS1-based and full virus-based tests, while IgG was already positive within the first week. Analysis of IgA in these patients demonstrated a titre increase, which peaked above the cut-off in week three and four before dropping below the threshold again (Figure 1). Thus, specific IgA may be useful for the diagnosis of acute infections and discrimination from past infections in IgM-negative patients.
Clinical evaluation of IgA ELISA
The NS-1-based Anti-Zika Virus ELISA was used to analyse anti-ZIKV antibodies of class IgA in Columbian patients (n=31) seven to ten days after positive ZIKV RT-PCR. 29 of the patients were positive for anti-ZIKV IgA, representing a sensitivity of 94%. The specificity of the IgA ELISA amounted to 97% in a control panel of German travellers with confirmed DENV infections and 100% in healthy blood donors and patients with other diseases. With the IgA ELISA, as with the IgM and IgG ELISAs, cross reactivity with antibodies against other flaviviruses, including DENV, TBEV, JEV, WNV and YFV, is almost completely avoided.
Differential diagnostics by IIFT
The indirect immunofluorescence test (IIFT) based on virus-infected cells offers an alternative sensitive screening assay for ZIKV antibodies. Automated microscopy and evaluation of results using the EUROPattern system streamlines the procedure. The ZIKV substrate can be combined with other substrates as a BIOCHIP mosaic, enabling potential cross-reactive antibodies or relevant differential diagnostic parameters to be investigated in parallel. In addition to ZIKV, available substrates include DENV (serotypes 1, 2, 3 and 4) and other flaviviruses (e.g. TBEV, YFV and JEV), as well as other arboviruses (e.g. CHIKV). Endpoint titration of the patient serum provides an indication of the virus causing the infection. As cross reactivity is common in patients with secondary flavivirus infections, BIOCHIP flavivirus mosaics are most useful for patients in non-epidemic countries, for example travellers returning from epidemic regions.
Perspectives
The swift development of sensitive and specific tests for ZIKV antibodies and ZIKV RNA has facilitated the diagnosis and surveillance of this rapidly emerging disease. The EUROIMMUN Anti-Zika Virus ELISA based on NS1 antigen is currently the only commercial serological test whose extremely high specificity has been described in various publications. It is, moreover, the first commercial serological ZIKV test to receive CE Mark (Europe; IgA, IgM and IgG) and ANVISA (Brazil; IgM, IgG, soon also IgA) registrations. The assay is fully automatable, making it ideal for high-throughput application in a routine setting. For direct detection of viral RNA, the new EURORealTime Zika virus test provides software-supported test performance and fully automated result evaluation and documentation, in contrast to many manual ZIKV RT-PCR tests. As ZIKV will likely remain a global health challenge in the foreseeable future, state-of-the-art test systems like these are crucial for monitoring the spread, improving diagnosis and elucidating the mechanisms of this challenging emerging disease.
References
1. Steinhagen et al. Euro Surveill. 2016 15;21(50). pii: 30426.
2. Huzly et al. Euro Surveill 2016;21(16):pii=30203.
3. Granger et al. Poster at the 32nd Clinical Virology Symposium (Florida, USA) 2016
4. Steinhagen et al. Poster at the IMED International Meeting on Emerging Infectious Diseases and Surveillance (Vienna, Austria) 2016
5. Steinhagen et al. Poster at the 1st International Conference on Zika Virus (Washington DC, USA) 2017
The author
Jacqueline Gosink, PhD
EUROIMMUN AG, Seekamp 31,
23560 Luebeck, Germany

www.euroimmun.com

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C285 Figure 1

New developments in the early diagnosis of ovarian cancer

, 26 August 2020/in Featured Articles /by 3wmedia

Ovarian cancer is difficult to diagnose early, with consequent poor survival. Evidence suggests many cases may originate in precursor lesions in the fallopian tubes. Differential expression of specific proteins in the fallopian tubes of women with high-grade serous ovarian cancer, detected by immunohistochemistry, shows promise as a potential novel diagnostic marker.

by Dr Kezia Gaitskell and Prof. Ahmed Ashour Ahmed

Background
Ovarian cancer is the seventh greatest cause of cancer mortality amongst women worldwide, and the fifth greatest cause amongst women in more developed regions [1]. In the USA, 60% of women with ovarian cancer already have distant metastases at diagnosis, for which the 5-year survival is less than 30% [2]. Early clinical diagnosis of ovarian cancer is difficult, as symptoms are often non-specific, such as abdominal distention, urinary frequency, or abdominal pain [3].

Current evidence on ovarian cancer diagnosis and screening
Diagnostic investigations include imaging (e.g. ultrasound, CT or MRI of the pelvis and abdomen), together with blood tests for tumour markers – particularly cancer antigen 125 (CA-125) [4]. However, although CA-125 is the main biomarker used in the diagnosis of ovarian cancer, it is far from perfect in sensitivity and specificity: although approximately 80% of women with epithelial ovarian cancer will have a CA-125 concentration above the cut-off value of 35 IU/mL, CA-125 may also be elevated with other cancers (including liver, pancreatic, lung, and endometrial cancers), and physiological or benign conditions (including menses, pregnancy, cirrhosis, salpingitis, pancreatitis and endometriosis) [5].

A variety of additional putative tumour markers have been suggested for use in combination with CA-125, but current guidelines from the National Comprehensive Cancer Network in the USA are that there is insufficient evidence for their usefulness in detecting early-stage ovarian cancer [4], although the European Group on Tumor Markers suggests that human epididymis protein 4 (HE4) may be helpful for the differential diagnosis of pelvic masses, particularly in premenopausal women [5].

There has been considerable interest in finding markers of early disease, that could enable earlier diagnosis or screening for ovarian cancer. Two large randomized controlled trials have been performed of screening for ovarian cancer: the Prostate, Lung, Colorectal and Ovarian Cancer Screening Trial (PLCO) in the USA [6], and the UK Collaborative Trial of Ovarian Cancer Screening (UKCTOCS) in the UK [7]. Both trials randomized women to either no screening, or screening with the CA-125 blood test with or without trans-vaginal ultrasound. Unfortunately, neither trial could demonstrate a clear mortality benefit with screening, although there was a suggestion of benefit in some secondary analyses in the UKCTOCS trial [7].

New hypotheses of the origins of ovarian cancer
The search for potential early markers of ovarian cancer is also affected by the increasing evidence of heterogeneity between the tumour subtypes. Ovarian cancer has traditionally been divided into subtypes on the basis of microscopic morphology, the most common types being serous, endometrioid, clear cell, and mucinous tumours. There is growing evidence that these different histological tumour subtypes have different characteristic genetic mutations, and may have distinct origins [8, 9]. In particular, there is evidence that many cases of high-grade serous ovarian cancer (the most common subtype) may arise from precursor lesions in the fallopian tube epithelium, known as serous tubal intraepithelial carcinoma (STIC) (reviewed by Nik et al. [10]). These STIC lesions show dysplastic morphological changes, and also tend to show the mutations in the tumour-suppressor gene TP53 that are characteristic of high-grade serous ovarian carcinoma, and increased expression of the proliferation marker Ki-67. There is also evidence that some cases of endometrioid and clear cell ovarian cancer (less common subtypes) may arise from endometriosis (reviewed by Munksgaard & Blaakaer [11]). The origins of low-grade serous tumours and mucinous carcinomas are less certain, although several hypotheses exist.

The hypothesis that many, if not most, high-grade serous ‘ovarian’ cancers may in fact arise from the fallopian tubes has led to increasing interest in exploring changes in the fallopian tubes as potential early markers. The discovery of STIC lesions is interesting in terms of improving our understanding of pathogenesis, but is not currently useful for identifying changes early in malignancy, or pre-malignancy, in clinical practice. One limitation is that STIC lesions tend to be very focal, and are most common at the fimbrial end of the fallopian tubes, adjacent to the ovary, which is difficult to access without surgical removal of the fallopian tubes.

New findings regarding the role of SOX2
We investigated increased expression of SOX2, a key stem cell differentiation gene, as a possible marker of high-grade serous carcinogenesis within the fallopian tubes. We chose SOX2 because work from our group had shown that mutations at several sites near the SOX2 gene were ubiquitous in samples of ovarian cancer taken from multiple locations and time points in a single patient, indicating that they acted as early ‘driver’ mutations [12]. We showed that SOX2 expression (detected using immunohistochemistry) was significantly increased in the fallopian tube epithelial cells of women with high-grade serous ovarian cancer, compared to women with endometrial cancer or benign disease (e.g. uterine fibroids) [12], as illustrated in Figure 1.

We also found that SOX2 expression in the fallopian tubes was significantly increased in women with germline mutations in the tumour suppressor genes BRCA1 and BRCA2, who are known to be at higher risk of breast and ovarian cancer [12]. These women with BRCA1/2 mutations had their ovaries and fallopian tubes removed to reduce their subsequent risk of cancer, but did not have evident cancer at the time of surgery. Thus, the finding that elevated SOX2 expression was detectable in their fallopian tubes suggests that increased SOX2 expression may be an early sign of precancerous changes within the fallopian tubes.

Potential future implications
Our observation that SOX2 expression is increased in the fallopian tube epithelial cells of women with high-grade serous ovarian cancer, and women with BRCA1/2 mutations, compared to women with other cancers or benign disease, suggests that SOX2 might have a potential role as a biomarker in the early diagnosis of ovarian cancer. However, several challenges remain before testing for SOX2 expression could be considered in clinical practice – particularly the anatomical difficulty of sampling the fallopian tube epithelium without invasive surgery, and the fact that SOX2 is a nuclear marker. Our research group is currently exploring other potential cell-surface markers that correlate with SOX2 expression, which might be easier to detect.

Summary
There are many challenges in the early diagnosis of ovarian cancer. New evidence of the possible tubal origins of high-grade serous ovarian cancer is changing the approach to identifying potential new biomarkers of early disease. SOX2 has emerged as a promising marker, but further work is needed before it would be suitable for routine clinical practice.

References
1. Ferlay J, Soerjomataram I, et al. GLOBOCAN 2012 v1.0: Estimated cancer incidence and mortality worldwide in 2012. International Agency for Research on Cancer/World Health Organization 2013 (http://globocan.iarc.fr/Default.aspx).
2. Howlader N, Noone AM, et al. Cronin KA (eds). SEER Cancer Statistics Review, 1975-2013. National Cancer Institute, Bethesda, MD, USA 2016 (http://seer.cancer.gov/csr/1975_2013/).
3. Hamilton W, Peters TJ, et al. Risk of ovarian cancer in women with symptoms in primary care: population based case-control study. BMJ 2009; 339: b2998.
4. National Comprehensive Cancer Network. NCCN Clinical Practice Guidelines in Oncology (NCCN Guidelines): Ovarian cancer including fallopian tube cancer and primary peritoneal cancer, Version 1.2016. Ft. Washington, PA, USA. National Comprehensive Cancer Network 2016 (https://www.nccn.org/professionals/physician_gls/pdf/ovarian.pdf).
5. Soletormos G, Duffy MJ, et al. Clinical use of cancer biomarkers in epithelial ovarian cancer: updated guidelines from the European group on tumor markers. Int J Gynecol Cancer 2016; 26(1): 43–51.
6. Buys SS, Partridge E, et al. Effect of screening on ovarian cancer mortality: the Prostate, Lung, Colorectal and Ovarian (PLCO) Cancer Screening Randomized Controlled Trial. JAMA 2011; 305(22): 2295–2303.
7. Jacobs IJ, Menon U, et al. Ovarian cancer screening and mortality in the UK Collaborative Trial of Ovarian Cancer Screening (UKCTOCS): a randomised controlled trial. Lancet 2016; 387(10022): 945–956.
8. Kurman RJ, Shih IeM. Molecular pathogenesis and extraovarian origin of epithelial ovarian cancer–shifting the paradigm. Hum Pathol. 2011; 42(7): 918–931.
9. Prat J. Ovarian carcinomas: five distinct diseases with different origins, genetic alterations, and clinicopathological features. Virchows Arch. 2012; 460(3): 237–249.
10. Nik NN, Vang R, et al. Origin and pathogenesis of pelvic (ovarian, tubal, and primary peritoneal) serous carcinoma. Annu Rev Pathol. 2014; 9: 27–45.
11. Munksgaard PS, Blaakaer J. The association between endometriosis and ovarian cancer: a review of histological, genetic and molecular alterations. Gynecol Oncol. 2012; 124(1): 164–169.
12. Hellner K, Miranda F, et al. Premalignant SOX2 overexpression in the fallopian tubes of ovarian cancer patients: discovery and validation studies. EBioMedicine 2016; 10: 137–149.

The authors
Kezia Gaitskell*1,2 BM BCh; Ahmed Ashour Ahmed1,2 MBBCh, MRCOG, PhD
1Ovarian Cancer Cell Laboratory, Weatherall Institute of Molecular Medicine, University of Oxford, Headington, Oxford OX3 9DS, UK
2Nuffield Department of Obstetrics and Gynaecology, University of Oxford, Women’s Centre, John Radcliffe Hospital, Oxford OX3 9DU, UK

*Corresponding author
E-mail: Kezia.gaitskell@ceu.ox.ac.uk

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Opinion versus facts: the need for evidence-based medicine

, 26 August 2020/in Featured Articles /by 3wmedia

Charlie Gard, who recently died just before his first birthday, was admitted to Great Ormond Street Hospital (GOSH) when he was two months old. Founded 265 years ago, and classed as one of the top four pediatric hospitals globally, GOSH has a dedicated international workforce, including some of the world’s leading doctors, surgeons and pediatric nurses. As well as offering tireless and expert care for its young patients, GOSH is involved in over 800 research projects.
Charlie was provisionally diagnosed with mitochondrial DNA depletion syndrome (MDDS) soon after admission, and genetic tests confirmed the diagnosis. The baby had two mutations affecting his RRM2B gene, preventing the synthesis of ribonucleotide reductase, an enzyme that plays a key role in maintaining the mitochondrial deoxinucleotide triphosphate pool needed for mitochondrial DNA synthesis. Only 15 other patients have been described with RRM2B mutations in the medical literature: in all cases rapid encephalopathy and muscle breakdown caused death within a few months of onset. A team of GOSH experts did consider experimental nucleoside bypass therapy (NBT) when the baby was five months old (ethical approval was first necessary), but they concluded that his rapidly deteriorating condition did not warrant such an intervention.
One can sympathize with the child’s parents as they desperately searched for a possible cure for their terminally ill infant, waging a protracted litigation to have him treated with experimental NBT in the US by Columbia University’s Dr Michio Hirano. One cannot, however, condone the belligerent demands of around 200, 000 members of the medically ignorant public that Charlie be released from experts at GOSH, or the interventions of ill-informed public figures such as Donald Trump and even the Pope.
Dr Hirano claimed that NBT – he ‘retains a financial interest’ in the compounds he prescribes – could benefit the patient. His relevant work concerns the TK2 mutation, a more frequent cause of MDDS with a more varied prognosis. His team has recently published a paper showing that NBT is beneficial in TK2 deficient mice, and 18 patients, mostly in Italy and Spain, are undergoing experimental treatment. No peer-reviewed papers on patient prognosis have yet been published, and there are no ongoing clinical trials with NBT. Furthermore without seeing Charlie, the GOSH team or medical notes until the child was already 11 months old, Dr Hirano (and the popular press) blamed the legal procedure, declaring that it was now too late for treatment!
An evidence-based cure for MDDS is surely needed: hopefully that will be Charlie’s legacy.

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C328 Saeed fig1

MTHFR, hyperhomocysteinemia, CAD and T2DM

, 26 August 2020/in Featured Articles /by 3wmedia

Individuals with type 2 diabetes mellitus (T2DM) are at increased risk of coronary artery disease (CAD). The C677T mutation of the methylenetetrahydrofolate reductase (MTHFR) gene is associated with elevated plasma levels of homocysteine. The association of the MTHFR gene and the level of homocysteine with development of CAD has been studied in various population groups, including patients with T2DM, but the results have been variable. In practice, plasma homocysteine may be ordered as part of a screen for people with CAD or stroke, or who are at high risk for CAD or stroke but no other known risk factors. Testing of C677T polymorphism with or without elevated homocysteine is not recommended and has no clinical utility.

by Prof. Bakri Saeed and Dr Nisreen Mohammed

Type 2 diabetes mellitus and coronary artery disease
Type 2 diabetes mellitus (T2DM) is a major health problem throughout the world. It is a polygenic and multifactorial disease that is a major risk factor for cardiovascular disease. Cardiovascular disease (CVD) comprises coronary artery disease (CAD), also referred to as coronary heart disease (CHD), or ischemic heart disease (IHD), and cerebrovascular disease.

CAD due to atherosclerosis is a cause of significant morbidity and mortality, and is the leading cause of death worldwide. There are several risk factors for CAD. The well-stablished risk factors for CAD include diabetes mellitus, hypertension, smoking and dyslipidemia. There is growing interest in emerging risk factors for improved understanding of the mechanisms that underline cardiovascular disorders and CAD.

T2DM increases the risk for CAD by 2–4-fold compared to people without diabetes. CVD accounts for about 70% of deaths in people with diabetes. Identification and management of risk factors for CAD is an important aspect of management of diabetes mellitus.
Hyperhomocysteinemia and MTHFR polymorphism
Homocysteine is a sulfur-containing amino acid formed from demethylation of methionine. Methionine is the precursor to S-adenosyl methionine (SAMe) and is one of the essential amino acids. SAMe is a major methyl donor and is involved in numerous biological reactions. Homocysteine is metabolized by either remethylation to methionine or transsulfuration to cystathionine. The former reaction is catalysed by the vitamin B12-dependent methionine synthase. The latter reaction is catalysed by the enzyme cystathionine beta-synthase, which requires vitamin B6.

The methyl donor in the remethylation of homocysteine to methionine is 5-methyltetrahydrofolate. The 5,10-methylene-tetrahydrofolate reductase (MTHFR) enzyme catalyses the reduction of 5,10-methylene-tetrahydrofolate to 5-methyltetrahydrofolate. The enzyme requires B2 (riboflavin) as a cofactor (Fig. 1).

Therefore, hyperhomocysteinemia can result from reduced activity of the enzymes involved in homocysteine metabolism or from deficiency of the vitamins which are needed as cofactors in homocysteine metabolic reactions: folate, vitamin B6 and vitamin B12.

Several mutations in the MTHFR gene have been identified and some of them affect the activity of the enzyme. The commonest MTHFR gene mutation is a cytosine-to-thymidine substitution at nucleotide 677 (C677T), which changes alanine into valine, resulting in a thermolabile enzyme with impaired enzymatic activity and leading to hyperhomocysteinemia.

There are two copies of each gene. Therefore, an individual can be homozygous for the mutated gene or can be heterozygous, having one copy of the C677T variant and one normal copy. The C677T homozygous variant enzyme is thermolabile and demonstrates 70% reduced enzyme activity in vitro. The heterozygous C677T MTHFR enzyme has 35% reduced activity in vitro.

Worldwide, the frequency of MTHFR gene mutations varies among racial and ethnic groups, in Africa MTHFR gene polymorphism is markedly low (below 10%) for the C677T allele. In the European and Asian population, estimates of 18.6% and 20.8% were reported [1].

Association with CAD
In recent years hyperhomocysteinemia has been implicated as a risk factor for CAD, independent of other known risk factors. The primary mechanism by which homocysteine promotes atherosclerosis is by impairing endothelial function, which initiates the chain of events resulting in atherosclerotic plaque formation.

Numerous studies looked into the possible association between MTHFR genotypes and plasma homocysteine levels and the incidence of different MTHFR genotypes and hyperhomocysteinemia in CAD patients [2–5]. The results of these studies have been controversial. Several studies have shown the link between the MTHFR C677T gene polymorphism and the risk for CAD but many other studies failed to show association between MTHFR genotypes and plasma homocysteine levels and their role in CAD.

Previous studies in T2DM patients were also controversial. MTHFR polymorphism and hyperhomocysteinemia were shown to be predictors of cardiovascular events among diabetic patients [6, 7], whereas other studies failed to show a role for MTHFR polymorphic variants and homocysteine in increasing susceptibility to cardiovascular disease [8, 9].

Our study
We recently screened 226 consecutive patients with T2DM, <60 years of age, diagnosed according to WHO criteria. Of these, 113 had CAD confirmed by angiography and electrocardiography (ECG) and 113 had no evidence of CAD [10]. PCR and restriction fragment length polymorphism (RFLP) using Hinf1 restriction enzyme were used to determine MTHFR genotypes.

In our study, the T allele had a significant effect on homocysteine level (P value <0.05) and showed strong association with CAD among T2DM patients (odds ratio 6.2, P <0.0001).

Our study indicates that the C677T polymorphism of the MTHFR gene is associated with hyperhomocysteinemia, and the two are independently associated with the presence of CAD in patients with T2DM.

Reasons for controversy
The outcome of these numerous studies and meta-analysis remained contradictory. There was no agreement on the association between MTHFR genotypes and plasma homocysteine levels or the incidence of different MTHFR genotypes and hyperhomocysteinemia in CAD patients.

Plasma homocysteine levels are dependent on interacting nutritional and genetic factors. Some studies suggested that people homozygous for MTHFR C667T polymorphism tend to have hyperhomocysteinemia in the context of low folic acid levels. Supplementation with the vitamins involved in homocysteine metabolism was found to lower plasma homocysteine levels.

Therefore, geographic heterogeneity, nutritional and environmental factors could affect the relationship between MTHFR genotypes and CVD risk in different populations.

Practical points
Homocysteine may be ordered as part of a screen for people with or at high risk of CAD or stroke, especially if there is family history of CAD or stroke but no other known risk factors, such as diabetes, smoking, hypertension, or dyslipidemia. Routine screening of homocysteine, like that of cholesterol, has not been recommended.

Plasma homocysteine concentration may be elevated in B12 and folate deficiency and its measurement has been suggested to give an early indicator of deficiency.

In new-born testing, greatly increased concentrations of homocysteine in the urine and blood suggests a diagnosis of homocystinuria and indicates the need for confirmation of the cause of raised levels.

Most laboratories report normal homocysteine levels in the blood between 5 and 15 µmol/L. Any measurement above 15 µmol/L is considered high.

However, it should be noted that normal levels will vary between ethnic groups and populations. Homocysteine levels increase with age, are lower in pregnancy and are influenced by drugs. These factors should be taken into consideration when interpreting results.

Testing of C677T polymorphism with or without elevated homocysteine is not recommended in patients with CAD or other diseases where MTHFR variants have been implicated, such as thrombophilia or recurrent pregnancy loss.
References
1. Schneider JA, Rees DC, Liu YT, Clegg JB. Worldwide distribution of a common methylenetetrahydrofolate reductase mutation. Am J Hum Genet 1998; 62: 1258–1260.
2. Chehadeh SWEH, Jelinek HF, Al Mahmeed WA, Tay GK, Odama UO, Elghazali GE, et al. Relationship between MTHFR C677T and A1298C gene polymorphisms and complications of type 2 diabetes mellitus in an Emirati population. Meta gene 2016; 9: 70–75.
3. Bickel C, Schnabel R, Zengin E, Lubos E, Rupprecht H, Lackner K, et al. Homocysteine concentration in coronary artery disease: Influence of three common single nucleotide polymorphisms. Nutr Metab Cardiovascular Dis 2017; 27(2): 168–175.
4. Yilmaz H, Isbir S, Agachan B, Ergen A, Farsak B, Isbir T. C677T mutation of methylenetetrahydrofolate reductase gene and serum homocysteine levels in Turkish patients with coronary artery disease. Cell Biochem Funct 2006; 24(1): 87–90.
5. Meisel C, Cascorbi I, Gerloff T, Stangl V, Laule M, Müller JM, et al. Identification of six methylenetetrahydrofolate reductase (MTHFR) genotypes resulting from common polymorphisms: impact on plasma homocysteine levels and development of coronary artery disease. Atherosclerosis 2001; 154(3): 651–658.
6. Lewis SJ, Ebrahim S, Smith GD. Meta-analysis of MTHFR 677C→T polymorphism and coronary heart disease: does totality of evidence support causal role for homocysteine and preventive potential of folate? BMJ 2005; 331(7524): 1053–1058.
7. Bennouar N, Allami A, Azeddoug H, Bendris A, Laraqui A, El Jaffali A, et al. Thermolabile methylenetetrahydrofolate reductase C677T polymorphism and homocysteine are risk factors for coronary artery disease in Moroccan population. J Biomed Biotechnol 2007(1); 80687.
8. Bahadır A, Eroz R, Türker Y. Does the MTHFR C677T gene polymorphism indicate cardiovascular disease risk in type 2 diabetes mellitus patients? Anatolian J Cardiol 2015; 15(7): 524–530.
9. Rahimi Z, Nomani H, Mozafari H, Vaisi-Raygani A, Madani H, Malek-Khosravi S, et al. Factor V G1691A, prothrombin G20210A and methylenetetrahydrofolate reductase polymorphism C677T are not associated with coronary artery disease and type 2 diabetes mellitus in western Iran. Blood Coagul Fibrinolysis 2009; 20(4): 252–256.
10. Mohammed NO, Ali IA, Elamin BK and Saeed BO. The association of methylenetetrahydrofolate reductase gene polymorphism and hyperhomocysteinaemia with coronary artery disease in Sudanese patients with type 2 diabetes. Poster at Focus 2017, Association of Clinical Biochemistry annual meeting.

The authors

Bakri Osman Saeed*1 PhD, MD, FRCPath, FRCP; Nisreen Osman Mohamed2 PhD
1Faculty of Medicine, Sudan International University, Khartoum, Sudan
2Ahfad Centre for Science and Technology, Ahfad University for Women, Khartoum, Sudan

*Corresponding author
E-mail: saeedbakri@hotmail.com

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