dispatches from Rapid Methods Europe 2016

From DNA sequencing and metagenomics to mycotoxins and GMOs at RME

FoodQualityNews’ round-up of Rapid Methods Europe 2016

Novel foodborne pathogen techniques and geographic origin determination methods as well as work from EU projects were presented at Rapid Methods Europe in Amsterdam.

FoodQualityNews was a media partner at the conference which focussed on microbiological and chemical analysis of food, feed and water.

Rachel Glover of Fera said microbial ecology methods (metabarcoding) can profile all species in a food sample unique to the environment it was prepared in whereas DNA barcoding looks at one thing.

She said they were looking at the Oxford Nanopore MinION device and cited work from the University of Nottingham on a novel technique for selective DNA sequencing, called ‘Read Until’.

Glover added ongoing work includes looking at oysters to see if they come from where they claim and fungal and bacterial metabarcoding of stilton cheese to find where it is produced.

Fera Science previously told us about a service using Whole Genome Sequencing (WGS) to identify the source and trace the route of bacterial contamination called OriGen.

REIMS, MALDI-TOF and metagenomics

Sara Stead of Waters Corporation said Rapid evaporative ionisation MS (REIMS) can be used for characterisation of water containing food.

Proof of principle applications have been developed for detection of undeclared ingredients in processed foods and product authenticity such as Mortadella di Bologna (an Italian sausage) or geographical origin of pistachio nuts and botanical origin of monofloral honey.

She said mass spectrometry methods have been considered to be slow and expensive with extensive sample preparation procedures but ambient ionisation MS (AIMS) improved this situation.

Waters is looking at microorganisms with Imperial College London and at automation with Tecan’s Pickolo colony-picker and Freedom EVO platform.

The firm acquired REIMS from MediMass a company created by Imperial’s Professor Zoltan Takats.

Annegret Manning, of Chemisches und Veterinäruntersuchungsamt Stuttgart (CVUAS), said it is looking at matrix assisted laser desorption/ionisation time of flight mass spectrometry (MALDI-TOF MS) from Bruker.

It is building a database with more than 50 data entries of different animal species (beef, pork, chicken) as no commercial one exists for identification of animal species.

Luca Cocolin, from the University of Torino, said it was important to use correct terminology when referring to new methods.

Studying the microbial ecology of foods can use approaches based on next generation sequencing (NGS) such as metagenetics (or 16S rRNA metagenomics) and metagenomics.

Cocolin said the information from these methodologies is ‘very different’ and must be taken into account to avoid misinterpretation of the data.

Metagenetics is a PCR-based methodology which can reveal the ecology of an ecosystem based on the primers used for amplification.

Metagenomics reaches the ecological description by isolating sequences belonging to the rRNA genes and catalogues the genes present in the microbial ecosystem.

Karsten Haupt, from Sorbonne University, presented on molecularly imprinted polymers (MIPs) which are synthetic antibody mimics that recognise molecular targets.

The functional nanomaterials could be used in sample preparation, immunoassays and biosensors.

Miguel Angel Pardo, from AZTI-Tecnalia, presented on recombinase polymerase amplification (RPA) to control integrity of food products.

He said PCR requires precise temperature control and rapid thermocycling steps at dissociation (95 degrees Celsius), annealing (55-65) and elongation (70).

Three isothermal amplifications have been described: LAMP, nicking enzyme amplification reaction (NEAR) and helicase-dependant amplification (HDA) but HDA and NEAR require an initial denaturation step at 95 degrees and LAMP needs complex primer designs.

RPA helps the binding of oligonucleotide primers to template DNA, said Angel Pardo.

It is suitable to discriminate food ingredients within 15 minutes excluding DNA isolation, he added.

EU project work

Esther Kok from RIKILT Wageningen University and Research, said polymerase chain reaction (PCR) is still the gold standard sometimes complemented by DNA sequencing.

Amplification strategies such as loop-mediated isothermal amplification (LAMP) or digital (droplet) PCR and sequencing like single molecule and restriction site-associated (RAD) sequencing with related bioinformatics tools are some methods.

Presenting work on the DECATHALON EU project, she said methods are becoming more diverse, from hand-held and point of use devices to lab-based screening strategies.

Marko Bohanec, of the Jozef Stefan Institute, talked about the development of SIGMO (System for Identification of GM Organisms).

It assesses the likelihood that a food product contains authorised or unauthorised GM materials based on traceability and analytical data about the product.

The software was developed as part of the DECATHALON project so work is ongoing to extend it as a stand-alone and how to maintain it as the project has ended.

MycoKey will deliver an ICT tool to address mycotoxin contamination along the food and feed chain by 2019.

The EU project is holding a conference, with the MyToolBox consortium, on reduction of mycotoxin in Ghent, Belgium 11-14 September.

MycoKey, funded by European Commission under Horizon 2020 programme, has 32 partners from Europe, China, Nigeria and Argentina.

MyToolBoxinvolves 23 partners from 11 countries and is co-ordinated by the University of Natural Resources and Life Sciences (BOKU) in Vienna.

Diego L. Garcia-Gonzalez, from the Instituto de la Grasa of CSIC, explained how Fourier Transform mid infrared spectroscopy (FTIR) with attenuated total reflectance (ATR) was applied to characterise vinegars in the FoodIntegrity project.

He said vinegar is considered as a high quality product with some registered as Protected Designation of Origin (PDO).

Peter Cockburn of the Scotch Whisky Research Institute also presented work as part of the same EU project.

SpiritsEurope, another partner in the project, said according to estimates, the market share of counterfeit European products is around 25% of all imported spirits sold in China.

In Bulgaria, illicit spirits are believed to make up more than 50% of domestic spirit consumption, added the association.

Cockburn said there is Generic Authenticity – trading on the quality associated with a category of spirit drink and Brand Authenticity – trading on the quality from a brand of spirit drink.

He added not one tool fits all with GC-FID, HPLC-UV, GC-MS and IC with PAD among techniques used.

Ocean Optics’ UV-VIS spectrometer, Rida Cube from R-Biopharm, Snap 50 from Anton Paar and Torion T-9 GC-MS from PerkinElmer are examples of other systems used.

Related News

Picture: iStock

Qiagen and CosmosID launch metagenomics analysis plugin

Picture: Oxford Nanopore Technologies. MinION

Funds will help us expand in Asia - Oxford Nanopore

Resphera Insight and CosmosID tools were used for high-resolution profiling of 16S rRNA amplicons and whole genome shotgun data. Picture: iStock

FDA explores Listeria growth and detection in ice cream

Picture: iStock

‘Allegation our chicken is only 50% chicken is 100% wrong’ - Subway

©Waters. Direct analysis MS data are imported into LiveID. A total ion chromatogram from 10 collections (upper) and an example MS spectrum (lower) combined from area in orange

Software enables real-time info on samples - Waters

FoodSmartphone, MyToolBox, LAMP at RME

Research round-up: Rapid Methods Europe 2016 special

FQN at BVL, EHEDG and RME in next few weeks. ©iStock/06photo

FQN hits the road to bring you food safety news

The tech will be used in molecular detection of infectious agents in animals, food and water. Picture: iStock

Meridian expands technology license to animal, food and water testing

Picture: Krone

Krone tackles micro-organisms while on the move

© iStock/nikesidoroff

Parameters to assess performance of dPCR assays

DNAble detection kit for Salmonella

EnviroLogix’s Salmonella assay backed by AOAC

Related Products

See more related products

Submit a comment

Your comment has been saved

Post a comment

Please note that any information that you supply is protected by our Privacy and Cookie Policy. Access to all documents and request for further information are available to all users at no costs, In order to provide you with this free service, William Reed Business Media SAS does share your information with companies that have content on this site. When you access a document or request further information from this site, your information maybe shared with the owners of that document or information.