Development of a DNA metabarcoding method for the identification of fifteen mammalian and six poultry species in food

Dobrovolny, Stefanie; Blaschitz, Marion; Weinmaier, Thomas; Pechatschek, Jan; Cichna‐Markl, Margit; Indra, Alexander; Hufnagl, Peter; Hochegger, Rupert

doi:10.1016/j.foodchem.2018.08.032

Cited by 46 publications

(34 citation statements)

References 29 publications

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“…DNA library preparation was performed in a two-step PCR process with a dual-indexing principle according the “16S Metagenomics Sequencing Library Preparation” protocol from Illumina and modifications described by Dobrovolny et al [12] The sequencing reaction was performed on an Illumina MiSeq ® platform (San Diego, California, USA) using a 300-cycle MiSeq® Reagent Kit. Further data analysis and processing steps were implemented in the Galaxy workflow [12, 13]. The de novo assembly of the obtained sequences was performed using Geneious ® software (Version 10.1.3).…”

Section: Methodsmentioning

confidence: 99%

Apple chlorotic fruit spot viroid: a putative new pathogenic viroid on apple characterized by next-generation sequencing

et al. 2019

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Viroid-like symptoms were observed in 2016 on apple fruits of the cultivar “Ilzer Rose” in southern Burgenland, Austria. Preliminary molecular biological investigations indicated that the symptoms were caused by a new unknown viroid. Therefore, new primers were designed, and the whole genome sequence of the viroid (354 nt) was determined by next-generation amplicon sequencing using the Illumina MiSeq® platform (San Diego, California, USA). The viroid secondary structure has a rod-like conformation and contains conserved regions (the TCR, CCR upper strand, and CCR lower strand) that are characteristic of members of the genus Apscaviroid. Based on our results and the demarcation criteria for viroids, the tentatively named “apple chlorotic fruit spot viroid” should be considered a putative new member of the genus Apscaviroid.Electronic supplementary materialThe online version of this article (10.1007/s00705-019-04420-9) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Apple chlorotic fruit spot viroid: a putative new pathogenic viroid on apple characterized by next-generation sequencing

et al. 2019

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“…Moreover, often companies producing halāl meat products also process other kinds of meat, and thus cross-contaminations are possible. Therefore, many researches have been recently carried out for authenticating the species composition of meat products [ 87 , 88 , 89 , 90 , 91 ] and in particular the ḥalāl authentication studies are focused on the detection of pork derivatives (meat or lard) [ 92 , 93 ].…”

Section: Authentication Of ḥAlāl Meat For Salami and Other Meat Prmentioning

confidence: 99%

Safety, Quality and Analytical Authentication of ḥalāl Meat Products, with Particular Emphasis on Salami: A Review

Martuscelli

Serio

Capezio

et al. 2020

Foods

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Only some animal species could be transformed into ḥalāl salami and the raw meat must be obtained from ritually slaughtered animals. Several scientific studies have been conducted on ritual slaughtering practices and manufacturing of meat products for Jewish and Muslim religious communities; furthermore, many projects have been funded by the European Community on this topic. The authenticity and traceability of meat is one of the priorities of ḥalāl food certification systems. The pig matrix (meat and/or lard) may be fraudulently present in ḥalāl processed meat, as well as salami, for both economic and technological purposes; in fact, the use of these raw materials reflects the easier availability and their lower cost; furthermore, it allows manufacturers to obtain final products with better quality (sensory properties) and stability (especially with respect to oxidative reactions). The aim of this review is to discuss the qualitative and technological aspects of ḥalāl raw meat for dry fermented sausages (salami); moreover, this study focuses on the most recent studies carried out on the certification system and on the analytical methods performed in order to solve problems such as fraud and adulteration of ḥalāl salami and other halal meat foods.

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“…Very recently, Dobrovolny [44] presented a DNA metabarcoding method that allows the identification and effective discrimination of fifteen mammalian and six poultry species in foodstuffs. The method, developed on the Illumina MiSeq ® platform, targets the same mitochondrial 16S rDNA region reported by Bertolini et al [43], but uses, in a duplex assay, a newly designed primer pair for poultry in combination with the primer pair specific for mammalian species.…”

Section: General Issues About Metabarcoding: Power Applications Amentioning

confidence: 99%

Tubulin-Based DNA Barcode: Principle and Applications to Complex Food Matrices

Morello

Braglia

Gavazzi

et al. 2019

Genes

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The DNA polymorphism diffusely present in the introns of the members of the Eukaryotic beta-tubulin gene families, can be conveniently used to establish a DNA barcoding method, named tubulin-based polymorphism (TBP), that can reliably assign specific genomic fingerprintings to any plant or/and animal species. Similarly, many plant varieties can also be barcoded by TBP. The method is based on a simple cell biology concept that finds a conveniently exploitable molecular basis. It does not depend on DNA sequencing as the most classically established DNA barcode strategies. Successful applications, diversified for the different target sequences or experimental purposes, have been reported in many different plant species and, of late, a new a version applicable to animal species, including fishes, has been developed. Also, the TBP method is currently used for the genetic authentication of plant material and derived food products. Due to the use of a couple of universal primer pairs, specific for plant and animal organisms, respectively, it is effective in metabarcoding a complex matrix allowing an easy and rapid recognition of the different species present in a mixture. A simple, dedicated database made up by the genomic profile of reference materials is also part of the analytical procedure. Here we will provide some example of the TBP application and will discuss its features and uses in comparison with the DNA sequencing-based methods.

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Development of a DNA metabarcoding method for the identification of fifteen mammalian and six poultry species in food

Cited by 46 publications

References 29 publications

Apple chlorotic fruit spot viroid: a putative new pathogenic viroid on apple characterized by next-generation sequencing

Apple chlorotic fruit spot viroid: a putative new pathogenic viroid on apple characterized by next-generation sequencing

Safety, Quality and Analytical Authentication of ḥalāl Meat Products, with Particular Emphasis on Salami: A Review

Tubulin-Based DNA Barcode: Principle and Applications to Complex Food Matrices

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