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AperTO - Archivio Istituzionale Open Access dell'Università di Torino Is there any still undisclosed biodiversity in Ciauscolo salami? A new glance into the microbiota of an artisan production as revealed by high-throughput sequencing This is the author's manuscript Original Citation: Availability: This version is available http://hdl.handle.net/2318/1734166 since 2020-03-23T10:02:34Z Published version: DOI:10.1016/j.meatsci.2020.108128 Terms of use: Open Access Anyone can freely access the full text of works made available as "Open Access". Works made available under a Creative Commons license can be used according to the terms and conditions of said license. Use of all other works requires consent of the right holder (author or publisher) if not exempted from copyright protection by the applicable law. (Article begins on next page) 09 October 2021 Journal Pre-proof Is there any still undisclosed biodiversity in Ciauscolo salami? A new glance into the microbiota of an artisan production as revealed by high-throughput sequencing Luca Belleggia, Vesna Milanović, Ilario Ferrocino, Luca Cocolin, M. Naceur Haouet, Stefania Scuota, Antonietta Maoloni, Cristiana Garofalo, Federica Cardinali, Lucia Aquilanti, Massimo Mozzon, Roberta Foligni, Marina Pasquini, Maria Federica Trombetta, Francesca Clementi, Andrea Osimani PII: S0309-1740(19)31181-7 DOI: https://doi.org/10.1016/j.meatsci.2020.108128 Reference: MESC 108128 To appear in: Meat Science Received date: 9 December 2019 Revised date: 17 March 2020 Accepted date: 18 March 2020 Please cite this article as: L. Belleggia, V. Milanović, I. Ferrocino, et al., Is there any still undisclosed biodiversity in Ciauscolo salami? A new glance into the microbiota of an artisan production as revealed by high-throughput sequencing, Meat Science (2020), https://doi.org/10.1016/j.meatsci.2020.108128 This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. © 2020 Published by Elsevier. Journal Pre-proof Is there any still undisclosed biodiversity in Ciauscolo salami? A new glance into the microbiota of an artisan production as revealed by high-throughput sequencing Luca Belleggia1, Vesna Milanović1, Ilario Ferrocino2,*, Luca Cocolin2, M. Naceur Haouet3, Stefania Scuota3, Antonietta Maoloni1, Cristiana Garofalo1, Federica Cardinali1, Lucia Aquilanti1, Massimo Mozzon1, Roberta Foligni1, Marina Pasquini1, Maria Federica Trombetta1, Francesca Clementi1, Andrea Osimani1,* 1 Dipartimento di Scienze Agrarie, Alimentari ed Ambientali, Università Politecnica delle Marche, via Brecce Bianche, Ancona, Italy 2 Department of Agricultural, Forest, and Food Science, University of Turin, Largo Paolo Braccini 2, Grugliasco, Torino, Italy 3 Istituto Zooprofilattico Sperimentale dell'Umbria e delle Marche, via Salvemini, Perugia, Italy Journal Pre-proof * Corresponding authors: Dipartimento di Scienze Agrarie, Alimentari ed Ambientali, Università Politecnica delle Marche, via Brecce Bianche, 60131, Ancona, Italy. E-mail address: [email protected] (AO) Department of Agricultural, Forest, and Food Science, University of Turin, Largo Paolo Braccini 2, 10095, Grugliasco, Torino, Italy. E-mail address: [email protected] (IF) 1 Journal Pre-proof Abstract Ciauscolo is a fermented sausage with the Protected Geographical Indication (PGI) status. To disclose the microbial ecology of a model Ciauscolo salami manufacture during its natural fermentation, viable counting, amplicon-based sequencing and PCR real-time were applied. The volatilome during fermentation was also characterized. The results allowed previously undetected species to be discovered. The core microbiota was composed by Lactobacillus algidus, Leuconostoc carnosum, Lactobacillus sakei, Debaryomyces hansenii, Glomus hyderabadensis, Tilletiopsis washingtonensis, and Kurtzmaniella zeylanoides. Salmonella spp. and Listeria monocytogenes were absent in all the samples; moreover, multiplex real-time PCR revealed the absence of the target genes bont/A, bont/B, bont/E, bont/F, and 4gyrB (CP), encoding botulinic toxins. Volatilome, deeply depending on microbiological metabolism, was characterized by spices-derived components. Limonene, sabinene, α- and -pinene, 3-carene, and α-thujene were the most represented monoterpene hydrocarbons, whereas - and α-copaene were the most represented sesquiterpene hydrocarbons. Allyl methyl sulphide and diallyl disulphide were the major aliphatic sulphur compounds, together with diallyl sulphide and allyl methyl disulphide. Keywords: Lactobacillus algidus, Luconostoc carnosum, Kurtzmaniella zeylanoides, volatilome, Illumina sequencing Journal Pre-proof 2 Journal Pre-proof 1. Introduction The art of meat preservation, by salting and drying, dates back to the ancient Egypt and was particularly widespread among the Greeks, the Romans, the Gauls, the Celts and the Lucanians (Leroy et al., 2013). The modern word “salami”, which refers to a fermented sausage, probably originates during the Middle Age from the vulgar Latin “salamen” that derives from the word “salt”. Between the 12th and the 17th centuries, a plenty of charcuterie products, mainly based on the fermentation of swine meat, were developed in Central Italy where the pork butchers from Norcia village (Central Italy) gave birth to the term “norcino” (Aquilanti et al., 2012). Confirming the loyalty to the oldest tradition of pork butchery, in the Marche Region a wide range of culinary specialties based on the fermentation of pork meat is still produced; among these, Ciauscolo salami represents an undisputed food delicacy with unique sensory traits. The name Ciauscolo, also referred to as Ciavuscolo, originates from the words “ciabusculum” or “cibusculum” that in Latin were used to describe a small piece of food or snack which peasants would eat in small amounts during breaks and between main mealtimes. Ciauscolo salami obtained the Protected Geographical Indication (PGI) status, in accordance with Commission Regulation (EC) No 729/2009 of 10 August 2009. According to the production disciplinary, this salami can be produced in a well-defined geographical area covered by four (Ancona, Ascoli Piceno, Fermo, and Macerata) out of the five provinces of the Marche region (central Italy). The cuts of pork (e.g. Italian Large White, Italian Landrace, Italian Duroc breeds) that can be used in the meat batter include bacon, shoulder, ham and loin trimmings. The following ingredients are also added at different concentrations: salt, grinded black pepper, wine, and crushed garlic. The addition of lactose, dextrose, fructose and sucrose is allowed. Among the additives with preservative and antioxidant functions, the use of L-ascorbic acid (E300), sodium ascorbate (E301), potassium nitrate (E252) is also permitted in accordance with the maximum limits established by Regulation (CE) 1129/2011. Finally, the use of milk flours, caseinates andJournal other coloring compounds Pre-proof is expressly prohibited. The chilled meat is minced using a 2–3 mm plate and then mixed with lard, salt, grinded black pepper, wine, crushed garlic, and eventually added additives. The mixture is then stuffed into bovine or pork-intestine casings and ripened for at least 15 days. The end product is characterized by 15% protein and a fat content comprised between 32% and 42%. Ciauscolo salami, which length ranges from 15 to 45 cm and weight ranges between 400 and 2500 g, is characterized by a soft, homogeneous and rosy paste with high ductility for spreading. The taste is low acidic and savoury, and the flavour is spicy and aromatic (Aquilanti et al., 2007). To the best of the authors' knowledge, so far, only a few studies have investigated the microbiota of Ciauscolo salami by applying conventional culture-dependent and –independent techniques, such as Amplified Ribosomal DNA Restriction Analysis (ARDRA) of the isolated cultures (Federici et al., 2014) and Polymerase Chain Reaction- 3 Journal Pre-proof Denaturing Gradient Gel Electrophoresis (PCR-DGGE) analysis of the DNA extracted directly from either the salami samples (Silvestri et al., 2007) or bulk of cells harvested from countable plates (Aquilanti et al., 2007). Due to the acknowledged limitations of these methods, only the main components of Ciauscolo salami microbial community were revealed, with a narrow pool of species successfully identified. Moreover, no studies focused on the microbiota- associated volatile profile of this dry cured meat specialty have been carried out, yet. It is noteworthy that the current availability of high throughput sequencing methods allows direct sequencing of the rRNA genes of mixtures of barcoded food samples thus increasing the amount of information obtained from complex food matrices (Cocolin and Ercolini, 2015). In line with this recent evolution of investigations into the microbial diversity of food ecosystems, a polyphasic approach based on viable counting, amplicon-based sequencing (Illumina sequencing) and PCR real-time was applied to disclose the still undetected biodiversity of Ciauscolo salami.