Effect of farm characteristics and practices on hygienic quality of ovine raw milk used for artisan cheese production in central Italy

Microbial Evolution in Artisanal Pecorino-like Cheeses Produced from Two Farms Managing Two Different Breeds of Sheep (Comisana and Lacaune)

"Pecorino" is a typical semi-hard cheese obtained with raw or heat-treated sheep milk using procedures to valorize the raw material's chemical and microbiological properties. In the present study, using a high-throughput method of 16S rRNA gene sequencing, we assessed the evolution of the microbiome composition from milk to Pecorino-like cheese in artisanal processes using milk from Comisana and Lacaune sheep breeds. The comparative analysis of the bacterial community composition revealed significant differences in the presence and abundance of specific taxa in the milk microbiomes of the Comisana and Lacaune breeds. Next-Generation Sequencing (NGS) analysis also revealed differences in the curd microbiomes related to dairy farming practices, which have a relevant effect on the final structure of the Pecorino cheese microbiome.

Multifactorial Microvariability of the Italian Raw Milk Cheese Microbiota and Implication for Current Regulatory Scheme

Raw milk cheese manufactory is strictly regulated in Europe by the Protected Designation of Origin (PDO) quality scheme, which protects indigenous food products based on geographical and biotechnological features. This study encompassed the collection of 128 raw milk cheese samples across Italy to investigate the resident microbiome correlated to current PDO specifications. Shotgun metagenomic approaches highlighted how the microbial communities are primarily linked to each cheesemaking site and consequently to the use of site-specific Natural Whey Cultures (NWCs), defined by a multifactorial set of local environmental factors rather than solely by cheese type or geographical origin that guide the current PDO specification. Moreover, in-depth functional characterization of Cheese Community State Types (CCSTs) and comparative genomics efforts, including metagenomically assembled genomes (MAGs) of the dominant microbial taxa, revealed NWCs-related unique enzymatic profiles impacting the organoleptic features of the produced cheeses and availability of bioactive compounds to consumers, with putative health implications. Thus, these results highlighted the need for a profound rethinking of the current PDO designation with a focus on the production site-specific microbial metabolism to understand and guarantee the organoleptic features of the final product recognized as PDO. IMPORTANCE The Protected Designation of Origin (PDO) guarantees the traceability of food production processes, and that the production takes place in a well-defined restricted geographical area. Nevertheless, the organoleptic qualities of the same dairy products, i.e., cheeses under the same PDO denomination, differ between manufacturers. The final product's flavor and qualitative aspects can be related to the resident microbial population, not considered by the PDO denomination. Here, we analyzed a complete set of different Italian cheeses produced from raw milk through shotgun sequencing in order to study the variability of the different microbial profiles resident in Italian PDO cheeses. Furthermore, an in-depth functional analysis, along with a comparative genomic analysis, was performed in order to correlate the taxonomic information with the organoleptic properties of the final product. This analysis made it possible to highlight how the PDO denomination should be revisited to understand the effect that Natural Whey Cultures (NWCs), used in the traditional production of raw milk cheese and unique to each manufacturer, impacts on the organoleptic features of the final product.

Microbial Properties of Raw Milk throughout the Year and Their Relationships to Quality Parameters

Raw milk microbiota is complex and influenced by many factors that facilitate the introduction of undesirable microorganisms. Milk microbiota is closely related to the safety and quality of dairy products, and it is therefore critical to characterize the variation in the microbial composition of raw milk. In this cross-sectional study, the variation in raw milk microbiota throughout the year (n = 142) from three farms in China was analyzed using 16S rRNA amplicon sequencing, including α and β diversity, microbial composition, and the relationship between microbiota and milk quality parameters. This aimed to characterize the contamination risk of raw milk throughout the year and the changes in quality parameters caused by contamination. Collection month had a significant effect on microbial composition; microbial diversity was higher in raw milk collected in May and June, while milk collected in October and December had the lowest microbial diversity. Microbiota composition differed significantly between milk collected in January−June, July−August, and September−December (p < 0.05). Bacterial communities represented in raw milk at the phylum level mainly included Proteobacteria, Firmicutes and Bacteroidota; Pseudomonas, Acinetobacter, Streptococcus and Lactobacillus were the most common genera. Redundancy analysis (RDA) found strong correlations between microbial distribution and titratable acidity (TA), fat, and protein. Many genera were significantly correlated with TA, for example Acinetobacter (R = 0.426), Enhydrobacter (R = 0.309), Chryseobacterium (R = 0.352), Lactobacillus (R = −0.326), norank_o__DTU014 (R = −0.697), norank_f__SC-I-84 (R = −0.678), and Subgroup_10 (R = −0.721). Additionally, norank_f__ Muribaculaceae was moderately negatively correlated with fat (R = −0.476) and protein (R = −0.513). These findings provide new information on the ecology of raw milk microbiota at the farm level and contribute to the understanding of the variation in raw milk microbiota in China.

Small ruminants milk from Tunisian oasis: physicochemical characteristics, mineral contents, and microbiological quality

Characteristics and quality aspects of milk from native ovine Queue Fine de l'Ouest (QFO) and the exotic D'man (DMN) breeds were investigated and compared with those of two subgroups of the local goat population Arbi and Serti. A total of 418 individual milk samples were collected from multiparous lactating animals reared in the continental oasis region of Tunisia. Samples were analyzed for physical parameters (pH, density, and acidity), chemical composition (dry matter, fat, protein, lactose, casein, ash, and casein/protein ratio), mineral concentrations (Ca, P, Na, K, and Ca/P) and microbiological features (total mesophilic aerobic bacteria (TMAB), total coliforms count (TCC), lactic acid bacteria (LAB), sulphite-reducing Clostridium (CSR), yeast and molds (Y/M), Staphylococcus aureus (S. aureus), Escherichia coli (E. coli), and Salmonella) according to standard methods. The values obtained for physicochemical, mineral, and microbial parameters revealed noticeable differences in the milk of the four studied breeds. On the whole milk samples, the mean value of pH, density, and acidity in milk collected from sheep breeds appeared higher than in milk collected from goat subgroups. As for milk composition, results showed a remarkable disparity between studied breeds and clear superiority of sheep breeds compared to goat's subgroups in all chemical contents being studied (dry matter, fat, protein, lactose, casein, and ash). The differences are more important, especially for dry matter, fat, protein, and casein content, whereas casein/protein ratio distinguished goat's genotypes, and the highest one was obtained for Serti Subgroup. When comparing sheep versus goat's milk for macro-minerals, the current study indicated lower K and higher concentrations of Ca, P, and Na. The milk of QFO sheep, the richest in casein and protein, was expressed with significantly higher levels of calcium and phosphorus compared to the DMN sheep breed and the two goat subgroups. The microbiological examination evidenced that the milk of both species complies with standard criteria required by the Tunisian legislation on the hygiene of milk and dairy products. The microbial quality of ewe milk was higher than goat milk, based on LAB and Y/M, while goats produced milk with better quality referring to TMAB and TCC counts. No significant differences were found for Staphylococcus aureus and Escherichia coli between examined breeds. Got results highlighted the complete absence of the two dangerous pathogens Salmonella and CSR in all investigated samples of small ruminants' milk.

Hygienic quality and composition of raw sheep's bulk milk samples on selected Slovak farms during year 2018

At the control of raw ewe's milk (REM) quality is a major microbiological criterion to the total bacterial count (TBC). The aim of our work was to determine the incidence of technologically important species of microorganisms in REM in Slovak Republic. At the monitored 28 ewe´s farms, we took bulk milk samples from evening or morning milking in spring, summer and autumn during year 2018. We analyzed nutrients (fat, protein, lactose and urea) and somatic cell count (SCC). We established technologically important microorganisms (MO) of psychotrophic MO, coliform MO, thermoresistant MO, spore-forming anaerobic MO. We have found a gradual increase in milk components, except for lactose, which is apparently related to the increasing cont of somatic cells during the milking period. We found that the TBC in raw sheep's milk complied an average of 132 x 103 CFU.mL-1 per spring (min 34 x 103 CFU.mL-1, max 501 x 103 CFU.mL-1), 300 x 103 CFU.mL-1 in summer (min. 31 x 103 CFU.mL-1, max 640 x 103 CFU.mL-1) and in autumn with an average value of 147 x 103 CFU.mL-1 (min 52 x 103 CFU.mL-1, max 276 x 103 CFU.mL-1). The enormous occurrence of psychrotrophic bacteria was found in one farm in northern Slovakia during spring and summer, in the summer we increased our number to 3 farms, in the autumn of 2 farms. At the other farms we evaluated the average value of 12 x 103 CFU.mL-1 per spring and 28 x 103 CFU.mL-1 in summer, 130.5 x 103 CFU.mL-1 in the autumn. The count of thermoresistent MO achieved 57 CFU.mL-1 per spring, 15 CFU.mL-1 in summer and 33 CFU.mL-1 in the autumn. The presence of spore-forming anaerobic MO in raw ewe´s milk was found during spring at six farms out of 15, but in the summer at just one in 9, in the autumn two farms.