Relationships among house, rind and core microbiotas during manufacture of traditional Italian cheeses at the same dairy plant

Food Microbiology

Volumn 54, Issue , 2016, Pages 115-126

  Calasso, Maria ^a   Ercolini, Danilo ^b   Mancini, Leonardo ^a   Stellato, Giuseppina ^b   Minervini, Fabio ^a   Di Cagno, Raffaella ^a   De Angelis, Maria ^a   Gobbetti, Marco ^a  

^a UNIVERSITY OF BARI   (Italy)

^b UNIVERSITY OF NAPLES FEDERICO II   (Italy)

Author keywords

16S rRNA targeted metagenomics; Caciocavallo Pugliese; Caciotta; House microbiota; Rind and core cheese microbiotas; Streptococcus thermophilus

Indexed keywords

EID: 84948974918     PISSN: 07400020     EISSN: 10959998     Source Type: Journal    
DOI: 10.1016/j.fm.2015.10.008     Document Type: Article

References (49)

1. Almeida M., Hébert A., Abraham A.L., Rasmussen S., Monnet C., Pons N., Delbès C., Loux V., Batto J.M., Leonard P., Kennedy S., Ehrlich S.D., Pop M., Montel M.C., Irlinger F., Renault P. Construction of a dairy microbial genome catalog opens new perspectives for the metagenomic analysis of dairy fermented products. BMC Genom. 2014, 15:1101. 10.1186/1471-2164-15-1101.
2. Almena-Aliste M., Mietton B. Cheese classification, characterization, and categorization: a global perspective. Microbiol. Spectr. 2014, 2. 10.1128/microbiolspec.CM-0003-2012.
3. Anonymous Regulations on materials intended to come into contact with food EC1935/2004. Off. J. Eur. Union. 2004, L338:1-17.
4. Aquilanti L., Babini V., Santarelli S., Osimani A., Petruzzelli A., Clementi F. Bacterial dynamics in a raw cow's milk Caciotta cheese manufactured with aqueous extract of Cynara cardunculus dried flowers. Lett. Appl. Microbiol. 2011, 52:651-659. 10.1111/j.1472-765X.2011.03053.x.
5. Bokulich N., Mills D. Facility-specific "house" microbiome drives microbial landscapes of artisan cheesemaking plants. Appl. Environ. Microbiol. 2013, 79:5214-5223. 10.1128/AEM.00934-13.
6. Bremer P.J., Seale B., Flint S., Palmer J. Biofilms in dairy processing. Biofilms in the Food and Beverage Industries 2009, 396-431. Woodhead Publishing in Food Science, Technology and Nutrition, Cambridge, UK. P.M. Fratamico, B.A. Annous, N.W. Gunther (Eds.).
7. Callon C., Picque D., Corrieu G., Montel M.C. Ripening conditions: a tool for the control of Listeria monocytogenes in uncooked pressed type cheese. Food Control 2011, 22:1911-1919. 10.1016/j.foodcont.2011.05.003.
8. Crecchio C., Gelsomino A., Ambrosoli R., Minati J.L., Ruggiero P. Functional and molecular responses of soil microbial communities under differing soil management practices. Soil Biol. Biochem. 2004, 36:1873-1883. 10.1016/j.soilbio.2004.05.008.
9. De Angelis M., Gobbetti M. Cheese: pasta-filata cheeses: traditional pasta-filata cheese. Encyclopedia of Dairy Sciences 2011, vol. 1:745-752. Elsevier Academic Press, San Diego, CA. second ed.
10. De Filippis F., La Storia A., Stellato G., Gatti M., Ercolini D. A selected core microbiome drives the early stages of three popular italian cheese manufactures. PLoS One 2014, 9:e89680. 10.1371/journal.pone.0089680.
11. De Filippis F., La Storia A., Villani F., Ercolini D. Exploring the sources of bacterial spoilers in beefsteaks by culture-independent high-throughput sequencing. PLoS One 2013, 8:e70222. 10.1371/journal.pone.0070222.
12. De Pasquale I., Calasso M., Mancini L., Ercolini D., La Storia A., De Angelis M., Di Cagno R., Gobbetti M. Causal relationship between microbial ecology dynamics and proteolysis during manufacture and ripening of Canestrato Pugliese PDO cheese. Appl. Environ. Microbiol. 2014, 80(14):4085. 10.1128/AEM.00757-14.
13. De Pasquale I., Di Cagno R., Buchin S., De Angelis M., Gobbetti M. Microbial ecology dynamics reveal a succession in the core microbiota involved in the ripening of pasta filata Caciocavallo Pugliese cheese. Appl. Environ. Microbiol. 2014, 80:6243-6255. 10.1128/AEM.02097-14.
14. Di Cagno R., De Pasquale I., De Angelis M., Buchin S., Calasso M., Fox P.F., Gobbetti M. Manufacture of Italian Caciotta-type cheeses with adjuncts and attenuated adjuncts of selected non-starter lactobacilli. Int. Dairy J. 2011, 21:254-260. 10.1016/j.idairyj.2010.12.007.
15. Di Cagno R., De Pasquale I., De Angelis M., Gobbetti M. Accelerated ripening of Caciocavallo Pugliese cheese with attenuated adjuncts of selected nonstarter lactobacilli. J. Dairy Sci. 2012, 95:4784-4795. 10.3168/jds.2011-5283.
16. Didienne R., Defargues C., Callon C., Meylheuc T., Hulin S., Montel M.C. Characteristics of microbial biofilm on wooden vats ("gerles") in PDO Salers cheese. Int. J. Food Microbiol. 2012, 156:91-101. 10.1016/j.ijfoodmicro.2012.03.007.
17. Edgar R.C. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 2010, 26:2460-2461. 10.1093/bioinformatics/btq461.
18. Ercolini D., De Filippis F., La Storia A., Iacono M. "Remake" by high-throughput sequencing of the microbiota involved in the production of water buffalo mozzarella cheese. Appl. Environ. Microbiol. 2012, 78:8142-8145. 10.1128/AEM.02218-12.
19. EFSA Guidance Document on the Submission of a Dossier on a Substance to Be Used in Food Contact Materials for Evaluation by EFSA by the Pannel on Additives, Flavourings, Processing Aids and Materials in in Contact with Food (AFC) 2008, 1-125. Eur. Food Saf. Authority.
20. FDA Determining the Regulatory Status of Components of a Food Contact Material 2007, U.S. Food and Drug Administration.
21. Fox P.F., Guinee T.P., Cogan T.M., McSweeney P.L.H. Fundamentals of Cheeses Sciences 2000, 251-277. Aspen Publishers, Gaithersburg, MD, USA.
22. Gobbetti M., Burzigotti R., Smacchi E., Corsetti A., De Angelis M. Microbiology and biochemistry of Gorgonzola cheese during ripening. Int. Dairy J. 1997, 7:519-529. 10.1016/S0958-6946(97)00047-2.
23. Irlinger F., Layec S., Hélinck S., Dugat-Bony E. Cheese rind microbial communities: diversity, composition and origin. FEMS Microbiol. Lett. 2015, 362(2):1-11. 10.1093/femsle/fnu015.
24. Irlinger F., Mounier J. Microbial interactions in cheese: implications for cheese quality and safety. Curr. Opin. Biotechnol. 2009, 20:142-148. 10.1016/j.copbio.2009.02.016.
25. Kindstedt P., Caric M., Milanovic S. Pasta-filata cheeses. Cheese: Chemistry, Physics and Microbiology 2004, vol. 2:251-277. Elsevier Academic Press, London, United Kingdom. third ed.
26. Lahou E., Uyttendaele M. Evaluation of three swabbing devices for detection of Listeria monocytogenes on different types of food contact surfaces. Int. J. Environ. Res. Public Health 2014, 11:804-814. 10.3390/ijerph110100804.
27. Lanciotti R., Patrignani F., Iucci L., Guerzoni M.E., Suzzi G., Belletti N., Gardini F. Effects of milk high pressure homogenization on biogenic amine accumulation during ripening of ovine and bovine Italian cheeses. Food Chem. 2007, 104:693-701.
28. Licitra G., Ogier J.C., Parayre S., Pediliggieri C., Carnemolla T.M., Falentin H., Madec M.N., Carpino S., Lortal S. Variability of bacterial biofilms of the "tina" wood vats used in the Ragusano cheese-making process. Appl. Environ. Microbiol. 2007, 73:6980-6987. 10.1128/AEM.00835-07.
29. Lortal S., Di Blasi A., Madec M.N., Pediliggieri C., Tuminello L., Tanguy G., Fauquant J., Lecuona Y., Campo P., Carpino S., Licitra G. Tina wooden vat biofilm: a safe and highly efficient lactic acid bacteria delivering system in PDO Ragusano cheese making. Int. J. Food Microbiol. 2009, 132:1-8. 10.1016/j.ijfoodmicro.2009.02.026.
30. MacFaddin J.F. Media for isolation-cultivation-identification-maintenance of medical bacteria 1985, vol. 1. Williams and Wilkins, Baltimore, MD.
31. Marchand S., De Block J., De Jonghe V., Coorevits A., Heyndrickx M., Herman L. Biofilm formation in milk production and processing environments; influence on milk quality and safety. Compr. Rev. Food Sci. Food Saf. 2012, 11:133-147. 10.1111/j.1541-4337.2011.00183.x.
32. McDonald D., Price M.N., Goodrich J., Nawrocki E.P., DeSantis T.Z., Probst A., Andersen G.L., Knight R., Hugenholtz P. An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J. 2012, 6:610-618. 10.1038/ismej.2011.139.
33. Monfredini L., Settanni L., Poznanski E., Cavazza A., Franciosi E. The spatial distribution of bacteria in Grana-cheese during ripening. Syst. Appl. Microbiol. 2012, 35:54-63. 10.1016/j.syapm.2011.07.002.
34. Montel M.C., Buchin S., Mallet A., Delbes-Paus C., Vuitton D., Desmasures N., Berthier F. Traditional cheeses: rich and diverse microbiota with associated benefits. Int. J. Food Microbiol. 2014, 177:136-154. 10.1016/j.ijfoodmicro.2014.02.019.
35. Parlapani F.F., Haroutounian S.A., Nychas G.J.E., Boziaris I.S. Microbiological spoilage and volatiles production of gutted European sea bass stored under air and commercial modified atmosphere package at 2°C. Food Microbiol. 2015, 50:44-53. 10.1016/j.fm.2015.03.006.
36. Rea M.C., Görges S., Gelsomino R., Brennan N.M., Mounier J., Vancanneyt M., Scherer S., Swings J., Cogan T.M. Stability of the biodiversity of the surface consortia of Gubbeen, a red-smear cheese. J. Dairy Sci. 2007, 90:2200-2210. 10.3168/jds.2006-377.
37. Reeder J., Knight R. Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions. Nat. Methods 2010, 7:668-669. 10.1038/nmeth0910-668b.
38. Schornsteiner E., Mann E., Bereuter O., Wagner M., Schmitz-Esser S. Cultivation-independent analysis of microbial communities on Austrian raw milk hard cheese rinds. Int. J. Food Microbiol. 2014, 180:88-97. 10.1016/j.ijfoodmicro.2014.04.010.
39. Scott S.A., Brooks J.D., Rakonjac J., Walker K.M.R., Flint S.H. The formation of thermophilic spores during the manufacture of whole milk powder. Int. J. Dairy Technol. 2007, 60:109-117. 10.1111/j.1471-0307.2007.00309.x.
40. Settanni L., Di Grigoli A., Tornambé G., Bellina V., Francesca N., Moschetti G., Bonanno A., Persistence of wild Streptococcus thermophilus strains on wooden vat and during the manufacture of a traditional Caciocavallo type cheese. Int. J. Food Microbiol. 2012, 155:73-81. 10.1016/j.ijfoodmicro.2012.01.022.
41. Shannon C.E. A mathematical theory of communication. Bell Syst. Tech. J. 1948, 27:379-423. 10.1002/j.1538-7305.1948.tb01338.x.
42. Shannon C.E. A mathematical theory of communication. Bell Syst. Tech. J. 1948, 27:623-656. 10.1002/j.1538-7305.1948.tb00917.x.
43. Somers E.B., Johnson M.E., Wong A.C. Biofilm formation and contamination of cheese by nonstarter lactic acid bacteria in the dairy environment. J. Dairy Sci. 2001, 84:1926-1936. 10.3168/jds.S0022-0302(01)74634-6.
44. Stellato G., De Filippis F., La Storia A., Ercolini D. Coexistence of lactic acid bacteria and potential spoilage microbiota in a dairy processing environment. Appl. Environ. Microbiol. 2015, 81:7893-7904. 10.1128/AEM.02294-15.
45. Suárez B., Ferreirós C.M., Criado M.T. Adherence of psychrotrophic bacteria to dairy equipment surfaces. J. Dairy Res. 1992, 59:381-388.
46. Vernile A., Spano G., Lecce A., Tarantino D., Beneduce L., Massa S. Microbiological and chemical characteristics of "monti dauni meridionali" caciocavallo cheese. Adv. Food Sci. 2006, 28:2-6.
47. Viljoen B.C., Khoury A.R., Hattingh A. Seasonal diversity of yeasts associated with white-surface mould-ripened cheeses. Food Res. Int. 2003, 36:275-283. 10.1016/S0963-9969(02)00169-2.
48. Wang Q., Garrity G.M., Tiedje J.M., Cole J.R. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 2007, 73:5261-5267. 10.1128/AEM.00062-07.
49. Zak J., Willig M., Moorhead D., Wildman H. Functional diversity of microbial communities: a quantitative approach. Soil Biol. Biochem. 1994, 26:1101-1108. 10.1016/0038-0717(94)90131-7.