Cascade cell lyses and DNA extraction for identification of genes and microorganisms in kefir grains

Journal of Dairy Research

Volumn 79, Issue 1, 2012, Pages 26-32

  Kowalczyk, Magdalena ^a   Kolakowski, Piotr ^b   Radziwill Bienkowska, Joanna M ^a   Szmytkowska, Agnieszka ^c   Bardowski, Jacek ^a  

^a INSTITUTE OF BIOCHEMISTRY AND BIOPHYSICS   (Poland)

^b Danisco Biolacta   (Poland)

^c MEDICAL UNIVERSITY OF WARSAW   (Poland)

Author keywords

biodiversity; cascade cell lysis; Complex ecosystems; DNA isolation; kefir grains

Indexed keywords

BACTERIAL DNA; FUNGAL DNA;

ANIMAL; ARTICLE; BACTERIUM; BIODIVERSITY; CLASSIFICATION; DAIRY PRODUCT; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; YEAST;

ANIMALS; BACTERIA; BIODIVERSITY; CULTURED MILK PRODUCTS; DNA, BACTERIAL; DNA, FUNGAL; YEASTS;

BACTERIA (MICROORGANISMS); CANDIDA ALBICANS; CANDIDA GLABRATA; KLUYVEROMYCES LACTIS; LACTOBACILLUS; LACTOCOCCUS; LEUCONOSTOC; OENOCOCCUS; PEDIOCOCCUS; SACCHAROMYCES CEREVISIAE; STREPTOCOCCUS;

EID: 84858763377     PISSN: 00220299     EISSN: 14697629     Source Type: Journal    
DOI: 10.1017/S0022029911000677     Document Type: Article

References (29)

1. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, MillerW& Lipman DJ 1997 Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Research 5 3389-3402 (Pubitemid 27359211)
2. Andrighetto C, Psomas E, Tzanetakis N, Suzzi G & Lombardi A 2000 Randomly amplified polymorphic DNA (RAPD) PCR for the identification of yeasts isolated from dairy products. Letters in Applied Microbiology 30 5-9 (Pubitemid 30128894)
3. Beh AL, Fleet GH, Prakitchaiwattana C & Heard GM 2006 Evaluation of molecular methods for the analysis of yeasts in foods and beverages. Advances in Experimental Medicine and Biology 571 69-106
4. Chen HC, Wang SY & Chen MJ 2008 Microbiological study of lactic acid bacteria in kefir grains by culture-dependent and culture-independent methods. Food Microbiology 25 492-501
5. De Antoni G, Zago M, Vasek O, Giraffa G, Carminati D, Marcó MB, Reinheimer J & Suárez V 2010 Lactobacillus plantarum bacteriophages isolated from Kefir grains: Phenotypic and molecular characterization. Journal of Dairy Research 77 7-12
6. De Barros Lopes M, Soden A, Henschke PA & Langridge P 1996 PCR differentiation of commercial yeast strains using intron splice site primers. Applied and Environmental Microbiology 62 4514-4520 (Pubitemid 26399449)
7. Fliss I, Emond E, Simard RE & Pandian S 1991 A rapid and efficient method of lysis of Listeria and other gram-positive bacteria using mutanolysin. Biotechniques 11 453, 456-457
8. Garbers I-M, Britz TJ & Witthuhn RC 2004 PCR-based denaturing gradient gel electrophoretic typification and identification of the microbial consortium present in kefir grains. World Journal of Microbiology and Biotechnology 20 687-693 (Pubitemid 40084217)
9. Garrote GL, Abraham AG & De Antoni GL 1997 Preservation of kefir grains, a comparative study. Lebensmittel-Wissenschaft und-Technologie 30 77-84 (Pubitemid 127168441)
10. Garrote GL, Abraham AG & De Antoni GL 2010 Microbial interactions in Kefir: A natural probiotic drink. In Biotechnology of Lactic Acid Bacteria: Novel Applications, ch 18 (Eds F Mozzi, RR Raya & GM Vignolo). Oxford, UK: Wiley-Blackwell
11. Gill SR, Pop M, Deboy RT, Eckburg PB, Turnbaugh PJ, Samuel BS, Gordon JI, Relman DA, Fraser-Liggett CM & Nelson KE 2006 Metagenomic analysis of the human distal gut microbiome. Science 312 1355-1359 (Pubitemid 43839542)
12. Hutchinson CA III 2007 DNA sequencing: Bench to bedside and beyond. Nucleic Acid Research 35 6227-6237
13. Lopitz-Otsoa F, Rementeria A, Elguezabal N & Garaizar J 2006 Kefir: A symbiotic yeasts-bacteria community with alleged healthy capabilities. Revista Iberoamericana De Micologia 23 67-74 (Pubitemid 44133522)
14. Oklinski MK 2006 The influence of the medium composition and selected parameters of production for the activity of kefir grains. Master's Thesis. Olsztyn, Poland: The University of Warmia and Mazury
15. Pintado ME, Lopes Da Silva JA, Fernandes PB, Malcata FX & Hogg TA 1996 Microbiological and rheological studies on Portuguese kefir grains. International Journal of Food Science and Technology 31 15-26
16. Prakitchaiwattana CJ, Fleet GH & Heard GM 2004 Application and evaluation of denaturing gradient gel electrophoresis to analyse the yeast ecology of wine grapes. FEMS Yeast Research 4 865-877 (Pubitemid 39144378)
17. Rossetti L & Giraffa G 2005 Rapid identification of dairy lactic acid bacteria by M13-generated, RAPD-PCR fingerprint databases. Journal of Microbiological Methods 63 135-144 (Pubitemid 41443322)
18. Sambrook J, Fritsch EF & Maniatis T 1989 Molecular Cloning: A Laboratory Manual, 2nd edition. Cold Spring Harbor, New York, USA: CSHL Press
19. Sanger F, Nicklen S & Coulson AR 1977 DNA sequencing with chain terminating inhibitors. In Proceedings of the National Academy of Sciences of the United States of America 74 5463-5467
20. Schloss PD & Handelsman J 2005 Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Applied and Environmental Microbiology 71 1501-1506 (Pubitemid 40396689)
21. Sherman F, Fink GR & Hicks JB 1986 Laboratory Course Manual for Methods in Yeast Genetics. Cold Spring Harbor, New York, USA: CSHL Press
22. Tailliez P, Tremblay J, Ehrlich SD & Chopin A 1998 Molecular diversity and relationship within Lactococcus lactis, as revealed by randomly amplified polymorphic DNA (RAPD). Systematic and Applied Microbiology 21 530-538 (Pubitemid 29027335)
23. Tilsala-Timisjarvi A & Alatossava T 2004 Rapid DNA preparation from milk and dairy process samples for the detection of bacteria by PCR. Food Microbiology 21 365-368 (Pubitemid 38403314)
24. Tyson GW, Chapman J, Hugenholtz P, Allen EE, Ram RJ, Richardson PM, Solovyev VV, Rubin EM, Rokhsar DS & Banfield JF 2004 Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature 428 37-43 (Pubitemid 38332350)
25. Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fonts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffmon J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH & Smith HO 2004 Environmental genome shotgun sequencing of the Sargasso Sea. Science 304 66-74 (Pubitemid 38451457)
26. Wang YY, Li HR, Jia SF,Wu ZJ & Guo BH 2006 Analysis of bacterial diversity of kefir grains by denaturing gradient gel electrophoresis and 16S rDNA sequencing. Wei Sheng Wu Xue Bao 46 310-313 [Article in Chinese]
27. Witthuhn RC, Schoeman T & Britz TJ 2005a Characterisation of the microbial population at different stages of Kefir production and Kefir grain mass cultivation. International Dairy Journal 15 383-389 (Pubitemid 40118265)
28. Witthuhn RC, Schoeman T, Cilliers A & Britz TJ 2005b Impact of preservation and different packaging conditions on the microbial community and activity of Kefir grains. Food Microbiology 22 337-344 (Pubitemid 39651271)
29. Zhou J, Liu X, Jiang H & Dong M 2009 Analysis of the microflora in Tibetan kefir grains using denaturing gradient gel electrophoresis. Food Microbiology 26 770-775