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Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38)

Year 2014, Volume: 14 Issue: 2, 29 - 38, 01.08.2014

Abstract

Bu çalışmanın amacı farklı kaynaklardan izole edilen termofilik Bacillus sp.'ları 16S-ITS rDNA RFLP ile gruplandırmaktır. Çeşitli çevresel örneklerden yetmiş dört suş izole edilmiştir. Gram (+), endospor oluşturan, basil şeklindeki izolatlar Bacillus olarak identifiye edilmiştir Bu suşlar; lipaz, amilaz, proteaz, ksilinaz ve selulazdan oluşan ekstraselülar beş enzim aktivitesi açısından incelenmiştir. 16S-ITS rDNA RFLP profilleri TaqI ve HaeIII olmak üzere iki farklı restriksiyon enzimi kullanılarak çıkarılmıştır. İzolatlar TaqI ile sekiz, HaeIII ile yedi farklı restriksiyon grubu oluşturmuştur

References

  • Akbalik, G., Gunes, H., Yavuz, E., Yasa, I., Harsa, S., Elmaci, Z.S. and Yenidunya, A.F., 2004. Identification producing alkalophilic bacilli from Izmir province by 16S-ITS rDNA RFLP. Journal of Applied Microbiology, 97, 766–773. enzyme
  • Al-Awadhi, S., Welch, S.G., Smith, K.E. and Williams, R.A.D., 1998. BstB7SI (R CCGGY), a thermostable isoschizomer of Cfr10I, from a strain of Bacillus stearothermophilus isolated from oil-contaminated soil in Kuwait. FEMS Microbiology Letters, 160, 205–208.
  • Blanc, M., Marilley, L., Beffa, T. and Aragno, M., 1997. Rapid identification of heterotrophic, thermophilic, spore-forming bacteria isolated from hot composts. International Journal of Systematic Bacteriology, 47, 1246- 1248.
  • Bragger, J.M., Daniel, R.M., Coolbear, T. and Morgan, H.W., 1989. Very stable enzymes from extremely thermophilic archaebacteria and eubacteria. Applied Microbiology and Biotechnology, 31, 556-561.
  • Bulut, C., Gunes, H., Okuklu, B., Harsa, S., Kilic, S., Coban, H.S. and Yenidunya, A.F., 2005. Homofermentative lactic acid bacteria of a traditional cheese, Comlek peyniri from Cappadocia region. Journal of Dairy Research, 72, 19–24.
  • Burgess, S.A., Denise, L. and Steve, H., 2010. Flint thermophilic bacilli and their importance in dairy processing. International Journal of Food Microbiology, 144, 215–225.
  • Caccamo, D., Maugeri, T.T. and Gugliandolo, C., 2001. Identification of thermophilic and marine bacilli from shallow thermal vents by restriction analysis of their amplified 16S rDNA. Journal of Applied Microbiology, 91, 520-524.
  • Ghanem, E.H., Al-Sayed, H.A. and Saleh, K.M., 2000. An alkalophilic thermostable lipase produced by a new isolate of Bacillus alcalophilus. World Journal of Microbiology and Biotechnology, 16, 459–464.
  • González, M.J., Gorgoroso, F., Reginensi, S.M., Olivera, J.A. and Bermşdez, J., 2013. Polyphasic identification of closely related Bacillus amyloliquefaciens isolated from dairy farms and milk powder. Journal of Microbiology and Biotechnology Food Science, 2(5), 2326- 2331. and Bacillus
  • Haba, E., Bresco, O., Ferrer, C., Marques, A., Basquets, M. and Manresa, A., 2000. Isolation of lipase secreting bacteria by deploying used frying oil as selective substrate. Enzyme and Microbial Technology, 26, 40-44.
  • Holt, J.G. and Krieg, N.R., 1994. Enrichment and Isolation. In: Gerhardt P (ed) Methods for general and molecular bacteriology, ASM Publications, 197-200.
  • Jensen, M.A., Webster, J.A. and Strauss, N., 1993. Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms. Applied and Environmental Microbiology, 59, 943-952.
  • Joo, H.S. and Chang, C.S., 2005. Oxidant and SDS- stable alkaline protease from a halotolerant Bacillus clausii I-52: enhanced production and simple purification. Journal of Applied Microbiology, 98, 491–497.
  • Krulwich, T.A., 1995. Alkaliphiles: ‘basic’ molecular problems of pH tolerance and bioenergetics. Molecular Microbiology, 15, 403–410.
  • Kuisiene, N., 2002. Jomantiene R, Valiunas D, Chitavichius thermophilic proteolytic bacteria from a geothermal site in Lithuania based on 16 S rDNA RFLP and ITS-PCR analyses. Microbiology, 71, 824-828. of spore-forming
  • Mora, D., Fortina, M.G., Nicastro, G., Parini, C. and Manachini, characterization of thermophilic bacilli: a study on new soil isolates and several reference strains. Research in Microbiology, 149, 711-722. 1998. Genotypic
  • Nada, S., Ilija, D., Igor, T., Jelena, M. and Ruzica, G., 2012. Implication of food safety measures on microbiological quality of raw and pasteurized milk. Food Control, 25, 728-731.
  • Nielsen, P., Fritze, D. and Priest, F.G., 1995. Phenetic diversity strains:proposal for nine new species of alkaliphilic Bacillus species. Microbiology, 141, 1745-1761.
  • Ouoba, L.I.I., Diawara, B., Amoa-Awua, W., Traore, A.S. and Moller, P.L., 2004. Genotyping of starter cultures of Bacillus subtilis and Bacillus pumilus for fermentation of African locust bean (Parkia biglobosa) to produce Soumbala. International Journal of Food Microbiology, 90, 197- 205.
  • Paes, G. and O'Donohue, M.J., 2006. Engineering increased thermostable Thermobacillus xylanilyticus. Journal of Biotechnology, 125, 338-350. in the from GH 11 xylanase
  • Peng, X., Norihiko, M. and Shigeaki, H., 2003. Isolation thermophilic bacilli degrading cinnamic, 4- coumaric, and ferulic acids. Applied and Environmental Microbiology, 69, 1417–1427.
  • Priest, G.F., Goodfellow, M. and Todd, C., 1988. A Numerical classification of the genus Bacillus. Journal of GeneralMicrobiology, 134, 1847-1882.
  • Rainey, F.A., Fritze, D. and Stackebrandt, E., 1994. The phylogenetic diversity of thermophilic members of the genus Bacillus as revealed by 16S rDNA analysis. FEMS Microbiology Letters, 115, 205–212.
  • Ronimus, R.S., Parker, L.E., Turner, N., Poudel, S., Ruckert, A. and Morgan, H.W., 2003. RAPD- based comparison of thermophilic bacilli from milk powders. International Journal of Food Microbiology, 85, 45–61.
  • Saito, N., 1973. A thermophilic extracellular α- amylase Archieves of Biochemistry and Biophys, 155, 290-298.
  • licheniformis. Fox, A., 2001. Variation in 16S-23S rRNA intergenic spacer regions among Bacillus subtilis 168 isolates. Molecular Microbiology, 42, 101-109.
  • Takami, H. and Horikoshi, K., 2000. Analysis of an alkalophilic Bacillus strain from an industrial point of view. Extremophiles, 4, 99-108.
  • Tang, S.Y., Le, Q.T., Shim, J.H., Yang, S.J., Auh, J.H., Park, C. and Park, K.H., 2006. Enhancing thermostability of maltogenic amylase from Bacillus thermoalkalophilus ET2 by DNA shuffling. FEBS Journal, 273, 3335-3345.
  • Touzel, J.P., Donohue, M., Debeire, P., Samain, E. and Breton, C., 2000. Thermobacillus xylanilyticus gen. nov., sp. nov., a new aerobic bacterium International Bacteriology, 50, 315–320.
  • xylan-degrading from farm soil. Journal of Systematic
  • Tyndall, J.D., Sinchaikul, S., Fothergill-Gilmore, L.A., Taylor, P. and Walkinshaw, M.D., 2002. Crystal structure of a thermostable lipase from Bacillus stearothermophilus P1. Journal of Molecular Biology, 323, 859-869.
  • Yavuz, E., Gunes, H., Bulut, C., Harsa, S. and Yenidunya, A.F., 2004. RFLP of 16S rDNA-ITS region to differentiate lactobacilli at species level. World Journal of Microbiology and Biotechnology, 20, 535–537.
  • Yavuz, E., Gunes, H., Harsa, S. and Yenidunya, A.F., 2004b. Identification of extracellular enzyme producing thermophilic bacilli from Balcova (Agamemnon) geothermal site by 16S-ITS rDNA RFLP. Journal of Applied Microbiology, 97, 810–817.

Farklı Su ve Süt Kaynaklarından İzole Edilen Bacillus sp.'ların 16S-ITS rDNA RFLP Profillerinin Karşılaştırılması

Year 2014, Volume: 14 Issue: 2, 29 - 38, 01.08.2014

Abstract

The aim of this research was the isolation of thermophilic Bacillus sp. from different sources and grouping by 16S-ITS rDNA RFLP. Seventy-four thermophilic strains were isolated from various environmental samples. Since fifteen isolated strains were Gram (+), endospore forming rods, they were identified as Bacillus sp. These strains were screened for the existence of five extracellular enzyme activities. These were, lipases, amylases, proteases, xylanases, cellulases. 16S-ITS rDNA RFLP profiles were produced by using two restriction endonucleases Taq I and Hae III. The isolated strains were clustered into eigth groups by Taq I restriction profiles of 16S-ITS rDNA while seven groups were obtained by Hae III digestion profiles

References

  • Akbalik, G., Gunes, H., Yavuz, E., Yasa, I., Harsa, S., Elmaci, Z.S. and Yenidunya, A.F., 2004. Identification producing alkalophilic bacilli from Izmir province by 16S-ITS rDNA RFLP. Journal of Applied Microbiology, 97, 766–773. enzyme
  • Al-Awadhi, S., Welch, S.G., Smith, K.E. and Williams, R.A.D., 1998. BstB7SI (R CCGGY), a thermostable isoschizomer of Cfr10I, from a strain of Bacillus stearothermophilus isolated from oil-contaminated soil in Kuwait. FEMS Microbiology Letters, 160, 205–208.
  • Blanc, M., Marilley, L., Beffa, T. and Aragno, M., 1997. Rapid identification of heterotrophic, thermophilic, spore-forming bacteria isolated from hot composts. International Journal of Systematic Bacteriology, 47, 1246- 1248.
  • Bragger, J.M., Daniel, R.M., Coolbear, T. and Morgan, H.W., 1989. Very stable enzymes from extremely thermophilic archaebacteria and eubacteria. Applied Microbiology and Biotechnology, 31, 556-561.
  • Bulut, C., Gunes, H., Okuklu, B., Harsa, S., Kilic, S., Coban, H.S. and Yenidunya, A.F., 2005. Homofermentative lactic acid bacteria of a traditional cheese, Comlek peyniri from Cappadocia region. Journal of Dairy Research, 72, 19–24.
  • Burgess, S.A., Denise, L. and Steve, H., 2010. Flint thermophilic bacilli and their importance in dairy processing. International Journal of Food Microbiology, 144, 215–225.
  • Caccamo, D., Maugeri, T.T. and Gugliandolo, C., 2001. Identification of thermophilic and marine bacilli from shallow thermal vents by restriction analysis of their amplified 16S rDNA. Journal of Applied Microbiology, 91, 520-524.
  • Ghanem, E.H., Al-Sayed, H.A. and Saleh, K.M., 2000. An alkalophilic thermostable lipase produced by a new isolate of Bacillus alcalophilus. World Journal of Microbiology and Biotechnology, 16, 459–464.
  • González, M.J., Gorgoroso, F., Reginensi, S.M., Olivera, J.A. and Bermşdez, J., 2013. Polyphasic identification of closely related Bacillus amyloliquefaciens isolated from dairy farms and milk powder. Journal of Microbiology and Biotechnology Food Science, 2(5), 2326- 2331. and Bacillus
  • Haba, E., Bresco, O., Ferrer, C., Marques, A., Basquets, M. and Manresa, A., 2000. Isolation of lipase secreting bacteria by deploying used frying oil as selective substrate. Enzyme and Microbial Technology, 26, 40-44.
  • Holt, J.G. and Krieg, N.R., 1994. Enrichment and Isolation. In: Gerhardt P (ed) Methods for general and molecular bacteriology, ASM Publications, 197-200.
  • Jensen, M.A., Webster, J.A. and Strauss, N., 1993. Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms. Applied and Environmental Microbiology, 59, 943-952.
  • Joo, H.S. and Chang, C.S., 2005. Oxidant and SDS- stable alkaline protease from a halotolerant Bacillus clausii I-52: enhanced production and simple purification. Journal of Applied Microbiology, 98, 491–497.
  • Krulwich, T.A., 1995. Alkaliphiles: ‘basic’ molecular problems of pH tolerance and bioenergetics. Molecular Microbiology, 15, 403–410.
  • Kuisiene, N., 2002. Jomantiene R, Valiunas D, Chitavichius thermophilic proteolytic bacteria from a geothermal site in Lithuania based on 16 S rDNA RFLP and ITS-PCR analyses. Microbiology, 71, 824-828. of spore-forming
  • Mora, D., Fortina, M.G., Nicastro, G., Parini, C. and Manachini, characterization of thermophilic bacilli: a study on new soil isolates and several reference strains. Research in Microbiology, 149, 711-722. 1998. Genotypic
  • Nada, S., Ilija, D., Igor, T., Jelena, M. and Ruzica, G., 2012. Implication of food safety measures on microbiological quality of raw and pasteurized milk. Food Control, 25, 728-731.
  • Nielsen, P., Fritze, D. and Priest, F.G., 1995. Phenetic diversity strains:proposal for nine new species of alkaliphilic Bacillus species. Microbiology, 141, 1745-1761.
  • Ouoba, L.I.I., Diawara, B., Amoa-Awua, W., Traore, A.S. and Moller, P.L., 2004. Genotyping of starter cultures of Bacillus subtilis and Bacillus pumilus for fermentation of African locust bean (Parkia biglobosa) to produce Soumbala. International Journal of Food Microbiology, 90, 197- 205.
  • Paes, G. and O'Donohue, M.J., 2006. Engineering increased thermostable Thermobacillus xylanilyticus. Journal of Biotechnology, 125, 338-350. in the from GH 11 xylanase
  • Peng, X., Norihiko, M. and Shigeaki, H., 2003. Isolation thermophilic bacilli degrading cinnamic, 4- coumaric, and ferulic acids. Applied and Environmental Microbiology, 69, 1417–1427.
  • Priest, G.F., Goodfellow, M. and Todd, C., 1988. A Numerical classification of the genus Bacillus. Journal of GeneralMicrobiology, 134, 1847-1882.
  • Rainey, F.A., Fritze, D. and Stackebrandt, E., 1994. The phylogenetic diversity of thermophilic members of the genus Bacillus as revealed by 16S rDNA analysis. FEMS Microbiology Letters, 115, 205–212.
  • Ronimus, R.S., Parker, L.E., Turner, N., Poudel, S., Ruckert, A. and Morgan, H.W., 2003. RAPD- based comparison of thermophilic bacilli from milk powders. International Journal of Food Microbiology, 85, 45–61.
  • Saito, N., 1973. A thermophilic extracellular α- amylase Archieves of Biochemistry and Biophys, 155, 290-298.
  • licheniformis. Fox, A., 2001. Variation in 16S-23S rRNA intergenic spacer regions among Bacillus subtilis 168 isolates. Molecular Microbiology, 42, 101-109.
  • Takami, H. and Horikoshi, K., 2000. Analysis of an alkalophilic Bacillus strain from an industrial point of view. Extremophiles, 4, 99-108.
  • Tang, S.Y., Le, Q.T., Shim, J.H., Yang, S.J., Auh, J.H., Park, C. and Park, K.H., 2006. Enhancing thermostability of maltogenic amylase from Bacillus thermoalkalophilus ET2 by DNA shuffling. FEBS Journal, 273, 3335-3345.
  • Touzel, J.P., Donohue, M., Debeire, P., Samain, E. and Breton, C., 2000. Thermobacillus xylanilyticus gen. nov., sp. nov., a new aerobic bacterium International Bacteriology, 50, 315–320.
  • xylan-degrading from farm soil. Journal of Systematic
  • Tyndall, J.D., Sinchaikul, S., Fothergill-Gilmore, L.A., Taylor, P. and Walkinshaw, M.D., 2002. Crystal structure of a thermostable lipase from Bacillus stearothermophilus P1. Journal of Molecular Biology, 323, 859-869.
  • Yavuz, E., Gunes, H., Bulut, C., Harsa, S. and Yenidunya, A.F., 2004. RFLP of 16S rDNA-ITS region to differentiate lactobacilli at species level. World Journal of Microbiology and Biotechnology, 20, 535–537.
  • Yavuz, E., Gunes, H., Harsa, S. and Yenidunya, A.F., 2004b. Identification of extracellular enzyme producing thermophilic bacilli from Balcova (Agamemnon) geothermal site by 16S-ITS rDNA RFLP. Journal of Applied Microbiology, 97, 810–817.
There are 33 citations in total.

Details

Primary Language Turkish
Journal Section Articles
Authors

Şakire Hanoğlu This is me

S. Elif Korcan This is me

S. Feyza Erdoğmuş This is me

Muhsin Konuk This is me

Publication Date August 1, 2014
Submission Date August 8, 2015
Published in Issue Year 2014 Volume: 14 Issue: 2

Cite

APA Hanoğlu, Ş., Korcan, S. E., Erdoğmuş, S. F., Konuk, M. (2014). Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38). Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi, 14(2), 29-38.
AMA Hanoğlu Ş, Korcan SE, Erdoğmuş SF, Konuk M. Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38). Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi. August 2014;14(2):29-38.
Chicago Hanoğlu, Şakire, S. Elif Korcan, S. Feyza Erdoğmuş, and Muhsin Konuk. “Comparison of 16S-ITS RDNA RFLP Profiles of Bacillus Sp. Isolated from Milk and Different Water Sources (021004) (29-38)”. Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi 14, no. 2 (August 2014): 29-38.
EndNote Hanoğlu Ş, Korcan SE, Erdoğmuş SF, Konuk M (August 1, 2014) Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38). Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi 14 2 29–38.
IEEE Ş. Hanoğlu, S. E. Korcan, S. F. Erdoğmuş, and M. Konuk, “Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38)”, Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi, vol. 14, no. 2, pp. 29–38, 2014.
ISNAD Hanoğlu, Şakire et al. “Comparison of 16S-ITS RDNA RFLP Profiles of Bacillus Sp. Isolated from Milk and Different Water Sources (021004) (29-38)”. Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi 14/2 (August 2014), 29-38.
JAMA Hanoğlu Ş, Korcan SE, Erdoğmuş SF, Konuk M. Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38). Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi. 2014;14:29–38.
MLA Hanoğlu, Şakire et al. “Comparison of 16S-ITS RDNA RFLP Profiles of Bacillus Sp. Isolated from Milk and Different Water Sources (021004) (29-38)”. Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi, vol. 14, no. 2, 2014, pp. 29-38.
Vancouver Hanoğlu Ş, Korcan SE, Erdoğmuş SF, Konuk M. Comparison of 16S-ITS rDNA RFLP Profiles of Bacillus sp. Isolated from Milk and Different Water Sources (021004) (29-38). Afyon Kocatepe Üniversitesi Fen Ve Mühendislik Bilimleri Dergisi. 2014;14(2):29-38.