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Design and Testing of Internal Amplification Controls (IAC) and Development of a Restriction Fragment Length Polymorphism (RFLP) Assay for Cylindrospermopsin Genes.

Year 2010, Volume: 27 Issue: 2, 97 - 101, 01.06.2010

Mete Yılmaz Edward J. Phlips

Abstract

Keywords

-

References

  • Abdulmawjood, A., S. Roth, M. Bulte. 2002. Two methods for construction of internal amplification controls for the detection of Escherichia coli O157 by polymerase chain reaction. Mol Cell Probes 16, 335-339.
  • Banker, R., S. Carmeli, O. Hadas, B. Teltsch, R. Porat, A. Sukenik, A. 1997. Identification of cylindrospermopsin in Aphanizomenon ovalisporum (Cyanophyceae) isolated from Lake Kinneret, Israel. J Phycol 33, 613-616.
  • Chapman, A. D., C.L. Schelske. 1997. Recent appearance of Cylindrospermopsis (Cyanobacteria) in five hypereutrophic Florida lakes. J Phycol 33, 191-195.
  • Falconer, I. R., A.R. Humpage. 2006. Cyanobacterial (blue-green algal) toxins in water supplies: Cylindrospermopsins. Environ Toxicol 21, 299-304.
  • Froscio SM, A.R. Humpage, P.C. Burcham, I.R. Falconer. 2003. Cylindrospermopsin-induced protein synthesis inhibition and its dissociation from acute toxicity in mouse hepatocytes. Environ Toxicol. 18:243-251.
  • Harada, K., I. Ohtani, K. Iwamoto, M. Suzuki, M.F. Watanabe, M. Watanabe, K. Terao, K. 1994. Isolation of cylindrospermopsin from a cyanobacterium Umezakia natans and its screening method. Toxicon 32, 73-84.
  • Hoorfar, J., B. Malorny, A. Abdulmawjood, N. Cook, M. Wagner, P. Fach. 2004. Practical considerations in design of internal amplification controls for diagnostic PCR assays. J Clin Microbiol 42, 1863-1868.
  • Li, R. H., W.W. Carmichael, S. Brittain, G.K. Eaglesham, G.R. Shaw, Y.D. Liu, M.M. Watanabe. 2001. First report of the cyanotoxins cylindrospermopsin and deoxycylindrospermopsin from Raphidiopsis curvata (Cyanobacteria). J Phycol 37, 1121-1126.
  • Mazmouz, R., F. Chapuis-Hugon, S. Mann, V. Pichon, A. Mejean, O. Ploux,. 2010. Biosynthesis of cylindrospermopsin and 7-epicylindrospermopsin in Oscillatoria sp. strain PCC 6506: identification of the cyr gene cluster and toxin analysis. Appl Environ Microbiol 76, 4943-9.
  • Mihali, T. K., R. Kellmann, J. Muenchhoff, K.D. Barrow, B.A. Neilan. 2008. Characterization of the gene cluster responsible for cylindrospermopsin biosynthesis. Appl Environ Microbiol 74, 716-722.
  • Miller, D. N., J.E. Bryant, E.L. Madsen, W.C. Ghiorse. 1999. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl Environ Microbiol 65, 4715-24.
  • Ohtani I, R.E. Moore, M.T.C. Runnegar. 1992. Cylindrospermopsin - a potent hepatotoxin from the blue green alga Cylindrospermopsis raciborskii. J Am Chem Soc. 114:7941-7942.
  • Pan, H., L.R. Song,Y.D. Liu, T. Borner. 2002. Detection of hepatotoxic Microcystis strains by PCR with intact cells from both culture and environmental samples. Arch Microbiol 178, 421-427.
  • Phlips, E. J., M. Cichra, F.J. Aldridge, J. Jembeck, J. Hendrickson, R. Brody, R. 2000. Light availability and variations in phytoplankton standing crops in a nutrient-rich blackwater river. Limnol Oceanogr 45, 916-929.
  • Preussel, K., A. Stuken, C. Wiedner, I. Chorus, J. Fastner. 2006. First report on cylindrospermopsin producing Aphanizomenon flos-aquae (Cyanobacteria) isolated from two German lakes. Toxicon 47, 156-62.
  • Schembri, M. A., B.A. Neilan, C.P. Saint. 2001. Identification of genes implicated in toxin production in the cyanobacterium Cylindrospermopsis raciborskii. Environ Toxicol 16, 413-21.
  • Seifert, M., G. McGregor, G. Eaglesham, W. Wickramasinghe, G. Shaw. 2007. First evidence for the production of cylindrospermopsin and deoxy-cylindrospermopsin by the freshwater benthic cyanobacterium, Lyngbya wollei (Farlow ex Gornont) Speziale and Dyck. Harmful Algae 6, 73-80.
  • Spoof, L., K.A. Berg, J. Rapala, K. Lahti, L. Lepisto, J.S. Metcalf, G.A. Codd, J. Meriluoto. 2006. First observation of cylindrospermopsin in Anabaena lapponica isolated from the boreal environment (Finland). Environ Toxicol 21, 552-60.
  • Stuken, A., K.S. Jakobsen. 2010. The cylindrospermopsin gene cluster of Aphanizomenon sp. strain 10E6: organization and recombination. Microbiol 156, 2438-51.
  • Tillett, D., B.A. Neilan. 2000. Xanthogenate nucleic acid isolation from cultured and environmental cyanobacteria. J Phycol 36, 251-258.
  • Tringe, S. G., E.M. Rubin. 2005. Metagenomics: DNA sequencing of environmental samples. Nature Rev Gen 6, 805-814.
  • Wilson, K. M., M.A. Schembri, P.D. Baker, C.P. Saint. 2000. Molecular characterization of the toxic cyanobacterium Cylindrospermopsis raciborskii and design of a species-specific PCR. Appl Environ Microbiol 66, 332-8.
  • Yilmaz, M., E.J. Phlips, N.J. Szabo, S. Badylak. 2008. A comparative study of Florida strains of Cylindrospermopsis and Aphanizomenon for cylindrospermopsin production. Toxicon 51, 130-9.
  • Yilmaz, M., E.J. Phlips, D. Tillett. 2009. Improved methods for the isolation of cyanobacterial DNA from environmental samples. J Phycol 45, 517-521.
  • Yilmaz, M., E.J. Phlips. 2011a. Diversity of and selection acting on cylindrospermopsin cyrB gene adenylation domain sequences in Florida. Appl Environ Microbiol 77, 2502-2507.
  • Yilmaz M., E.J. Phlips. 2011b. Toxicity and genetic diversity of Cylindrospermopsis raciborskii in Florida, USA, Lake Res Man 27:235- 244.
  • Zanardi-Lamardo, E., C.D. Clark, C.A. Moore, R.G. Zika. 2002. Comparison of the molecular mass and optical properties of colored dissolved organic material in two rivers and coastal waters by flow field-flow fractionation. Environ Sci Technol 36, 2806-2814.

Silindrospermopsin Genleri İçin Dâhili Çoğaltma Kontrollerinin (Dçk) Tasarımı ve Sınırlayıcı Parça Uzunluk Çeşitliliği (Spuç) Testinin Geliştirilmesi.

Year 2010, Volume: 27 Issue: 2, 97 - 101, 01.06.2010

Mete Yılmaz Edward J. Phlips

Abstract

Çevre örneklerinden elde edilen DNA sonraki moleküler işlemleri engelleyen yabancı maddeler içerebilir. Dâhili çoğaltma kontrollerinin (DÇK) kullanımı Polimeraz Zincirleme Reaksiyonu (PCR)’unu engelleyen bu maddeleri tespit etmenin yollarından biridir. Çalışmada, bu çoğaltma kontrollerinin en yaygın kullanılan silindrospermopsin genleri cyrB ve cyrC için kullanılması konusunda bir yöntem geliştirilmiştir. DÇK’ların kullanımı ile A.B.D’nin Florida eyaletinde bulunan Dora, Griffin, Crescent, Buffalo Bluff ve George Gölleri’nden toplanan örneklere ait DNA’ların PCR’ı engellediği gösterilmiştir. DNA’ların engelleyici maddelerden temizlenmesi sonrası Crescent, Buffalo Bluff ve George Gölleri’nde cyrB ve cyrC genleri tespit edilmiştir. Göl örnekleri, Aphanizomenon ovalisporum ve Cylindrospermopsis raciborskii’ye ait cyrB genleri için geliştirilen Sınırlayıcı Parça Uzunluk Çeşitliliği (SPUÇ) analizi bu örneklerde silindrospermopsin üreten siyanobakterinin A. ovalisporum olduğunu göstermiştir

Keywords

Aphanizomenon ovalisporum Cylindrospermopsis silindrospermopsin dâhili çoğaltma kontrolü sınırlayıcı parça uzunluk çeşitliliği

References

  • Abdulmawjood, A., S. Roth, M. Bulte. 2002. Two methods for construction of internal amplification controls for the detection of Escherichia coli O157 by polymerase chain reaction. Mol Cell Probes 16, 335-339.
  • Banker, R., S. Carmeli, O. Hadas, B. Teltsch, R. Porat, A. Sukenik, A. 1997. Identification of cylindrospermopsin in Aphanizomenon ovalisporum (Cyanophyceae) isolated from Lake Kinneret, Israel. J Phycol 33, 613-616.
  • Chapman, A. D., C.L. Schelske. 1997. Recent appearance of Cylindrospermopsis (Cyanobacteria) in five hypereutrophic Florida lakes. J Phycol 33, 191-195.
  • Falconer, I. R., A.R. Humpage. 2006. Cyanobacterial (blue-green algal) toxins in water supplies: Cylindrospermopsins. Environ Toxicol 21, 299-304.
  • Froscio SM, A.R. Humpage, P.C. Burcham, I.R. Falconer. 2003. Cylindrospermopsin-induced protein synthesis inhibition and its dissociation from acute toxicity in mouse hepatocytes. Environ Toxicol. 18:243-251.
  • Harada, K., I. Ohtani, K. Iwamoto, M. Suzuki, M.F. Watanabe, M. Watanabe, K. Terao, K. 1994. Isolation of cylindrospermopsin from a cyanobacterium Umezakia natans and its screening method. Toxicon 32, 73-84.
  • Hoorfar, J., B. Malorny, A. Abdulmawjood, N. Cook, M. Wagner, P. Fach. 2004. Practical considerations in design of internal amplification controls for diagnostic PCR assays. J Clin Microbiol 42, 1863-1868.
  • Li, R. H., W.W. Carmichael, S. Brittain, G.K. Eaglesham, G.R. Shaw, Y.D. Liu, M.M. Watanabe. 2001. First report of the cyanotoxins cylindrospermopsin and deoxycylindrospermopsin from Raphidiopsis curvata (Cyanobacteria). J Phycol 37, 1121-1126.
  • Mazmouz, R., F. Chapuis-Hugon, S. Mann, V. Pichon, A. Mejean, O. Ploux,. 2010. Biosynthesis of cylindrospermopsin and 7-epicylindrospermopsin in Oscillatoria sp. strain PCC 6506: identification of the cyr gene cluster and toxin analysis. Appl Environ Microbiol 76, 4943-9.
  • Mihali, T. K., R. Kellmann, J. Muenchhoff, K.D. Barrow, B.A. Neilan. 2008. Characterization of the gene cluster responsible for cylindrospermopsin biosynthesis. Appl Environ Microbiol 74, 716-722.
  • Miller, D. N., J.E. Bryant, E.L. Madsen, W.C. Ghiorse. 1999. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl Environ Microbiol 65, 4715-24.
  • Ohtani I, R.E. Moore, M.T.C. Runnegar. 1992. Cylindrospermopsin - a potent hepatotoxin from the blue green alga Cylindrospermopsis raciborskii. J Am Chem Soc. 114:7941-7942.
  • Pan, H., L.R. Song,Y.D. Liu, T. Borner. 2002. Detection of hepatotoxic Microcystis strains by PCR with intact cells from both culture and environmental samples. Arch Microbiol 178, 421-427.
  • Phlips, E. J., M. Cichra, F.J. Aldridge, J. Jembeck, J. Hendrickson, R. Brody, R. 2000. Light availability and variations in phytoplankton standing crops in a nutrient-rich blackwater river. Limnol Oceanogr 45, 916-929.
  • Preussel, K., A. Stuken, C. Wiedner, I. Chorus, J. Fastner. 2006. First report on cylindrospermopsin producing Aphanizomenon flos-aquae (Cyanobacteria) isolated from two German lakes. Toxicon 47, 156-62.
  • Schembri, M. A., B.A. Neilan, C.P. Saint. 2001. Identification of genes implicated in toxin production in the cyanobacterium Cylindrospermopsis raciborskii. Environ Toxicol 16, 413-21.
  • Seifert, M., G. McGregor, G. Eaglesham, W. Wickramasinghe, G. Shaw. 2007. First evidence for the production of cylindrospermopsin and deoxy-cylindrospermopsin by the freshwater benthic cyanobacterium, Lyngbya wollei (Farlow ex Gornont) Speziale and Dyck. Harmful Algae 6, 73-80.
  • Spoof, L., K.A. Berg, J. Rapala, K. Lahti, L. Lepisto, J.S. Metcalf, G.A. Codd, J. Meriluoto. 2006. First observation of cylindrospermopsin in Anabaena lapponica isolated from the boreal environment (Finland). Environ Toxicol 21, 552-60.
  • Stuken, A., K.S. Jakobsen. 2010. The cylindrospermopsin gene cluster of Aphanizomenon sp. strain 10E6: organization and recombination. Microbiol 156, 2438-51.
  • Tillett, D., B.A. Neilan. 2000. Xanthogenate nucleic acid isolation from cultured and environmental cyanobacteria. J Phycol 36, 251-258.
  • Tringe, S. G., E.M. Rubin. 2005. Metagenomics: DNA sequencing of environmental samples. Nature Rev Gen 6, 805-814.
  • Wilson, K. M., M.A. Schembri, P.D. Baker, C.P. Saint. 2000. Molecular characterization of the toxic cyanobacterium Cylindrospermopsis raciborskii and design of a species-specific PCR. Appl Environ Microbiol 66, 332-8.
  • Yilmaz, M., E.J. Phlips, N.J. Szabo, S. Badylak. 2008. A comparative study of Florida strains of Cylindrospermopsis and Aphanizomenon for cylindrospermopsin production. Toxicon 51, 130-9.
  • Yilmaz, M., E.J. Phlips, D. Tillett. 2009. Improved methods for the isolation of cyanobacterial DNA from environmental samples. J Phycol 45, 517-521.
  • Yilmaz, M., E.J. Phlips. 2011a. Diversity of and selection acting on cylindrospermopsin cyrB gene adenylation domain sequences in Florida. Appl Environ Microbiol 77, 2502-2507.
  • Yilmaz M., E.J. Phlips. 2011b. Toxicity and genetic diversity of Cylindrospermopsis raciborskii in Florida, USA, Lake Res Man 27:235- 244.
  • Zanardi-Lamardo, E., C.D. Clark, C.A. Moore, R.G. Zika. 2002. Comparison of the molecular mass and optical properties of colored dissolved organic material in two rivers and coastal waters by flow field-flow fractionation. Environ Sci Technol 36, 2806-2814.
There are 27 citations in total.

Details

Primary Language Turkish
Journal Section Articles
Authors

Mete Yılmaz

Edward J. Phlips

Publication Date June 1, 2010
Submission Date December 7, 2015
Published in Issue Year 2010 Volume: 27 Issue: 2

Cite

APA Yılmaz, M., & Phlips, E. J. (2010). Silindrospermopsin Genleri İçin Dâhili Çoğaltma Kontrollerinin (Dçk) Tasarımı ve Sınırlayıcı Parça Uzunluk Çeşitliliği (Spuç) Testinin Geliştirilmesi. Ege Journal of Fisheries and Aquatic Sciences, 27(2), 97-101.