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Kargı ve Osmancık Çevresindeki Yayla Topraklarının Aktinomiset Çeşitliliği

Yıl 2020, Cilt: 7 Sayı: 2, 1038 - 1048, 30.12.2020

Demet Tatar Aysel Veyisoğlu

Öz

Bu çalışmada Çorum iline bağlı Kargı (Eğinönü), Abdullah ve Osmancık-Başpınar Karaca yaylalarından alınan toprak örneklerinden izole edilen aktinomiset suşlarının 16S rRNA gen bölgesi analizlerine göre aktinomiset çeşitliliğinin saptanması amaçlandı. Dilüsyon plak tekniğinin uygulandığı izolasyon çalışmasında 5 farklı seçici besiyeri kullanıldı. İzolatların beş farklı kültür ortamında kültürel karakterizasyonları yapıldı. Test izolatlarının 16S rRNA gen bölgesinin PZR amplifikasyonu 27F ve 1525R primerleri ile gerçekleştirildi. Filogenetik ağaçlar, MEGA 7.0 yazılım programında neighbor-joining algoritmasıyla oluşturuldu. 5 farklı izolasyon besiyerinden toplam 15 mikroorganizma seçildi ve 16S rRNA gen dizi analizine göre 15 izolatın, altısı Nocardia cinsi üyesi, beşi Streptomyces cinsi üyesi, biri Haloactinopolyspora cinsi üyesi, biri Micromonospora cinsi üyesi, biri Nocardiopsis cinsi üyesi ve birinin de Rhodococcus cinsi üyesi olduğu tespit edildi.

Anahtar Kelimeler

Aktinomiset Çeşitlilik Yayla Toprağı 16S rRNA geni

Destekleyen Kurum

Hitit Üniversitesi Bilimsel Araştırma Projeleri Koordinasyon Birimi tarafından desteklenmiştir.

Proje Numarası

ODMYO19003.18.001

Teşekkür

Çalışmaya katkılarından dolayı Prof. Dr. Nevzat Şahin'e (Ondokuz Mayıs Üniversitesi, Fen-Edebiyat Fakültesi, Moleküler Biyoloji ve Genetik Bölümü) teşekkür ediyorum.

Kaynakça

  • Fguira, L.F., Fotso, S., Ameur-Mehdi, R.B., Mellouli, L., & Laatsch, H. (2005). Purification and Structure Elucidation of Antifungal and Antibacterial Activities of Newly Isolated Streptomyces sp. Strain US80. Research in Microbiology, 156, (3), 341-345.
  • Mellouli, L., Ameur-Mehdi, R.B., Sioud, S.,Mansour, S., & Bejar, S. (2003). Isolation, Purification And Partial Characterization of Antibacterial Activities Produced by A Newly Isolated Streptomyces sp. US24 Strain. Research in Microbiology, 154, (5), 345-352.
  • Singh, L.S., Baruah, I., & Bora, T.C. (2006). Actinomycetes of Loktak Habitat: Isolation and Screening for Antimicrobial Activities. Biotechnology, 5, (2), 217-221.
  • Cassell, G. H., & Mekalanos, J. (2001). Development of Antimicrobial Agents in The Era of New and Reemerging Infectious Diseases and Increasing Antibiotic Resistance. JAMA, 285, (5), 601-605.
  • Sivaramkrishna, H., & Girish, M. (2009). Microbes An Eternal Source of Innovative Drugs. Express Pharma, 16-30 June.
  • Macagnan, D., Romeiro, R.D.S., de Souza, J.T., & Pomella, A.W.V. (2006). Isolation of Actinomycetes and Endospore-Forming Bacteria from The Cacao Pod Surface and Their Antagonistic Activity against The Witches' Broom and Black Pod Pathogens. Phytoparasitica, 34, 122-132.
  • Arifuzzaman, M., Khatun, M.R., & Rahman, H. (2010). Isolation and Screening of Actinomycetes from Sundarbans Soil for Antibacterial Activity. African Journal of Biotechnology, 9, 4615-4619.
  • Cai, Y., Xue, Q., Chen, & Zhang, R. (2009). Study on Cellulose-decomposed Actinomycetes in Soil in the Eastern of the Qinghai Plateau. Modern Applied Science, 3, (2), 83-88.
  • Zhao, J., Shao, Y., Zhao, Z., Liu, F., Zhou, H., & Li, Z. (2011). Diversity of Fungi and Actinomycetes in Soil of Enclosed and Grazing Wetland on Inner Mongolian Plateau. Advanced Materials Research, Vols. 356-360, 2703-2706.
  • Pascual, J., González, I., Estévez, M., Benito, P., & Trujillo, M.E., et al. (2016). Description of Kibdelosporangium banguiense sp. nov., A Novel Actinomycete Isolated From Soil of The Forest of Pama, on The Plateau of Bangui, Central African Republic. Antonie van Leeuwenhoek, 109, 685-695.
  • Isik, K., Gencbay, T., Ozdemir-Kocak, F., & Cil, E. (2014). Molecular Identification of Different Actinomycetes Isolated from East Black Sea Region Plateau Soil by 16S rDNA Gene Sequencing. African Journal of Microbiology Research, 8, (9), 878-887.
  • Hayakawa, M., & Nonomura, H. (1987). Humic Acid-Vitamin Agar, A New Medium for The Selective Isolation of Soil Actinomycetes. Journal of Fermentation Technology, 65, 501-509.
  • Küster, E., & Williams, S.T. (1964). Selection of Media for Isolation of Streptomycetes. Nature, 202, 928-929.
  • Jones, K.L. (1949). Fresh Isolates of Actinomycetes in which The Presence of Sporogenous Aerial Mycelia is A Fluctuating Characteristic. Journal of Bacteriology, 57, 141-145.
  • Atlas, R.M. (2010). Handbook of Microbiological Media, Fourth Edition, 1249, CRC Press, USA.
  • Shirling, E. B., & Gottlieb, D. (1966). Methods for Characterization of Streptomyces Species. International Journal of Systematic Bacteriology, 16, 313-340.
  • Kelly, K. L. (1964. Color-name charts illustrated with centroid colors. Inter-Society Color Council-National Bureau of Standards, Supplement to NBS Circ. 533, Standard sample No. 2106, Chicago.
  • Pitcher, D.G., Saunders, N.A., & Owen, R.J. (1989). Rapid Extraction of Bacterial Genomic DNA with Guanidium Thiocyanate. Letters in Applied Microbiology, 8, 151-156.
  • Kim, O.S., Cho, Y.J., Lee, K., Yoon, S.H., Kim, M., Na, H., Park, S.C., Jeon, Y.S., Lee, J.H., Yi, H., Won, S., & Chun, J. (2012). Introducing EzTaxon-e: A Prokaryotic 16S rRNA Gene Sequence Database with Phylotypes that Represent Uncultured Species. International Journal of Systematic and Evolutionary Microbiology, 62, 716-721.
  • Kumar, S., Stecher, G., & Tamura, K. (2016). MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. Molecular Biology and Evolution, 33, 1870-1874.
  • Saitou, N., & Nei, M. (1987). The Neighbour-Joining Method: A New Method for Constructing Phylogenetic Trees. Molecular and Biological Evolution, 4, 406-425.
  • Jukes, T.H., & Cantor, C.R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, 3, 21-132. Edited by H. N. Munro. New York: Academic Press.
  • Felsenstein, J. (1985). Confidence Limits on Phylogeny: An Approach Using The Bootstrap. Evolution, 39, 783-791.
  • Lane, D.J. (1991). 16S/23S rRNA Sequencing. In: Nucleic Acid Techniques in Bacterial Systematics. Stackebrandt, E., and Goodfellow, M., eds., John Wiley and Sons, New York, NY, 115-175.
  • Buchholz-Cleven, B.E.E., Rattunde, B., & Straub, K.L. (1997). Screening for Genetic Diversity of Isolates of Anaerobic Fe(II)-Oxidizing Bacteria Using DGGE and Whole-Cell Hybridization. Systematic and Applied Microbiology, 20, 301-309.
  • Chun, J. (1995). Computer Assisted Classification and Identification of Actinomycetes. PhD thesis. Department of Microbiology, University of Newcastle, Newcastle upon Tyne, UK.
  • Prakash O., Verma M., Sharma P., Kumar M., Kumari K., Singh A., Kumari H., Jit S., Gupta S. K., & et al. (2007). Polyphasic Approach of Bacterial Classification – An Overview of Recent Advances. Indian Journal of Microbiology, 47, (2), 98-108

Actinomycetes Diversity of Plateau Soils Near Kargı and Osmancık

Yıl 2020, Cilt: 7 Sayı: 2, 1038 - 1048, 30.12.2020

Demet Tatar Aysel Veyisoğlu

Öz

In this study, it was aimed to determine the diversity of actinomycetes according to 16S rRNA analysis of actinomycete isolates obtained from soil samples taken from Kargı (Eğinönü), Abdullah and Osmancık-Başpınar Karaca plateaus in Çorum Province. The isolates obtained were isolated using a dilution plate technique on 5 different selective media. Cultural characterizations of the isolates were carried out in five different culture media. PCR amplification belonging to 16S rRNA gene region of the isolates was realized out with primers of 27F and 1525R. Phylogenetic trees were formed with the neighbor-joining algorithm in MEGA 7.0 software. A total of 15 microorganisms were selected from 5 different isolation media and according to 16S rRNA gene sequence analysis of 15 isolates, six Nocardia isolates, five Streptomyces isolates, one Haloactinopolyspora isolate, one Micromonospora isolate, one Nocardiopsis isolate and one Rhodococcus isolate were determined.

Anahtar Kelimeler

Aktinomiset Diversity Plateau Soil 16S rRNA gene

Proje Numarası

ODMYO19003.18.001

Kaynakça

  • Fguira, L.F., Fotso, S., Ameur-Mehdi, R.B., Mellouli, L., & Laatsch, H. (2005). Purification and Structure Elucidation of Antifungal and Antibacterial Activities of Newly Isolated Streptomyces sp. Strain US80. Research in Microbiology, 156, (3), 341-345.
  • Mellouli, L., Ameur-Mehdi, R.B., Sioud, S.,Mansour, S., & Bejar, S. (2003). Isolation, Purification And Partial Characterization of Antibacterial Activities Produced by A Newly Isolated Streptomyces sp. US24 Strain. Research in Microbiology, 154, (5), 345-352.
  • Singh, L.S., Baruah, I., & Bora, T.C. (2006). Actinomycetes of Loktak Habitat: Isolation and Screening for Antimicrobial Activities. Biotechnology, 5, (2), 217-221.
  • Cassell, G. H., & Mekalanos, J. (2001). Development of Antimicrobial Agents in The Era of New and Reemerging Infectious Diseases and Increasing Antibiotic Resistance. JAMA, 285, (5), 601-605.
  • Sivaramkrishna, H., & Girish, M. (2009). Microbes An Eternal Source of Innovative Drugs. Express Pharma, 16-30 June.
  • Macagnan, D., Romeiro, R.D.S., de Souza, J.T., & Pomella, A.W.V. (2006). Isolation of Actinomycetes and Endospore-Forming Bacteria from The Cacao Pod Surface and Their Antagonistic Activity against The Witches' Broom and Black Pod Pathogens. Phytoparasitica, 34, 122-132.
  • Arifuzzaman, M., Khatun, M.R., & Rahman, H. (2010). Isolation and Screening of Actinomycetes from Sundarbans Soil for Antibacterial Activity. African Journal of Biotechnology, 9, 4615-4619.
  • Cai, Y., Xue, Q., Chen, & Zhang, R. (2009). Study on Cellulose-decomposed Actinomycetes in Soil in the Eastern of the Qinghai Plateau. Modern Applied Science, 3, (2), 83-88.
  • Zhao, J., Shao, Y., Zhao, Z., Liu, F., Zhou, H., & Li, Z. (2011). Diversity of Fungi and Actinomycetes in Soil of Enclosed and Grazing Wetland on Inner Mongolian Plateau. Advanced Materials Research, Vols. 356-360, 2703-2706.
  • Pascual, J., González, I., Estévez, M., Benito, P., & Trujillo, M.E., et al. (2016). Description of Kibdelosporangium banguiense sp. nov., A Novel Actinomycete Isolated From Soil of The Forest of Pama, on The Plateau of Bangui, Central African Republic. Antonie van Leeuwenhoek, 109, 685-695.
  • Isik, K., Gencbay, T., Ozdemir-Kocak, F., & Cil, E. (2014). Molecular Identification of Different Actinomycetes Isolated from East Black Sea Region Plateau Soil by 16S rDNA Gene Sequencing. African Journal of Microbiology Research, 8, (9), 878-887.
  • Hayakawa, M., & Nonomura, H. (1987). Humic Acid-Vitamin Agar, A New Medium for The Selective Isolation of Soil Actinomycetes. Journal of Fermentation Technology, 65, 501-509.
  • Küster, E., & Williams, S.T. (1964). Selection of Media for Isolation of Streptomycetes. Nature, 202, 928-929.
  • Jones, K.L. (1949). Fresh Isolates of Actinomycetes in which The Presence of Sporogenous Aerial Mycelia is A Fluctuating Characteristic. Journal of Bacteriology, 57, 141-145.
  • Atlas, R.M. (2010). Handbook of Microbiological Media, Fourth Edition, 1249, CRC Press, USA.
  • Shirling, E. B., & Gottlieb, D. (1966). Methods for Characterization of Streptomyces Species. International Journal of Systematic Bacteriology, 16, 313-340.
  • Kelly, K. L. (1964. Color-name charts illustrated with centroid colors. Inter-Society Color Council-National Bureau of Standards, Supplement to NBS Circ. 533, Standard sample No. 2106, Chicago.
  • Pitcher, D.G., Saunders, N.A., & Owen, R.J. (1989). Rapid Extraction of Bacterial Genomic DNA with Guanidium Thiocyanate. Letters in Applied Microbiology, 8, 151-156.
  • Kim, O.S., Cho, Y.J., Lee, K., Yoon, S.H., Kim, M., Na, H., Park, S.C., Jeon, Y.S., Lee, J.H., Yi, H., Won, S., & Chun, J. (2012). Introducing EzTaxon-e: A Prokaryotic 16S rRNA Gene Sequence Database with Phylotypes that Represent Uncultured Species. International Journal of Systematic and Evolutionary Microbiology, 62, 716-721.
  • Kumar, S., Stecher, G., & Tamura, K. (2016). MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. Molecular Biology and Evolution, 33, 1870-1874.
  • Saitou, N., & Nei, M. (1987). The Neighbour-Joining Method: A New Method for Constructing Phylogenetic Trees. Molecular and Biological Evolution, 4, 406-425.
  • Jukes, T.H., & Cantor, C.R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, 3, 21-132. Edited by H. N. Munro. New York: Academic Press.
  • Felsenstein, J. (1985). Confidence Limits on Phylogeny: An Approach Using The Bootstrap. Evolution, 39, 783-791.
  • Lane, D.J. (1991). 16S/23S rRNA Sequencing. In: Nucleic Acid Techniques in Bacterial Systematics. Stackebrandt, E., and Goodfellow, M., eds., John Wiley and Sons, New York, NY, 115-175.
  • Buchholz-Cleven, B.E.E., Rattunde, B., & Straub, K.L. (1997). Screening for Genetic Diversity of Isolates of Anaerobic Fe(II)-Oxidizing Bacteria Using DGGE and Whole-Cell Hybridization. Systematic and Applied Microbiology, 20, 301-309.
  • Chun, J. (1995). Computer Assisted Classification and Identification of Actinomycetes. PhD thesis. Department of Microbiology, University of Newcastle, Newcastle upon Tyne, UK.
  • Prakash O., Verma M., Sharma P., Kumar M., Kumari K., Singh A., Kumari H., Jit S., Gupta S. K., & et al. (2007). Polyphasic Approach of Bacterial Classification – An Overview of Recent Advances. Indian Journal of Microbiology, 47, (2), 98-108
Toplam 27 adet kaynakça vardır.

Ayrıntılar

Birincil Dil Türkçe
Bölüm Makaleler
Yazarlar

Demet Tatar 0000-0002-9317-3263

Aysel Veyisoğlu 0000-0002-1406-5513

Proje Numarası ODMYO19003.18.001
Yayımlanma Tarihi 30 Aralık 2020
Gönderilme Tarihi 11 Mayıs 2020
Kabul Tarihi 15 Eylül 2020
Yayımlandığı Sayı Yıl 2020 Cilt: 7 Sayı: 2

Kaynak Göster

APA Tatar, D., & Veyisoğlu, A. (2020). Kargı ve Osmancık Çevresindeki Yayla Topraklarının Aktinomiset Çeşitliliği. Bilecik Şeyh Edebali Üniversitesi Fen Bilimleri Dergisi, 7(2), 1038-1048.