Isolation, Identification and Molecular Characterization of Streptomyces Bacteria from Sediment Samples Taken from Certain Points of Aras River
Abstract
Aras river has a very important place in terms of geographical and ecological sense. It is thought that the detection, isolation, diagnosis and characterization of Streptomyces diversity in the Aras river will contribute to the scientific world in the fields of microbiological and molecular biology and genetics. Streptomyces species have a very important place for the scientific world, because there are many important substances produced by these bacterial species, especially antibiotics. Samples taken from Erzurum Horasan, Kars Karakurt and Iğdır Tuzluca regions where Aras river passes were examined in terms of Streptomyces diversity. The pH and moisture ratios of the sediment samples taken from the determined localities were determined. Isolation, purification and color group determination studies were performed using Bennet's Agar and M65 media. Biochemical, phenotypic and molecular tests were applied to diagnose these bacterial groups. Spore chain morphology of the isolates determined according to the color group was visualized (SEM). Sequence analysis of 16 S rDNA gene regions of bacteria to be isolated microbiologically was performed. The sequences to be obtained after this process were compared with the genbank data, and the molecular affinity and similarity rates of the isolated bacteria were obtained.
Project Number
FBA-2019-7939
References
- Aghighi, S., Bonjar, G.H., Rawashdeh, R., Batayneh, S. & Saadoun, I. (2004). First Report of Antifungal Spectra of Activity of Iranian Actinomycetes Strains Aganist Alternaria solani, Alternaria alternate, Fusarium solani, Phytophthora megasperma, Verticillium dahliae and Saccharomyces cerevisiae. Asian Journal of Plant Sciences, 3(4), 463-471. DOI: 10.3923/ajps.2004.463.471
- Anderson, A. & Wellington, S. (2001). The taxonomy of Streptomyces and related genera. International Journal of Systematic and Evolutionary Microbiology, 51(3), 797-814. DOI: 10.1099/00207713-51-3-797
- Anonim, (2013). 2012 Yılı Kars İli Çevre Durum Raporu, Çevre ve Şehircilik Bakanlığı, Kars İl Müdürlüğü, Kars, 132s.
- Anonim. (2023). https://www.britannica.com/science/Streptomyce s, Erişim Tarihi: 28.03.2022, Saat 08:55.
- Brown-Elliot, B.A., Brown, J.M., Conville, P.S. & Wallace, R.J. (2006). Clinical and Laboratory features of the Nocardia spp. Based on current molecular taksonomy. Clinical Microbiology Reviews, 19(2), 259-282. DOI: 10.1128/CMR.19.2.259-282.2006
- Cavalier-Smith, T. (2002). The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. International Journal of Systematic and Evolutionary Microbiology, 52(1), 7-76. DOI: 10.1099/00207713-52-1-7
- Cheng, C., Li, Y.Q., Asem, M.D., Lu, C.Y., Shi, X.H. & Li, X.C. (2016). Streptomyces xinjiangensissp. nov., an actinomycetes isolated from Lop Nur region, Archives of Microbiology, 198(8), 785- 791. DOI: 10.1007/s00203-016-1234-4
- Demain, A.L. (2014). Importance of microbial natural products and the need to revitalize their discovery. Journal of Industrial Microbiology and Biotechnology, 41(2), 185-201. DOI: 10.1007/s10295-013-1325-z
- Demiralp, B., Büyük, İ., Aras, S. & Cansaran-Duman, D. (2015). Lakkaz Enziminin Endüstriyel ve Biyoteknoloji Alanlarında Kullanımı. Türk Hijyen ve Deneysel Biyoloji Dergisi, 72(4), 351-68.
- Goodfellow, M. & Simpson, K.E. (1987). Ecology of Streptomycetes. Frontiers in Applied Microbiology, 2, 97-125.
- Hasani, A., Kariminik, A. & Issazadeh, K. (2014). Streptomycetes: Characteristics and Their Antimicrobial Activities. International journal of Advanced Biological and Biomedical Research, 2(1), 63-75.
- Law, J.W.F., Ser, H.L., Duangjai, A., Saokaew, S., Bukhari, S.I., Khan, T.M. & Lee, L.H. (2017). Streptomyces colonosanans sp. nov., A Novel Actinobacterium Isolated from Malaysia Mangrove Soil Exhibiting Antioxidative Activity and Cytotoxic Potential against Human Colon Cancer Cell Lines. Frontiers in microbiology, 8, 877. DOI: 10.3389/fmicb.2017.00877
- Lewin, G.R., Carlos, C., Chevrette, M.G., Horn, H.A., McDonald, B.R., Stankey, R.J., Fox, B.J. & Currie, C.R. (2016). “Evolution and Ecology of Actinobacteria and Their Bioenerg Applications”. Annual Review of Microbiology, 8(70), 235-254. DOI: 10.1146/annurev-micro-102215-095748
- Li, X.L., Xu, M.J., Zhao, Y.L. & Xu, J. (2010). A novel benzo [f] [1,7] naphthyridine produced by Streptomyces albogriseolus from mangrove sediments. Molecules, 15(12), 9298-9307. DOI: 10.3390/molecules15129298
- Ludwig W. (2007). Nucleic acid techniques in bacterial systematics and identification. International Journal of Food Microbiology, 120(3), 225-236. DOI: 10.1016/j.ijfoodmicro.2007.06.023
- Önalan, Ş. (2019). Expression differences of stress and immunity genes in rainbow trout (Oncorhynchus mykiss, Walbaum 1792) with different bacterial fish diseases. Israeli Journal of Aquaculture - Bamidgeh, 71(1), 1597.
- Önalan, Ş. & Seçkin, H. (2021). Miseq sequence identification of bacteria isolated from Çıldır Lake. Eastern Anatolian Journal of Science, 7(2), 11-15.
- Özdemir K. & Ünal, D.H. (2019). Sapanca Gölü (Sakarya) Havzası Toprak ve Sedimentlerinden Streptomyces Cinsi Bakterilerin İzolasyonu, Karakterizasyonu ve Teşhisi. Bitlis Eren Üniversitesi Fen Bilimleri Dergisi, 8(3), 826-834. https://doi.org/10.17798/bitlisfen.539750
- Özok, Ö. & Özdemir, K. (2019). Sakarya ili ormanlık alan topraklarından Streptomyces türlerinin izolasyonu, karakterizasyonu ve bazı ekstraselüler enzimlerin üretiminin belirlenmesi. Toprak Bilimi ve Bitki Besleme Dergisi, 7(1), 64-71. DOI: 10.33409/tbbbd.595174
- Prakash, O., Verma, M., Sharma, P., Kumar, M., Kumari, K., Singh, A., Kumari, H., Jit, S. & Gupta, S.K. (2007). Polyphasic Approach of Bacterial Classification - An Overview of Recent Advances. Indian Journal of Microbiology, 47:(2), 98-108.
- Procopio, R.E.L., Silva, I.R., Martins, M.K., Azevedo, J.L. & Araujo, J.M. (2012). Antibiotics produced by Streptomyces. Brazilian Journal of Infectious Diseases, 16(5), 466-471. DOI: 10.1016/j.bjid.2012.08.014
- Rao, K.V.R. & Rao, T.R. (2013). Molecular characterization and its antioxidant activity of a newly isolated Streptomyces coelicoflavus BC 01 from mangrove soil. Journal of Young Pharmacists, 5(4), 121-126. DOI: 10.1016/j.jyp.2013.10.002
- Reed, J.F. & Cumming, R.W. (1945). “Soil reaction glass electrodes and calorimetric methods for determining pH value of soil”. Soil science, 59, 97-104.
- Rowbotham, T.J. & Cross, T. (1977). Rhodochrous-type organisms from freshwater habitats. In Proceedings of the Society for General Microbiology, 3, 100-101.
- Seçkin, H. (2018). Van Gölüne Dökülen Akarsulardan Streptomyces Türlerinin İzolasyonu Teşhisi ve Moleküler Tanısı, Doktora Tezi (Basılmamış) YYÜ. Fen Bilimleri Enstitüsü.
- Seçkin, H. & Özdemir, K. (2021). Determination of the growth rate of medicinally important Streptomyces bacteria in different media. Van Sağlık Bilimleri Dergisi, 14(3), 304-311. DOI: 10.52976/vansaglik.933104
- Ser, H.L., Zainal, N., Palanisamy, U.D., Goh, B.H., Yin W.F. & Chan, K.G. (2015). Streptomyces gilvigriseus sp. nov., a novel actinobacterium isolated from mangrove forest soil. Antonie van Leeuwenhoek, 107(6), 1369-1378. DOI: 10.1007/s10482-015-0431-5
- Sharma, K.T., Mawlankar, R., Sonalkar, V.V., Shinde, V.K., Zhan, J., Li, W.J., Rele, M.V., Dastager, S.G. & Kumar L.S. (2016). “Streptomyces lonarensis sp. nov., isolated from Lonar Lake, a meteorite salt water lake in India”. Antonie van Leeuwenhoek 109, 225-235, DOI: 10.1007/s10482-015-0626-9
- Sousa, J. & Olivares, F. (2016). Plant growth promotion by Streptomycetes: ecophysiology, mechanisms and application. Chemical and Biological Technologies in Agriculture, 3, 24. DOI: 10.1186/s40538-016-0073-5
- Thumar, J.T., Dhulia, K. & Singh, S.P. (2010). Isolation and partial purification of an antimicrobial agent from halotolerant alkaliphilic Streptomyces aburaviensis strain Kut-8. World Journal of Microbiology and Biotechnology, 26(11), 2081- 2087. DOI: 10.1007/s11274-010-0394-7.
Aras Nehrinin Belirli Noktalarından Alınan Sediment Örneklerinden Streptomyces Bakterilerinin İzolasyonu Teşhisi ve Moleküler Karakterizasyonu
Abstract
Aras Nehri coğrafik ve ekolojik anlamda çok önemli bir yere sahiptir. Aras Nehrindeki Streptomyces çeşitliliğinin tespit edilmesi, izolasyonu, teşhisi ve karakterizasyonunun, mikrobiyolojik ve moleküler biyoloji ve genetik alanlarında bilim dünyasına katkı sağlayacağı düşünülmektedir. Streptomyces türleri bilim dünyası için çok önemli bir yere sahiptir, çünkü bu bakteri türlerinin ürettiği başta antibiyotikler olmak üzere birçok önemli madde bulunmaktadır. Aras Nehrinin geçtiği Erzurum Horasan, Kars Karakurt ve Iğdır Tuzluca bölgelerinden alınan numuneler Streptomyces çeşitliliği bakımından incelendi. Belirlenen lokalitelerden alınan sediment örneklerinin pH ve nem oranları tespit edildi. Bennet’s Agar ve M65 besiyerleri kullanılarak izolasyon, saflaştırma ve renk grubu belirleme çalışması yapıldı. Bu bakteri gruplarının teşhisi amacıyla biyokimyasal, fenotipik ve moleküler testler uygulandı. Renk grubuna göre belirlenen izolatların Spor zincir morfolojisi görüntülendi (SEM). Mikrobiyolojik olarak izole edilecek bakterilerin 16 S rDNA gen bölgelerinin sekans analizi gerçekleştirildi. Bu işlemin ardından elde edilen diziler Genbank verileri ile karşılaştırılarak izole edilen bakterilerin moleküler yakınlık ve benzerlik oranları elde edildi.
Keywords
Aras Nehri Streptomyces DNA izolasyonu 16 S rDNA Sekans analizi Aras River Streptomyces DNA isolation 16 S rDNA Sequence analysis
Supporting Institution
Van Yüzüncü Yıl Üniversitesi, Bilimsel Araştırma Projeleri Koordinasyon Birimi
Project Number
FBA-2019-7939
Thanks
Bu çalışma Van Yüzüncü Yıl Üniversitesi, Bilimsel Araştırma Projeleri Başkanlığı tarafından desteklenen FBA-2019-7939 nolu projesi kapsamında gerçekleştirilmiştir.
References
- Aghighi, S., Bonjar, G.H., Rawashdeh, R., Batayneh, S. & Saadoun, I. (2004). First Report of Antifungal Spectra of Activity of Iranian Actinomycetes Strains Aganist Alternaria solani, Alternaria alternate, Fusarium solani, Phytophthora megasperma, Verticillium dahliae and Saccharomyces cerevisiae. Asian Journal of Plant Sciences, 3(4), 463-471. DOI: 10.3923/ajps.2004.463.471
- Anderson, A. & Wellington, S. (2001). The taxonomy of Streptomyces and related genera. International Journal of Systematic and Evolutionary Microbiology, 51(3), 797-814. DOI: 10.1099/00207713-51-3-797
- Anonim, (2013). 2012 Yılı Kars İli Çevre Durum Raporu, Çevre ve Şehircilik Bakanlığı, Kars İl Müdürlüğü, Kars, 132s.
- Anonim. (2023). https://www.britannica.com/science/Streptomyce s, Erişim Tarihi: 28.03.2022, Saat 08:55.
- Brown-Elliot, B.A., Brown, J.M., Conville, P.S. & Wallace, R.J. (2006). Clinical and Laboratory features of the Nocardia spp. Based on current molecular taksonomy. Clinical Microbiology Reviews, 19(2), 259-282. DOI: 10.1128/CMR.19.2.259-282.2006
- Cavalier-Smith, T. (2002). The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. International Journal of Systematic and Evolutionary Microbiology, 52(1), 7-76. DOI: 10.1099/00207713-52-1-7
- Cheng, C., Li, Y.Q., Asem, M.D., Lu, C.Y., Shi, X.H. & Li, X.C. (2016). Streptomyces xinjiangensissp. nov., an actinomycetes isolated from Lop Nur region, Archives of Microbiology, 198(8), 785- 791. DOI: 10.1007/s00203-016-1234-4
- Demain, A.L. (2014). Importance of microbial natural products and the need to revitalize their discovery. Journal of Industrial Microbiology and Biotechnology, 41(2), 185-201. DOI: 10.1007/s10295-013-1325-z
- Demiralp, B., Büyük, İ., Aras, S. & Cansaran-Duman, D. (2015). Lakkaz Enziminin Endüstriyel ve Biyoteknoloji Alanlarında Kullanımı. Türk Hijyen ve Deneysel Biyoloji Dergisi, 72(4), 351-68.
- Goodfellow, M. & Simpson, K.E. (1987). Ecology of Streptomycetes. Frontiers in Applied Microbiology, 2, 97-125.
- Hasani, A., Kariminik, A. & Issazadeh, K. (2014). Streptomycetes: Characteristics and Their Antimicrobial Activities. International journal of Advanced Biological and Biomedical Research, 2(1), 63-75.
- Law, J.W.F., Ser, H.L., Duangjai, A., Saokaew, S., Bukhari, S.I., Khan, T.M. & Lee, L.H. (2017). Streptomyces colonosanans sp. nov., A Novel Actinobacterium Isolated from Malaysia Mangrove Soil Exhibiting Antioxidative Activity and Cytotoxic Potential against Human Colon Cancer Cell Lines. Frontiers in microbiology, 8, 877. DOI: 10.3389/fmicb.2017.00877
- Lewin, G.R., Carlos, C., Chevrette, M.G., Horn, H.A., McDonald, B.R., Stankey, R.J., Fox, B.J. & Currie, C.R. (2016). “Evolution and Ecology of Actinobacteria and Their Bioenerg Applications”. Annual Review of Microbiology, 8(70), 235-254. DOI: 10.1146/annurev-micro-102215-095748
- Li, X.L., Xu, M.J., Zhao, Y.L. & Xu, J. (2010). A novel benzo [f] [1,7] naphthyridine produced by Streptomyces albogriseolus from mangrove sediments. Molecules, 15(12), 9298-9307. DOI: 10.3390/molecules15129298
- Ludwig W. (2007). Nucleic acid techniques in bacterial systematics and identification. International Journal of Food Microbiology, 120(3), 225-236. DOI: 10.1016/j.ijfoodmicro.2007.06.023
- Önalan, Ş. (2019). Expression differences of stress and immunity genes in rainbow trout (Oncorhynchus mykiss, Walbaum 1792) with different bacterial fish diseases. Israeli Journal of Aquaculture - Bamidgeh, 71(1), 1597.
- Önalan, Ş. & Seçkin, H. (2021). Miseq sequence identification of bacteria isolated from Çıldır Lake. Eastern Anatolian Journal of Science, 7(2), 11-15.
- Özdemir K. & Ünal, D.H. (2019). Sapanca Gölü (Sakarya) Havzası Toprak ve Sedimentlerinden Streptomyces Cinsi Bakterilerin İzolasyonu, Karakterizasyonu ve Teşhisi. Bitlis Eren Üniversitesi Fen Bilimleri Dergisi, 8(3), 826-834. https://doi.org/10.17798/bitlisfen.539750
- Özok, Ö. & Özdemir, K. (2019). Sakarya ili ormanlık alan topraklarından Streptomyces türlerinin izolasyonu, karakterizasyonu ve bazı ekstraselüler enzimlerin üretiminin belirlenmesi. Toprak Bilimi ve Bitki Besleme Dergisi, 7(1), 64-71. DOI: 10.33409/tbbbd.595174
- Prakash, O., Verma, M., Sharma, P., Kumar, M., Kumari, K., Singh, A., Kumari, H., Jit, S. & Gupta, S.K. (2007). Polyphasic Approach of Bacterial Classification - An Overview of Recent Advances. Indian Journal of Microbiology, 47:(2), 98-108.
- Procopio, R.E.L., Silva, I.R., Martins, M.K., Azevedo, J.L. & Araujo, J.M. (2012). Antibiotics produced by Streptomyces. Brazilian Journal of Infectious Diseases, 16(5), 466-471. DOI: 10.1016/j.bjid.2012.08.014
- Rao, K.V.R. & Rao, T.R. (2013). Molecular characterization and its antioxidant activity of a newly isolated Streptomyces coelicoflavus BC 01 from mangrove soil. Journal of Young Pharmacists, 5(4), 121-126. DOI: 10.1016/j.jyp.2013.10.002
- Reed, J.F. & Cumming, R.W. (1945). “Soil reaction glass electrodes and calorimetric methods for determining pH value of soil”. Soil science, 59, 97-104.
- Rowbotham, T.J. & Cross, T. (1977). Rhodochrous-type organisms from freshwater habitats. In Proceedings of the Society for General Microbiology, 3, 100-101.
- Seçkin, H. (2018). Van Gölüne Dökülen Akarsulardan Streptomyces Türlerinin İzolasyonu Teşhisi ve Moleküler Tanısı, Doktora Tezi (Basılmamış) YYÜ. Fen Bilimleri Enstitüsü.
- Seçkin, H. & Özdemir, K. (2021). Determination of the growth rate of medicinally important Streptomyces bacteria in different media. Van Sağlık Bilimleri Dergisi, 14(3), 304-311. DOI: 10.52976/vansaglik.933104
- Ser, H.L., Zainal, N., Palanisamy, U.D., Goh, B.H., Yin W.F. & Chan, K.G. (2015). Streptomyces gilvigriseus sp. nov., a novel actinobacterium isolated from mangrove forest soil. Antonie van Leeuwenhoek, 107(6), 1369-1378. DOI: 10.1007/s10482-015-0431-5
- Sharma, K.T., Mawlankar, R., Sonalkar, V.V., Shinde, V.K., Zhan, J., Li, W.J., Rele, M.V., Dastager, S.G. & Kumar L.S. (2016). “Streptomyces lonarensis sp. nov., isolated from Lonar Lake, a meteorite salt water lake in India”. Antonie van Leeuwenhoek 109, 225-235, DOI: 10.1007/s10482-015-0626-9
- Sousa, J. & Olivares, F. (2016). Plant growth promotion by Streptomycetes: ecophysiology, mechanisms and application. Chemical and Biological Technologies in Agriculture, 3, 24. DOI: 10.1186/s40538-016-0073-5
- Thumar, J.T., Dhulia, K. & Singh, S.P. (2010). Isolation and partial purification of an antimicrobial agent from halotolerant alkaliphilic Streptomyces aburaviensis strain Kut-8. World Journal of Microbiology and Biotechnology, 26(11), 2081- 2087. DOI: 10.1007/s11274-010-0394-7.
Details
| Primary Language | Turkish |
|---|---|
| Journal Section | Articles |
| Authors | |
| Project Number | FBA-2019-7939 |
| Publication Date | March 31, 2023 |
| Submission Date | January 3, 2023 |
| Acceptance Date | March 28, 2023 |
| Published in Issue | Year 2023 Volume: 8 Issue: 1 |
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