Research Article
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Year 2023, Volume: 1 Issue: 2, 57 - 64, 30.11.2023

Abstract

Project Number

1504

References

  • P. H. Rampelotto, “Extremophiles and Extreme Environments,” Life, vol. 3, no. 3, pp. 482–485, Aug. 2013, doi:10.3390/life3030482.
  • L. Sawle and K. Ghosh, “How Do Thermophilic Proteins and Proteomes Withstand High Temperature?,” Biophys. J., vol. 101, no. 1, pp. 217–227, Jul. 2011, doi:10.1016/j.bpj.2011.05.059.
  • M. E. DeCastro, E. Rodriguez-Belmonte, and M. I. Gonzalez-Siso, “Metagenomics of Thermophiles with a Focus on Discovery of Novel Thermozymes,” Front. in Microbiol., vol. 7, 1521, Sept. 2016, doi:10.3389/fmicb.2016.01521.
  • J. Atalah, P. Cáceres-Moreno, G. Espina, and J. M. Blamey, “Thermophiles and the Applications of Their Enzymes as New Biocatalysts,” Bioresour. Technol., vol. 280, pp. 478–488, May. 2019, doi:10.1016/j.biortech.2019.02.008.
  • U. Serpen and R. DiPippo, “Turkey-A Geothermal Success Story: A Retrospective and Prospective Assessment,” Geothermics, vol. 101, 102370, May. 2022, doi:10.1016/j.geothermics.2022.102370.
  • Maden Tetkik ve Arama Genel Müdürlüğü (MTA), “Türkiye Jeotermal Enerji Potansiyeli ve Arama Çalışmaları,” https://www.mta.gov.tr/v3.0/arastirmalar/jeotermal-enerji-arastirmalari. [Access Date: 12-April-2023].
  • A. Adıgüzel, K. İnan, F. Şahin, T. Arasoğlu, M. Güllüce, A. O. Beldüz, and Z. Barış, “Molecular Diversity of Thermophilic Bacteria Isolated from Pasinler Hot Spring,” Turk. J. Biol., vol. 35, no. 3, pp. 267–274, Jan. 2011, doi:10.3906/biy-0908-7.
  • E. Celikoglu and M. Yilmaz Cankilic, “Prokaryotic Diversity of Hot Springs in Balikesir and Kütahya, Turkey,” Appl. Ecol. Environ. Res., vol. 14, no. 4, pp. 429–440, Sep. 2016, doi:10.15666/aeer/1404_429440.
  • K. Inan, A. Ozer, H. I. Güler, A. O. Belduz, and S. Canakci, “Brevibacillus gelatini sp. nov., Isolated from a Hot Spring,” Int. J. Syst. Evol., vol. 66, no. 2, pp. 712–718, Feb. 2016, doi:10.1099/ijsem.0.000780.
  • M. O. Baltaci, H. Ay, S. Akbulut, G. Adiguzel, S. Albayrak, M. A. Omeroglu, H. Ozkan, M. Taskın, and A. Adiguzel, “Bacillus pasinlerensis sp. nov., a Thermophilic Bacterium Isolated from a Hot Spring in Turkey,” Int. J. Syst. Evol. Microbiol., vol. 70, no. 6, pp. 3865–3871, Jun. 2020, doi:10.1099/ijsem.0.004246.
  • S. Çalışkan-Özdemir, S. Önal, and A. Uzel, “Partial Purification and Characterization of a Thermostable Phytase Produced by Thermotolerant Aspergillus tubingensis TEM 37 Isolated from Hot Spring Soil in Gediz Geothermal Field, Turkey,” Geomicrobiol. J., vol. 38, no. 10, pp. 895–904, Sept. 2021, doi:10.1080/01490451.2021.1977432.
  • F. Matpan Bekler, K. Güven, and R. Gül Güven, “Purification and Characterization of Novel α-Amylase from Anoxybacillus ayderensis FMB1,” Biocatal. Biotransformation, vol. 39, no. 4, pp. 322–332, Dec. 2020, doi:10.1080/10242422.2020.1856097.
  • B. Genc, H. Nadaroglu, A. Adiguzel, and O. Baltaci, “Purification and Characterization of an Extracellular Cellulase from Anoxybacillus gonensis O9 Isolated from Geothermal Area in Turkey,” J. Environ. Biol., vol. 36, no. 6, pp. 1319–1324, Nov. 2015.
  • I. Çelik and E. Keskin, “Revealing the Microbiome of Four Different Thermal Springs in Turkey with Environmental DNA Metabarcoding,” Biology, vol. 11, no. 7, 998, Jun. 2022, doi:10.3390/biology11070998.
  • A. Strazzulli, S. Fusco, B. Cobucci-Ponzano, M. Moracci, and P. Contursi, “Metagenomics of Microbial and Viral Life in Terrestrial Geothermal Environments,” Rev. Environ. Sci. Biotechnol., vol. 16, pp. 425–454, Jun. 2017, doi:10.1007/s11157-017-9435-0.
  • L. Uribe‐Lorío, L. Brenes-Guillén, W. Hernández‐Ascencio, R. Mora‐Amador, G. González, C. J. Ramírez‐Umaña, B. Díez, and C. Pedrós‐Alió, “The Influence of Temperature and pH on Bacterial Community Composition of Microbial Mats in Hot Springs from Costa Rica,” Microbiologyopen, vol. 8, no.10, e893, Oct. 2019, doi:10.1002/mbo3.893.
  • D. Peterson, K.S. Bonham, S. Rowland, C.W. Pattanayak, and V. Klepac-Ceraj, “Comparative Analysis of 16S rRNA Gene and Metagenome Sequencing in Pediatric Gut Microbiomes,” Front. Microbiol., vol. 12, Jul. 2021, doi:10.3389/fmicb.2021.670336.
  • K. F. Al, and J. P. Burton, “Processing Human Urine and Ureteral Stents for 16S rRNA Amplicon Sequencing,” STAR Protoc., vol. 2, no. 2, 100435, Jun. 2021, doi:10.1016/j.xpro.2021.100435.
  • N. An, C. Wang, X. Dou, X. Liu, J. Wu, and Y. Cheng, “Comparison of 16S rDNA Amplicon Sequencing with the Culture Method for Diagnosing Causative Pathogens in Bacterial Corneal Infections,” Transl. Vis. Sci. Technol., vol. 11, no. 2, 29, Feb. 2022, doi:10.1167/tvst.11.2.29.
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  • M. Oztug, A. Cebeci, H. Mumcu, M. Akgoz, and N. G. Karaguler, “Whole-Genome Sequence of Geobacillus thermoleovorans ARTRW1, Isolated from Armutlu Geothermal Spring, Turkey,” Microbiol. Resour. Announc., vol. 9, no. 24, e00269-20, Jun. 2020, doi:10.1128/mra.00269-20.
  • Wasimuddin, K. Schlaeppi, F. Ronchi, S. L. Leib, M. Erb, and A. Ramette, “Evaluation of Primer Pairs for Microbiome Profiling from Soils to Humans within the One Health Framework,” Mol. Ecol. Resour., vol. 20, no. 6, pp. 1558–1571, Jun. 2020, doi:10.1111/1755-0998.13215.
  • M. Martin, “Cutadapt Removes Adapter Sequences from High-throughput Sequencing Reads,” EMBnet. j., vol. 17, no. 1, pp. 10–12, May. 2011, doi:10.14806/ej.17.1.200.
  • E. Bolyen, J. R. Rideout, M. R. Dillon, N. A. Bokulich, C. C. Abnet, G. A. Al-Ghalith, H. Alexander, E. J. Alm, M. Arumugam, F. Asnicar, Y. Bai, J. E. Bisanz, K. Bittinger, A. Brejnrod, C. J. Brislawn, C. T. Brown, B. J. Callahan, A. M. Caraballo-Rodríguez, J. Chase, E. K. Cope, … and J. G. Caporaso, “Reproducible, Interactive, Scalable and Extensible Microbiome Data Science Using QIIME 2,” Nat. Biotechnol., vol. 37, no. 8, pp. 852–857, Jul. 2019, doi:10.1038/s41587-019-0209-9.
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  • T. Eisenlohr, “The Thermal Springs of the Armutlu Peninsula (NW Turkey) and their Relationship to Geology and Tectonic,” in Active Tectonics of Northwestern Anatolia – The MARMARA Poly-Project, vdf Hochschulverlag AG an der ETH Zurich, 1997, pp. 197-228.
  • B. Tunc, D. Caka, T. S. Irmak, H. Woith, S. Tunc, Ş. Bariş, M. F. Ozer, B. G. Lühr, E. Günther, H. Grosser, and J. Zschau, “The Armutlu Network: An Investigation into the Seismotectonic Setting of Armutlu–Yalova–Gemlik and the Surrounding Regions,” Ann. Geophys., vol. 54, no. 1, pp.35–45, Apr. 2011, doi:10.4401/ag-4877.
  • M. Sofía Urbieta, E. G. Toril, M. Alejandra Giaveno, A. A. Bazán, and E. R. Donati, “Archaeal and Bacterial Diversity in Five Different Hydrothermal Ponds in the Copahue Region in Argentina,” Syst. Appl. Microbiol., vol. 37, no. 6, pp. 429–441, Sept. 2014, doi:10.1016/j.syapm.2014.05.012.
  • B. Chaudhuri, T. Chowdhury, and B. Chattopadhyay, “Comparative Analysis of Microbial Diversity in Two Hot Springs of Bakreshwar, West Bengal, India,” Genom. Data., vol. 27, no. 12, pp. 122–129, Apr. 2017, doi:10.1016/j.gdata.2017.04.001.
  • M. Adjeroud, J. J. Escuder-Rodríguez, M. I. González-Siso and M. Kecha, “Metagenomic Investigation of Bacterial and Archaeal Diversity of Hammam Essalihine Hot Spring from Khenchela, Algeria,” Geomicrobiol. J., vol. 37, no. 9, pp. 804–817, Jun. 2020, doi:10.1080/01490451.2020.1783035.
  • A. Mashzhan, R. Javier-López, A. Kistaubayeva, I. Savitskaya, and N. K. Birkeland, “Metagenomics and Culture-Based Diversity Analysis of the Bacterial Community in the Zharkent Geothermal Spring in Kazakhstan,” Curr. Microbiol., vol. 78, no. 8, pp. 2926–2934, Aug. 2021, doi:10.1007/s00284-021-02545-2.
  • I. N. Najar, M. T. Sherpa, S. Das, S. Das, and N. Thakur, “Microbial Ecology of Two Hot Springs of Sikkim: Predominate Population and Geochemistry,” Sci. Total Environ., vol. 637–638, pp. 730–745, Oct. 2018, doi:10.1016/j.scitotenv.2018.05.037.
  • M. E. DeCastro, J. J. Escuder-Rodríguez, M. Becerra, E. Rodríguez-Belmonte, and M. I. González-Siso, “Comparative Metagenomic Analysis of Two Hot Springs from Ourense (Northwestern Spain) and Others Worldwide,” Front. Microbiol. vol. 26, no. 12, 769065, Nov. 2021. doi:10.3389/fmicb.2021.769065.
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  • R. M. Kumar, K. Jani, J. R. Parvathi, B. M. Thomas, S. S. S. Raja, A. Pandey, and A. Sharma, “Bacterial Diversity of Geochemically Distinct Hot Springs Located in Maharashtra, India,” Arch. Microbiol., vol. 204, 110, Jan. 2022, doi:10.1007/s00203-021-02728-2.
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Exploring the Bacterial Diversity of the Armutlu Geothermal Spring (Türkiye) through a Metagenomic Sequenced Based Approach

Year 2023, Volume: 1 Issue: 2, 57 - 64, 30.11.2023

Abstract

The geothermal or hot springs are home to a diverse microbial population. Identification of the thermophilic microbial world of these niches can direct us to the exploration of novel economically valuable biocatalysts, antibiotics, and a variety of other biomolecules. Due to the tectonic features within its borders, Türkiye has many thermal springs in different regions. In this study, a thermal site, the Armutlu geothermal spring in the eastern Marmara region, was investigated to identify the bacterial taxonomic composition and diversity through a metagenomic sequence-based approach which is the first study to the best of our knowledge. During the period of sampling, the water temperature and pH at the surface were 74.9 °C and 7.1, respectively. According to 16S rRNA sequencing results, Bacteria (98.36%) are the dominant taxa compared to Archaea (1.64%). Based on the diversity findings, the bacterial community is primarily dominated by Proteobacteria (42.49%), which, together with Chloroflexi, Acidobacteria, Actinobacteria, Firmicutes, Nitrospirae, and Bacteroidetes, constitute ~87% of the overall bacterial population. Furthermore, the microbial community was also investigated for the activity of hydrolase enzymes such as protease, amylase, and amylopullulanase through a culture-dependent approach for possible future applications. As a conclusion, the microbiota of the Armutlu geothermal spring was open to investigate the novel species and hydrolytic biocatalysts.

Supporting Institution

ITU Scientific Research Project Coordination Unit

Project Number

1504

References

  • P. H. Rampelotto, “Extremophiles and Extreme Environments,” Life, vol. 3, no. 3, pp. 482–485, Aug. 2013, doi:10.3390/life3030482.
  • L. Sawle and K. Ghosh, “How Do Thermophilic Proteins and Proteomes Withstand High Temperature?,” Biophys. J., vol. 101, no. 1, pp. 217–227, Jul. 2011, doi:10.1016/j.bpj.2011.05.059.
  • M. E. DeCastro, E. Rodriguez-Belmonte, and M. I. Gonzalez-Siso, “Metagenomics of Thermophiles with a Focus on Discovery of Novel Thermozymes,” Front. in Microbiol., vol. 7, 1521, Sept. 2016, doi:10.3389/fmicb.2016.01521.
  • J. Atalah, P. Cáceres-Moreno, G. Espina, and J. M. Blamey, “Thermophiles and the Applications of Their Enzymes as New Biocatalysts,” Bioresour. Technol., vol. 280, pp. 478–488, May. 2019, doi:10.1016/j.biortech.2019.02.008.
  • U. Serpen and R. DiPippo, “Turkey-A Geothermal Success Story: A Retrospective and Prospective Assessment,” Geothermics, vol. 101, 102370, May. 2022, doi:10.1016/j.geothermics.2022.102370.
  • Maden Tetkik ve Arama Genel Müdürlüğü (MTA), “Türkiye Jeotermal Enerji Potansiyeli ve Arama Çalışmaları,” https://www.mta.gov.tr/v3.0/arastirmalar/jeotermal-enerji-arastirmalari. [Access Date: 12-April-2023].
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  • M. O. Baltaci, H. Ay, S. Akbulut, G. Adiguzel, S. Albayrak, M. A. Omeroglu, H. Ozkan, M. Taskın, and A. Adiguzel, “Bacillus pasinlerensis sp. nov., a Thermophilic Bacterium Isolated from a Hot Spring in Turkey,” Int. J. Syst. Evol. Microbiol., vol. 70, no. 6, pp. 3865–3871, Jun. 2020, doi:10.1099/ijsem.0.004246.
  • S. Çalışkan-Özdemir, S. Önal, and A. Uzel, “Partial Purification and Characterization of a Thermostable Phytase Produced by Thermotolerant Aspergillus tubingensis TEM 37 Isolated from Hot Spring Soil in Gediz Geothermal Field, Turkey,” Geomicrobiol. J., vol. 38, no. 10, pp. 895–904, Sept. 2021, doi:10.1080/01490451.2021.1977432.
  • F. Matpan Bekler, K. Güven, and R. Gül Güven, “Purification and Characterization of Novel α-Amylase from Anoxybacillus ayderensis FMB1,” Biocatal. Biotransformation, vol. 39, no. 4, pp. 322–332, Dec. 2020, doi:10.1080/10242422.2020.1856097.
  • B. Genc, H. Nadaroglu, A. Adiguzel, and O. Baltaci, “Purification and Characterization of an Extracellular Cellulase from Anoxybacillus gonensis O9 Isolated from Geothermal Area in Turkey,” J. Environ. Biol., vol. 36, no. 6, pp. 1319–1324, Nov. 2015.
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  • A. Strazzulli, S. Fusco, B. Cobucci-Ponzano, M. Moracci, and P. Contursi, “Metagenomics of Microbial and Viral Life in Terrestrial Geothermal Environments,” Rev. Environ. Sci. Biotechnol., vol. 16, pp. 425–454, Jun. 2017, doi:10.1007/s11157-017-9435-0.
  • L. Uribe‐Lorío, L. Brenes-Guillén, W. Hernández‐Ascencio, R. Mora‐Amador, G. González, C. J. Ramírez‐Umaña, B. Díez, and C. Pedrós‐Alió, “The Influence of Temperature and pH on Bacterial Community Composition of Microbial Mats in Hot Springs from Costa Rica,” Microbiologyopen, vol. 8, no.10, e893, Oct. 2019, doi:10.1002/mbo3.893.
  • D. Peterson, K.S. Bonham, S. Rowland, C.W. Pattanayak, and V. Klepac-Ceraj, “Comparative Analysis of 16S rRNA Gene and Metagenome Sequencing in Pediatric Gut Microbiomes,” Front. Microbiol., vol. 12, Jul. 2021, doi:10.3389/fmicb.2021.670336.
  • K. F. Al, and J. P. Burton, “Processing Human Urine and Ureteral Stents for 16S rRNA Amplicon Sequencing,” STAR Protoc., vol. 2, no. 2, 100435, Jun. 2021, doi:10.1016/j.xpro.2021.100435.
  • N. An, C. Wang, X. Dou, X. Liu, J. Wu, and Y. Cheng, “Comparison of 16S rDNA Amplicon Sequencing with the Culture Method for Diagnosing Causative Pathogens in Bacterial Corneal Infections,” Transl. Vis. Sci. Technol., vol. 11, no. 2, 29, Feb. 2022, doi:10.1167/tvst.11.2.29.
  • O. López-López, M. E. Cerdán, and M. I. González-Siso, “Hot Spring Metagenomics,” Life, vol. 3, no. 2, pp. 308–320, Apr. 2013, doi:10.3390/life3020308.
  • M. Oztug, A. Cebeci, H. Mumcu, M. Akgoz, and N. G. Karaguler, “Whole-Genome Sequence of Geobacillus thermoleovorans ARTRW1, Isolated from Armutlu Geothermal Spring, Turkey,” Microbiol. Resour. Announc., vol. 9, no. 24, e00269-20, Jun. 2020, doi:10.1128/mra.00269-20.
  • Wasimuddin, K. Schlaeppi, F. Ronchi, S. L. Leib, M. Erb, and A. Ramette, “Evaluation of Primer Pairs for Microbiome Profiling from Soils to Humans within the One Health Framework,” Mol. Ecol. Resour., vol. 20, no. 6, pp. 1558–1571, Jun. 2020, doi:10.1111/1755-0998.13215.
  • M. Martin, “Cutadapt Removes Adapter Sequences from High-throughput Sequencing Reads,” EMBnet. j., vol. 17, no. 1, pp. 10–12, May. 2011, doi:10.14806/ej.17.1.200.
  • E. Bolyen, J. R. Rideout, M. R. Dillon, N. A. Bokulich, C. C. Abnet, G. A. Al-Ghalith, H. Alexander, E. J. Alm, M. Arumugam, F. Asnicar, Y. Bai, J. E. Bisanz, K. Bittinger, A. Brejnrod, C. J. Brislawn, C. T. Brown, B. J. Callahan, A. M. Caraballo-Rodríguez, J. Chase, E. K. Cope, … and J. G. Caporaso, “Reproducible, Interactive, Scalable and Extensible Microbiome Data Science Using QIIME 2,” Nat. Biotechnol., vol. 37, no. 8, pp. 852–857, Jul. 2019, doi:10.1038/s41587-019-0209-9.
  • A. Amir, D. McDonald, J. A. Navas-Molina, E. Kopylova, J. T. Morton, Z. Zech Xu, E. P. Kightley, L. R. Thompson, E. R. Hyde, A. Gonzalez, and R. Knight, “Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns,” mSystems, vol. 2, no. 2, e00191-16, Mar. 2017, doi:10.1128/mSystems.00191-16.
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  • B. Tunc, D. Caka, T. S. Irmak, H. Woith, S. Tunc, Ş. Bariş, M. F. Ozer, B. G. Lühr, E. Günther, H. Grosser, and J. Zschau, “The Armutlu Network: An Investigation into the Seismotectonic Setting of Armutlu–Yalova–Gemlik and the Surrounding Regions,” Ann. Geophys., vol. 54, no. 1, pp.35–45, Apr. 2011, doi:10.4401/ag-4877.
  • M. Sofía Urbieta, E. G. Toril, M. Alejandra Giaveno, A. A. Bazán, and E. R. Donati, “Archaeal and Bacterial Diversity in Five Different Hydrothermal Ponds in the Copahue Region in Argentina,” Syst. Appl. Microbiol., vol. 37, no. 6, pp. 429–441, Sept. 2014, doi:10.1016/j.syapm.2014.05.012.
  • B. Chaudhuri, T. Chowdhury, and B. Chattopadhyay, “Comparative Analysis of Microbial Diversity in Two Hot Springs of Bakreshwar, West Bengal, India,” Genom. Data., vol. 27, no. 12, pp. 122–129, Apr. 2017, doi:10.1016/j.gdata.2017.04.001.
  • M. Adjeroud, J. J. Escuder-Rodríguez, M. I. González-Siso and M. Kecha, “Metagenomic Investigation of Bacterial and Archaeal Diversity of Hammam Essalihine Hot Spring from Khenchela, Algeria,” Geomicrobiol. J., vol. 37, no. 9, pp. 804–817, Jun. 2020, doi:10.1080/01490451.2020.1783035.
  • A. Mashzhan, R. Javier-López, A. Kistaubayeva, I. Savitskaya, and N. K. Birkeland, “Metagenomics and Culture-Based Diversity Analysis of the Bacterial Community in the Zharkent Geothermal Spring in Kazakhstan,” Curr. Microbiol., vol. 78, no. 8, pp. 2926–2934, Aug. 2021, doi:10.1007/s00284-021-02545-2.
  • I. N. Najar, M. T. Sherpa, S. Das, S. Das, and N. Thakur, “Microbial Ecology of Two Hot Springs of Sikkim: Predominate Population and Geochemistry,” Sci. Total Environ., vol. 637–638, pp. 730–745, Oct. 2018, doi:10.1016/j.scitotenv.2018.05.037.
  • M. E. DeCastro, J. J. Escuder-Rodríguez, M. Becerra, E. Rodríguez-Belmonte, and M. I. González-Siso, “Comparative Metagenomic Analysis of Two Hot Springs from Ourense (Northwestern Spain) and Others Worldwide,” Front. Microbiol. vol. 26, no. 12, 769065, Nov. 2021. doi:10.3389/fmicb.2021.769065.
  • A. Amin, I. Ahmed, N. Salam, B. Y. Kim, D. Singh, X. Y. Zhi, M. Xiao, and W. J. Li, “Diversity and Distribution of Thermophilic Bacteria in Hot Springs of Pakistan,” Microb. Ecol., vol. 74 no. 1, pp. 116–127, Jan. 2017, doi:10.1007/s00248-017-0930-1.
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There are 40 citations in total.

Details

Primary Language English
Subjects Structural Biology
Journal Section Research Articles
Authors

Anıl Cebeci 0000-0001-6493-7714

Merve Öztuğ 0000-0002-6287-2774

Hande Mumcu 0000-0003-0270-6229

Nevin Gül Karagüler 0000-0002-2300-9484

Project Number 1504
Publication Date November 30, 2023
Submission Date May 25, 2023
Published in Issue Year 2023 Volume: 1 Issue: 2

Cite

IEEE A. Cebeci, M. Öztuğ, H. Mumcu, and N. Gül Karagüler, “Exploring the Bacterial Diversity of the Armutlu Geothermal Spring (Türkiye) through a Metagenomic Sequenced Based Approach”, BJS, vol. 1, no. 2, pp. 57–64, 2023.