Detection of Bacterial Diversity of Various Habitats in Çorum Province and Its Criminalistics Contribution to Possible Crime Scene Studies
Abstract
Microorganisms are not homogeneously distributed in environments, soil systems are heterogeneous. Soil can be an important evidence value in forensic investigations. It is among the important evidences that contribute to the solution of forensic events in forensic sciences. Bacteria contained in the soil are microbiological evidences. Not all bacteria can be cultured by conventional methods and the amount of cultured bacteria remains limited. Metagenomic studies have been carried out for non-culturable Bacteria. The aim of this study is to perform DNA isolation from soil samples taken from Yeşil Lake (swamp), Faculty of Arts and Sciences garden, agricultural land, Sıklık (forest area) regions of Çorum Province in Türkiye and to determine bacterial diversity by metagenomic analysis of DNA isolated from soil samples. Density and differences of isolates according to habitats were determined. It is thought that the result of this study can shed light on previous crime scene studies in the determined habitats and will contribute to possible future crime scene studies and forensic science that may occur later.
Ethical Statement
This article does not contain any studies with human participants and/or animals performed by any of the authors. The formal consent is not required in this study.
Supporting Institution
Hitit University project no. ODMYO19004.22.001.
Project Number
ODMYO19004.22.001.
References
- Carter DO, Tomberlin JK, Benbow ME, Metcalf JL. 2017. Forensic microbiology. John Wiley & Sons, Pondicherry, India, pp: 416.
- Castañeda LE, Barbosa O. 2017. Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests. PeerJ, 5: e3098.
- Dawson LA, Hillier S. 2010. Measurement of soil characteristics for forensic applications. Surf Interface Anal, 42: 363-377. https://doi.org/10.1002/sia.3315.
- Demanèche S, Schauser L, Dawson L, Franqueville, L, Simonet P. 2017. Microbial soil community analyses for forensic science: application to a blind test. Forensic Sci Int, 270: 153–158. doi: 10.1016/j.forsciint.2016.12.004.
- Efeoğlu FG, Çakan H, Kara U, Daş T. 2022. Forensic microbiological analysis of soil and the physical evidence buried in soil obtained from several towns in Istanbul. Cureus, 14(2): e22329. doi: 10.7759/cureus.22329. PMID: 35317034; PMCID: PMC8934109.
- Finley SJ, Benbow ME, Javan GT. 2015. Potential applications of soil microbial ecology and next-generation sequencing in criminal investigations. Appl Soil Ecol, 88: 69–78. doi: 10.1016/j.apsoil.2015.01.001.
- Finley SJ, Pechal JL, Benbow ME, Robertson B, Javan GT. 2016. Microbial signatures of cadaver gravesoil during decomposition. Microb Ecol, 71(3): 524–529. doi: 10.1007/s00248-015-0725-1.
- Guoju X, Qiang Z, Jiangtao B, Fengju Z, Chengke L. 2012. The relationship between winter temperature rise and soil fertility properties. Air, Soil Water Res, 5: ASWR-S8599.
- Habtom H, Pasternak Z, Matan O, Azulay C, Gafny R, Jurkevitch, E. 2019. Applying microbial biogeography in soil forensics. Forensic Sci Inter Genet, 38: 195-203.
- Kalam S, Basu A, Ahmad I, Sayyed RZ, El-Enshasy HA, Dailin DJ, Suriani NL. 2020. Recent understanding of soil acidobacteria and their ecological significance: a critical review. Front Microbiol, 11: 580024.
- Kersters K, De Vos P, Gillis M, Swings J, Vandamme P, Stackebrandt E. 2006. Introduction to the Proteobacteria. In: Dwarkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrandt E. The Prokaryotes. Springer, New York, USA, pp: 3-37.
- Kielak A, Pijl AS, Van Veen JA, Kowalchuk GA. 2009. Phylogenetic diversity of Acidobacteria in a former agricultural soil. ISME J, 3(3): 378-382.
- Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, Glöckner FO. 2013. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res, 41(1): e1-e1.
- Kunin V, Copeland A, Lapidus A, Mavromatis K, Hugenholtz P. 2008. A bioinformatician's guide to metagenomics. Microbiol Molec Biol Rev, 72(4): 557-578.
- Lauber CL, Hamady M, Knight R, Fierer N. 2009. Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale. Applied Environ Microbiol, 75(15): 5111-5120.
- Lladó S, López-Mondéjar R, Baldrian P. 2017. Forest soil bacteria: diversity, involvement in ecosystem processes, and response to global change. Microbiol Molec Biol Rev, 81(2): e00063-16.
- Matlock B. 2015. Assessment of nucleic acid purity. URL: https://assets.thermofisher.com/TFSAssets/ (accessed date: March 21, 2022).
- Oliveira M, Amorim A. 2018. Microbial forensics: new breakthroughs and future prospects. Appl Microbiol Biotechnol, 102(24): 10377-10391. doi: 10.1007/s00253-018-9414-6.
- Rasche F, Knapp D, Kaiser C, Koranda M, Kitzler B, Zechmeister-Boltenstern S, Sessitsch A. 2011. Seasonality and resource availability control bacterial and archaeal communities in soils of a temperate beech forest. ISME J, 5(3): 389-402.
- Spain AM, Krumholz LR, Elshahed MS. 2009. Abundance, composition, diversity and novelty of soil Proteobacteria. ISME J, 3(8): 992-1000.
- Topal Sarıkaya A. 2008. DNA’nın izolasyonu ve analizi. Temizkan G, Arda N. Moleküler biyolojide kullanılan yöntemler. Nobel Tıp Kitabevleri, İstanbul, Türkiye, ss: 345.
- URL. 2022. https://www.qiagen.com/us/resources/resourcedetail?id=9bb59b74-e493-4aeb-b6c1-f660852e8d97&lang=en (accessed date: March 21, 2022).
Detection of Bacterial Diversity of Various Habitats in Çorum Province and Its Criminalistics Contribution to Possible Crime Scene Studies
Abstract
Microorganisms are not homogeneously distributed in environments, soil systems are heterogeneous. Soil can be an important evidence value in forensic investigations. It is among the important evidences that contribute to the solution of forensic events in forensic sciences. Bacteria contained in the soil are microbiological evidences. Not all bacteria can be cultured by conventional methods and the amount of cultured bacteria remains limited. Metagenomic studies have been carried out for non-culturable Bacteria. The aim of this study is to perform DNA isolation from soil samples taken from Yeşil Lake (swamp), Faculty of Arts and Sciences garden, agricultural land, Sıklık (forest area) regions of Çorum Province in Türkiye and to determine bacterial diversity by metagenomic analysis of DNA isolated from soil samples. Density and differences of isolates according to habitats were determined. It is thought that the result of this study can shed light on previous crime scene studies in the determined habitats and will contribute to possible future crime scene studies and forensic science that may occur later.
Project Number
ODMYO19004.22.001.
References
- Carter DO, Tomberlin JK, Benbow ME, Metcalf JL. 2017. Forensic microbiology. John Wiley & Sons, Pondicherry, India, pp: 416.
- Castañeda LE, Barbosa O. 2017. Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests. PeerJ, 5: e3098.
- Dawson LA, Hillier S. 2010. Measurement of soil characteristics for forensic applications. Surf Interface Anal, 42: 363-377. https://doi.org/10.1002/sia.3315.
- Demanèche S, Schauser L, Dawson L, Franqueville, L, Simonet P. 2017. Microbial soil community analyses for forensic science: application to a blind test. Forensic Sci Int, 270: 153–158. doi: 10.1016/j.forsciint.2016.12.004.
- Efeoğlu FG, Çakan H, Kara U, Daş T. 2022. Forensic microbiological analysis of soil and the physical evidence buried in soil obtained from several towns in Istanbul. Cureus, 14(2): e22329. doi: 10.7759/cureus.22329. PMID: 35317034; PMCID: PMC8934109.
- Finley SJ, Benbow ME, Javan GT. 2015. Potential applications of soil microbial ecology and next-generation sequencing in criminal investigations. Appl Soil Ecol, 88: 69–78. doi: 10.1016/j.apsoil.2015.01.001.
- Finley SJ, Pechal JL, Benbow ME, Robertson B, Javan GT. 2016. Microbial signatures of cadaver gravesoil during decomposition. Microb Ecol, 71(3): 524–529. doi: 10.1007/s00248-015-0725-1.
- Guoju X, Qiang Z, Jiangtao B, Fengju Z, Chengke L. 2012. The relationship between winter temperature rise and soil fertility properties. Air, Soil Water Res, 5: ASWR-S8599.
- Habtom H, Pasternak Z, Matan O, Azulay C, Gafny R, Jurkevitch, E. 2019. Applying microbial biogeography in soil forensics. Forensic Sci Inter Genet, 38: 195-203.
- Kalam S, Basu A, Ahmad I, Sayyed RZ, El-Enshasy HA, Dailin DJ, Suriani NL. 2020. Recent understanding of soil acidobacteria and their ecological significance: a critical review. Front Microbiol, 11: 580024.
- Kersters K, De Vos P, Gillis M, Swings J, Vandamme P, Stackebrandt E. 2006. Introduction to the Proteobacteria. In: Dwarkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrandt E. The Prokaryotes. Springer, New York, USA, pp: 3-37.
- Kielak A, Pijl AS, Van Veen JA, Kowalchuk GA. 2009. Phylogenetic diversity of Acidobacteria in a former agricultural soil. ISME J, 3(3): 378-382.
- Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, Glöckner FO. 2013. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res, 41(1): e1-e1.
- Kunin V, Copeland A, Lapidus A, Mavromatis K, Hugenholtz P. 2008. A bioinformatician's guide to metagenomics. Microbiol Molec Biol Rev, 72(4): 557-578.
- Lauber CL, Hamady M, Knight R, Fierer N. 2009. Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale. Applied Environ Microbiol, 75(15): 5111-5120.
- Lladó S, López-Mondéjar R, Baldrian P. 2017. Forest soil bacteria: diversity, involvement in ecosystem processes, and response to global change. Microbiol Molec Biol Rev, 81(2): e00063-16.
- Matlock B. 2015. Assessment of nucleic acid purity. URL: https://assets.thermofisher.com/TFSAssets/ (accessed date: March 21, 2022).
- Oliveira M, Amorim A. 2018. Microbial forensics: new breakthroughs and future prospects. Appl Microbiol Biotechnol, 102(24): 10377-10391. doi: 10.1007/s00253-018-9414-6.
- Rasche F, Knapp D, Kaiser C, Koranda M, Kitzler B, Zechmeister-Boltenstern S, Sessitsch A. 2011. Seasonality and resource availability control bacterial and archaeal communities in soils of a temperate beech forest. ISME J, 5(3): 389-402.
- Spain AM, Krumholz LR, Elshahed MS. 2009. Abundance, composition, diversity and novelty of soil Proteobacteria. ISME J, 3(8): 992-1000.
- Topal Sarıkaya A. 2008. DNA’nın izolasyonu ve analizi. Temizkan G, Arda N. Moleküler biyolojide kullanılan yöntemler. Nobel Tıp Kitabevleri, İstanbul, Türkiye, ss: 345.
- URL. 2022. https://www.qiagen.com/us/resources/resourcedetail?id=9bb59b74-e493-4aeb-b6c1-f660852e8d97&lang=en (accessed date: March 21, 2022).
Details
| Primary Language | English |
|---|---|
| Subjects | Forensic Biology, Bacteriology |
| Journal Section | Research Articles |
| Authors | |
| Project Number | ODMYO19004.22.001. |
| Early Pub Date | March 5, 2024 |
| Publication Date | March 15, 2024 |
| Submission Date | December 31, 2023 |
| Acceptance Date | February 26, 2024 |
| Published in Issue | Year 2024 Volume: 7 Issue: 2 |
