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Bisker C, Taylor G, Carney H, Orr CH, Javan GT, Ralebitso-Senior TK. Comparative soil bacterial metabarcoding after aboveground vs. subsurface decomposition of Mus musculus. Sci Rep 2024; 14:31179. [PMID: 39732855 DOI: 10.1038/s41598-024-82437-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2023] [Accepted: 12/05/2024] [Indexed: 12/30/2024] Open
Abstract
Outdoor microcosms, metabarcoding with next-generation sequencing of the 16S rRNA bacterial gene, total body score (TBS) and physicochemical analyses were used to monitor Mus musculus decomposition aboveground (A) and in the subsurface (S), and compared to soil-only controls (C). As determined by MaAsLin2 analysis, significant shifts in bacterial communities at 30 cm depths within the A, S and C treatments distinguished control from experimental soils, and between aboveground and subsurface deposition, demonstrating the potential for gravesoil discrimination during the first 90 days. For example, Dokdonella (p = 0.0002), Edaphobaculum (p = 0.0004) and Lacibacter (p = 0.0034) recorded significant shifts relative to sampling time. Furthermore, Massilia (p = 0.0005), Mycobacterium (p = 0.0006) and Sandaracinus (p = 0.0007) increased in abundance for the aboveground mice treatments. This was confirmed with ANOSIM where p = 0.0082 showed statistically significant difference between the aboveground and subsurface deposition. TBS and physicochemical analyses suggested that nutrient release into the soils occurred during active decay and skin rapture on days 7-13 in the subsurface and days 13-20 aboveground, with a particular increase in soil potassium concentration on day 15. Significant differences in soil temperatures resulted between A and S vs. C microcosms, aligning with atmospheric temperature changes. In summary, complementary application of metabarcoding, total body score, exogenous and physicochemical methods for postmortem interval estimation and clandestine grave location highlighted the feasibility of using temperature records downloaded from meteorological stations and portable X-ray fluorescence as indicators for various phases of decomposition.
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Affiliation(s)
- Chawki Bisker
- National Institute of Criminalistics and Criminology, Bouchaoui, Algiers, Algeria
- School of Health and Life Sciences, Teesside University, Middlesbrough, UK
| | - Gillian Taylor
- School of Health and Life Sciences, Teesside University, Middlesbrough, UK
- National Horizons Centre, Darlington, UK
| | - Helen Carney
- School of Health and Life Sciences, Teesside University, Middlesbrough, UK
- National Horizons Centre, Darlington, UK
| | - Caroline H Orr
- School of Health and Life Sciences, Teesside University, Middlesbrough, UK
- National Horizons Centre, Darlington, UK
| | - Gulnaz T Javan
- Department of Physical Sciences and Forensic Science Programs, Alabama State University, Montgomery, AL, USA
| | - Theresia Komang Ralebitso-Senior
- School of Health and Life Sciences, Teesside University, Middlesbrough, UK.
- School of Pharmacy and Biomolecular Science, Liverpool John Moores University, Liverpool, UK.
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2
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Charlot E, Gasser A, Oostra RJ, Aalders MCG, Krap T. Fluorescence of various buried fresh and fresh-frozen-thawed tissue types up until the point of active decay: a human taphonomy study. Int J Legal Med 2024:10.1007/s00414-024-03387-w. [PMID: 39704809 DOI: 10.1007/s00414-024-03387-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2024] [Accepted: 11/29/2024] [Indexed: 12/21/2024]
Abstract
Forensic taphonomy is the study of postmortem changes of human remains for the purpose of answering legal investigative questions. Many variables can affect the pattern and rate of decomposition of remains, posing challenges for taphonomic studies and estimation of the postmortem interval. Given the gap in knowledge regarding the suitability of using frozen remains to extrapolate conclusions to fresh material, investigating the effects of freeze-thaw cycles followed by burial on human remains is vital for forensic practice and taphonomic research. This study explored the impact of a freeze-thaw cycle and subsequent burial on human tissue decomposition under semi-controlled field conditions. Fresh and fresh-frozen-thawed hands were buried at the Amsterdam Research Initiative for Sub-surface Taphonomy and Anthropology for 31.7 to 340.4 accumulated degree days. Decomposition was assessed using fluorescence measurements targeting protein and fluorescent oxidation products, and broader excitation-emission matrix measurements in skin, adipose, and muscle tissue. Decomposition trends varied primarily by treatment group: fresh samples generally aligned with expectations that protein levels would decrease over time while fluorescent oxidation products increased, whereas fresh-frozen samples deviated significantly from these expectations. Significant differences were found between protein and fluorescent oxidation products levels of fresh and fresh-frozen tissue at corresponding time points, indicating this method's potential in determining sample state. However, fluorophore peak monitoring in excitation-emission matrices did not prove useful in establishing decomposition trends or potentially distinguishing between sample states. Despite limitations inherent to pilot and human taphonomy studies, this study clearly demonstrates that differences exist in the decomposition of fresh and fresh-frozen tissue, and that these trends vary slightly by tissue type. We therefore conclude that frozen material cannot be considered a proper substitute for fresh tissue regarding taphonomic processes, and the methods used in this study show promise in being used to differentiate between pre-decomposition treatments.
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Affiliation(s)
- Emmanuelle Charlot
- Department of Medical Biology, Section Clinical Anatomy and Embryology, AmsterdamUMC, Location Academic Medical Centre, Meibergdreef 9, Amsterdam, AZ, 1105, The Netherlands
| | - Anas Gasser
- Department of Biomedical Engineering and Physics, Amsterdam UMC, Location Location Academic Medical Centre, Meibergdreef 9, PO Box 22700, Amsterdam, DE, 1100, The Netherlands
| | - Roelof-Jan Oostra
- Department of Medical Biology, Section Clinical Anatomy and Embryology, AmsterdamUMC, Location Academic Medical Centre, Meibergdreef 9, Amsterdam, AZ, 1105, The Netherlands
| | - Maurice C G Aalders
- Department of Biomedical Engineering and Physics, Amsterdam UMC, Location Location Academic Medical Centre, Meibergdreef 9, PO Box 22700, Amsterdam, DE, 1100, The Netherlands
- Co van Ledden Hulsebosch Center, Science Park- Building 904, (Room C2.243), Amsterdam, XH, 1098, The Netherlands
| | - Tristan Krap
- Department of Medical Biology, Section Clinical Anatomy and Embryology, AmsterdamUMC, Location Academic Medical Centre, Meibergdreef 9, Amsterdam, AZ, 1105, The Netherlands.
- Department of Biomedical Engineering and Physics, Amsterdam UMC, Location Location Academic Medical Centre, Meibergdreef 9, PO Box 22700, Amsterdam, DE, 1100, The Netherlands.
- Faculty of Law and Criminology, Maastricht University, Minderbroedersberg 4-6, Maastricht, LK, 6211, The Netherlands.
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3
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DeBruyn JM, Keenan SW, Taylor LS. From carrion to soil: microbial recycling of animal carcasses. Trends Microbiol 2024:S0966-842X(24)00229-4. [PMID: 39358066 DOI: 10.1016/j.tim.2024.09.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2024] [Revised: 08/30/2024] [Accepted: 09/06/2024] [Indexed: 10/04/2024]
Abstract
Decomposer microbial communities are gatekeepers in the redistribution of carbon and nutrients from dead animals (carrion) to terrestrial ecosystems. The flush of decomposition products from a carcass creates a hot spot of microbial activity in the soil below, and the animal's microbiome is released into the environment, mixing with soil communities. Changes in soil physicochemistry, especially reduced oxygen, temporarily constrain microbial nutrient cycling, and influence the timing of these processes and the fate of carrion resources. Carcass-related factors, such as mass, tissue composition, or even microbiome composition may also influence the functional assembly and succession of decomposer communities. Understanding these local scale microbially mediated processes is important for predicting consequences of carrion decomposition beyond the hot spot and hot moment.
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Affiliation(s)
- Jennifer M DeBruyn
- Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, TN, USA.
| | - Sarah W Keenan
- Department of Geology and Geological Engineering, South Dakota School of Mines and Technology, Rapid City, SD, USA
| | - Lois S Taylor
- Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, TN, USA
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Kim KH, Kim HR, Oh J, Choi J, Park S, Yun ST. Predicting leachate impact on groundwater using electrical conductivity and oxidation-reduction potential measurements: An empirical and theoretical approach. JOURNAL OF HAZARDOUS MATERIALS 2024; 474:134733. [PMID: 38810580 DOI: 10.1016/j.jhazmat.2024.134733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2024] [Revised: 05/14/2024] [Accepted: 05/23/2024] [Indexed: 05/31/2024]
Abstract
This study developed innovative predictive models of groundwater pollution using in situ electrical conductivity (EC) and oxidation-reduction potential (ORP) measurements at livestock carcass burial sites. Combined electrode analysis (EC and ORP) and machine learning techniques efficiently and accurately distinguished between leachate and background groundwater. Two models-empirical and theoretical-were constructed based on a supervised classification framework. The empirical model constructs a classifier with high accuracy, sensitivity, and specificity, utilizing the comprehensive in situ EC and ORP measurements. The theoretical model with only two end members achieves comparable performance by simulating the leachate-groundwater interactions using a geochemical mixing model. Besides enhancing the early detection capabilities, our approach considerably reduces the reliance on extensive hydrochemical analyses, thus streamlining the monitoring process. Moreover, the use of field parameters was found to proactively identify potential pollution incidents, enhancing the efficiency of groundwater monitoring strategies. Our approach is applicable to various waste disposal sites, indicating its extensive potential for environmental monitoring and management.
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Affiliation(s)
- Kyoung-Ho Kim
- Korea Environment Institute, Sejong 30147, South Korea
| | - Ho-Rim Kim
- Korea Institute of Geoscience and Mineral Resources, Daejeon 34132, South Korea.
| | - Junseop Oh
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
| | - Jaehoon Choi
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
| | - Sunhwa Park
- National Institute of Environmental Research (NIER), Incheon 404-170, South Korea
| | - Seong-Taek Yun
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
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5
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Oh J, Kim KH, Kim HR, Park S, Yun ST. Using isometric log-ratio in compositional data analysis for developing a groundwater pollution index. Sci Rep 2024; 14:12196. [PMID: 38806627 PMCID: PMC11133307 DOI: 10.1038/s41598-024-63178-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Accepted: 05/27/2024] [Indexed: 05/30/2024] Open
Abstract
This study introduces a novel groundwater pollution index (GPI) formulated through compositional data analysis (CoDa) and robust principal component analysis (RPCA) to enhance groundwater quality assessment. Using groundwater quality monitoring data from sites impacted by the 2010-2011 foot-and-mouth disease outbreak in South Korea, CoDa uncovers critical hydrochemical differences between leachate-influenced and background groundwater. The GPI was developed by selecting key subcompositional parts (NH4+-N, Cl-, and NO3--N) using RPCA, performing the isometric log-ratio (ILR) transformation, and normalizing the results to environmental standards, thereby providing a more precise and accurate assessment of pollution. Validated against government criteria, the GPI has shown its potential as an alternative assessment tool, with its reliability confirmed by receiver operating characteristic curve analysis. This study highlights the essential role of CoDa, especially the ILR -transformation, in overcoming the limitations of traditional statistical methods that often neglect the relative nature of hydrochemical data. Our results emphasize the utility of the GPI in significantly advancing groundwater quality monitoring and management by addressing a methodological gap in the quantitative assessment of groundwater pollution.
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Affiliation(s)
- Junseop Oh
- Department of Earth and Environmental Sciences, Korea University, Seoul, 02841, South Korea
| | - Kyoung-Ho Kim
- Korea Environment Institute, Sejong, 30147, South Korea.
| | - Ho-Rim Kim
- Korea Institute of Geoscience and Mineral Resources, Daejeon, 34132, South Korea
| | - Sunhwa Park
- National Institute of Environmental Research, Incheon, 22689, South Korea.
| | - Seong-Taek Yun
- Department of Earth and Environmental Sciences, Korea University, Seoul, 02841, South Korea
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6
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Vithanage M, Mayakaduwage SS, Gunarathne V, Rajapaksha AU, Ahmad M, Abduljabbar A, Usman A, Al-Wabel MI, Ippolito JA, Ok YS. Animal carcass burial management: implications for sustainable biochar use. APPLIED BIOLOGICAL CHEMISTRY 2021; 64:91. [PMID: 34957350 PMCID: PMC8693145 DOI: 10.1186/s13765-021-00652-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 11/16/2021] [Indexed: 06/02/2023]
Abstract
This review focuses on existing technologies for carcass and corpse disposal and potential alternative treatment strategies. Furthermore, key issues related to these treatments (e.g., carcass and corpse disposal events, available methods, performances, and limitations) are addressed in conjunction with associated environmental impacts. Simultaneously, various treatment technologies have been evaluated to provide insights into the adsorptive removal of specific pollutants derived from carcass disposal and management. In this regard, it has been proposed that a low-cost pollutant sorbent may be utilized, namely, biochar. Biochar has demonstrated the ability to remove (in)organic pollutants and excess nutrients from soils and waters; thus, we identify possible biochar uses for soil and water remediation at carcass and corpse disposal sites. To date, however, little emphasis has been placed on potential biochar use to manage such disposal sites. We highlight the need for strategic efforts to accurately assess biochar effectiveness when applied towards the remediation of complex pollutants produced and circulated within carcass and corpse burial systems.
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Affiliation(s)
- Meththika Vithanage
- Ecosphere Resilience Research Centre, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda, 10250 Sri Lanka
| | - S. S. Mayakaduwage
- Ecosphere Resilience Research Centre, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda, 10250 Sri Lanka
- School of Agriculture, Food and Wine, University of Adelaide, Adelaide, Australia
| | - Viraj Gunarathne
- Ecosphere Resilience Research Centre, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda, 10250 Sri Lanka
| | - Anushka Upamali Rajapaksha
- Ecosphere Resilience Research Centre, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda, 10250 Sri Lanka
| | - Mahtab Ahmad
- Department of Environmental Sciences, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, 45320 Pakistan
| | - Adel Abduljabbar
- Industrial Psychology, College of Education, King Saud University, Riyadh, Saudi Arabia
| | - Adel Usman
- Soil Sciences Department, College of Food and Agricultural Sciences, King Saud University, Riyadh, Saudi Arabia
| | - Mohammad I. Al-Wabel
- Soil Sciences Department, College of Food and Agricultural Sciences, King Saud University, Riyadh, Saudi Arabia
| | - James A. Ippolito
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO USA
| | - Yong Sik Ok
- Korea Biochar Research Center, APRU Sustainable Waste Management and Division of Environmental Science and Ecological Engineering, Korea University, Seoul, 02841 South Korea
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Pringle JK, Stimpson IG, Wisniewski KD, Heaton V, Davenward B, Mirosch N, Spencer F, Jervis JR. Geophysical monitoring of simulated homicide burials for forensic investigations. Sci Rep 2020; 10:7544. [PMID: 32371989 PMCID: PMC7200741 DOI: 10.1038/s41598-020-64262-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Accepted: 04/13/2020] [Indexed: 11/09/2022] Open
Abstract
Finding hidden bodies, believed to have been murdered and buried, is problematic, expensive in terms of human resource and currently has low success rates for law enforcement agencies. Here we present, for the first time, ten years of multidisciplinary geophysical monitoring of simulated clandestine graves using animal analogues. Results will provide forensic search teams with crucial information on optimal detection techniques, equipment configuration and datasets for comparison to active and unsolved cold case searches. Electrical Resistivity (ER) surveys showed a naked burial produced large, low-resistivity anomalies for up to four years, but then the body became difficult to image. A wrapped burial had consistent small, high-resistivity anomalies for four years, then large high-resistivity anomalies until the survey period end. Ground Penetrating Radar (GPR) 110-900 MHz surveys showed the wrapped burial could be detected throughout. 225 MHz GPR data was optimal, but the naked burial was poorly imaged after six years. Results suggested conducting both ER and GPR surveys if the burial style was unknown when searching for interred remains. Surveys in winter and spring produced the best datasets, and, as post-burial time increases, surveying in these seasons became increasingly important. This multidisciplinary study provides critical new insights for law enforcement and families of the disappeared worldwide.
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Affiliation(s)
- Jamie K Pringle
- School of Geography, Geology & Environment, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom.
| | - Ian G Stimpson
- School of Geography, Geology & Environment, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom
| | - Kristopher D Wisniewski
- Department of Criminal Justice and Forensics, School of Law, Policing & Forensics, Science Centre, Staffordshire University, Leek Road, Stoke-on-Trent, ST4 2DF, United Kingdom
| | - Vivienne Heaton
- School of Chemical & Physical Sciences, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom
| | - Ben Davenward
- School of Geography, Geology & Environment, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom
| | - Natalie Mirosch
- School of Chemical & Physical Sciences, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom
| | - Francesca Spencer
- Department of Biochemistry, Carver College of Medicine, University of Iowa, Iowa City, IA, 52242, United States of America
| | - Jon R Jervis
- School of Geography, Geology & Environment, Keele University, Keele, Staffordshire, ST5 5BG, United Kingdom
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8
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Tucker JP, Santos IR, Davis KL, Butcher PA. Whale carcass leachate plumes in beach groundwater: A potential shark attractant to the surf? MARINE POLLUTION BULLETIN 2019; 140:219-226. [PMID: 30803637 DOI: 10.1016/j.marpolbul.2019.01.043] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Revised: 01/21/2019] [Accepted: 01/21/2019] [Indexed: 06/09/2023]
Abstract
With the recovery of whale populations, carcass strandings on beaches are growing. Beach burial is a common management option for stranded carcasses. However, communities fear shark attraction following leachate transport to the ocean via submarine groundwater discharge. Here, a sediment column mesocosm experiment indicated that carcasses can be a localised source of dissolved organic carbon (DOC), phosphate and ammonium to groundwater. The spatial reach of the leachate plume was <2.5 m, while the temporal stabilisation occurred over 100-300 days. No significant chemical signals were observed under a beach-buried carcass, implying effective attenuation of decomposition plumes. For beaches with conditions similar to our one-directional, fast-flowing sediment experiment generating extreme groundwater contamination, it is unlikely that any leachate from a whale carcass would reach the ocean if buried >25 m onshore. Therefore, carcass leachate plumes would only potentially attract sharks to the surf under specific conditions not experienced during our experiments.
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Affiliation(s)
- James P Tucker
- National Marine Science Centre, Southern Cross University, Coffs Harbour, NSW, Australia.
| | - Isaac R Santos
- National Marine Science Centre, Southern Cross University, Coffs Harbour, NSW, Australia
| | - Kay L Davis
- National Marine Science Centre, Southern Cross University, Coffs Harbour, NSW, Australia
| | - Paul A Butcher
- National Marine Science Centre, Southern Cross University, Coffs Harbour, NSW, Australia; New South Wales Department of Primary Industries, National Marine Science Centre, Coffs Harbour, NSW, Australia
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Wisniewski KD, Cooper N, Heaton V, Hope C, Pirrie D, Mitten AJ, Pringle JK. The Search for "Fred": An Unusual Vertical Burial Case. J Forensic Sci 2019; 64:1530-1539. [PMID: 30802952 DOI: 10.1111/1556-4029.14035] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2018] [Revised: 01/31/2019] [Accepted: 01/31/2019] [Indexed: 11/30/2022]
Abstract
Police witness intelligence stated a murdered adult male "Fred" had been vertically buried in wooded hilly terrain 30 years ago in the Midlands, U.K. Conventional search methods were unsuccessful; therefore, the police requested a geophysical investigation to be undertaken to determine whether "Fred" could be detected. A multiphased geophysical approach was conducted, using bulk ground conductivity and metal detectors, then follow-up magnetics and ground penetrating radar (GPR) survey profiles on electromagnetic (EM) anomalous areas. A tight grid pattern was used to account for the reduced target size. Relatively high-resolution EM and GPR techniques were determined optimal for this terrain and sandy soil. Geophysical anomalies were identified and the most promising intrusively investigated, and this was found to be a large boulder and tree roots. Study implications suggest careful multiphase geophysical surveys are best practice and give confidence in cold case searches. This study yielded a no-body result, effectively saving police time and costs from further investigations.
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Affiliation(s)
- Kristopher D Wisniewski
- School of Geography, Geology and Environment, Keele University, Keele, ST5 5BG, U.K.,Department of Criminal Justice and Forensics, School of Law, Policing& Forensics, Science Centre, Staffordshire University, Leek Road, Stoke on Trent, ST4 2DF, U.K
| | - Nicholas Cooper
- School of Geography, Geology and Environment, Keele University, Keele, ST5 5BG, U.K
| | - Vivienne Heaton
- School of Chemical and Physical Sciences, Keele University, Keele, ST5 5BG, U.K
| | - Colin Hope
- School of Geography, Geology and Environment, Keele University, Keele, ST5 5BG, U.K
| | - Duncan Pirrie
- School of Applied Science, University of South Wales, Pontypridd, Rhondda Cynon Taff, CF37 4AT, U.K
| | - Andrew J Mitten
- School of Geography, Geology and Environment, Keele University, Keele, ST5 5BG, U.K
| | - Jamie K Pringle
- School of Geography, Geology and Environment, Keele University, Keele, ST5 5BG, U.K
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