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DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa
In forensic entomology, determining species identity is a crucial step towards estimating post mortem interval. DNA barcoding can aid in the identification of unknown forensically relevant species, and this requires the comparison of DNA barcodes to reference data from known species. However, there...
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| Format: | Thesis |
| Language: | English |
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Department of Pathology
2020
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| _version_ | 1867613337960841216 |
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| access_status_str | Open Access |
| author | Kulenkampff, Kyle Sieghard |
| author2 | Heathfield, Laura |
| author_browse | Heathfield, Laura Kulenkampff, Kyle Sieghard |
| author_facet | Heathfield, Laura Kulenkampff, Kyle Sieghard |
| author_sort | Kulenkampff, Kyle Sieghard |
| collection | Thesis |
| description | In forensic entomology, determining species identity is a crucial step towards estimating post mortem interval. DNA barcoding can aid in the identification of unknown forensically relevant species, and this requires the comparison of DNA barcodes to reference data from known species. However, there is a lack of DNA barcode reference data of forensically relevant Calliphoridae species in the Western Cape (South Africa). DNA barcodes were generated for the COI and ITS2 markers for 41 forensically relevant Calliphoridae specimens, representing seven species from six localities in the Western Cape: Chrysomya albiceps (n = 3), Chrysomya chloropyga (n = 8), Chrysomya marginalis (n = 5), Chrysomya megacephala (n = 7), Hemipyrellia fernandica (n = 1), Lucilia cuprina (n = 8) and Lucilia sericata (n = 9). This data was combined with that from Cooke et al. (2018) (n = 40), and subjected to rigorous statistical and phylogenetic analyses. Phylogenetic analysis which combined data for both COI and ITS2 barcodes returned monophyletic clades for each species with increased support when compared to using each barcode individually. This combined dataset was able to discriminate between L. cuprina and L. sericata with full support (100% pP), which was not achieved previously. DNA barcodes were evaluated for intra- and inter-specific variance as well as haplotype patterning. No haplotype patterning was observed for either barcodes across sampled localities. Lastly, a single-blinded approach was used to assess the dataset, whereby DNA barcodes from ‘unknown’ specimens were correctly identified using this reference data. These identifications were more accurate than those using GenBank® or BOLD, highlighting the importance of using locally relevant reference data. This study has contributed new data pertaining to DNA barcodes for seven Calliphoridae species, which was previously scarce for the Western Cape, and this has directly contributed to an improvement in the accuracy of local species identification. |
| format | Thesis |
| id | oai:open.uct.ac.za:11427/31810 |
| institution | University of Cape Town (South Africa) |
| language | eng |
| last_indexed | 2026-06-10T12:34:32.198Z |
| license_str | Not specified — see source repository |
| provenance_str_mv | Harvested via OAI-PMH from UCTD — University of Cape Town Open Access Repository |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Department of Pathology |
| publisherStr | Department of Pathology |
| record_format | dspace |
| source_str | UCTD — University of Cape Town Open Access Repository |
| spelling | oai:open.uct.ac.za:11427/31810 DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa Kulenkampff, Kyle Sieghard Heathfield, Laura Heyns, Marise Biomedical Forensic Science In forensic entomology, determining species identity is a crucial step towards estimating post mortem interval. DNA barcoding can aid in the identification of unknown forensically relevant species, and this requires the comparison of DNA barcodes to reference data from known species. However, there is a lack of DNA barcode reference data of forensically relevant Calliphoridae species in the Western Cape (South Africa). DNA barcodes were generated for the COI and ITS2 markers for 41 forensically relevant Calliphoridae specimens, representing seven species from six localities in the Western Cape: Chrysomya albiceps (n = 3), Chrysomya chloropyga (n = 8), Chrysomya marginalis (n = 5), Chrysomya megacephala (n = 7), Hemipyrellia fernandica (n = 1), Lucilia cuprina (n = 8) and Lucilia sericata (n = 9). This data was combined with that from Cooke et al. (2018) (n = 40), and subjected to rigorous statistical and phylogenetic analyses. Phylogenetic analysis which combined data for both COI and ITS2 barcodes returned monophyletic clades for each species with increased support when compared to using each barcode individually. This combined dataset was able to discriminate between L. cuprina and L. sericata with full support (100% pP), which was not achieved previously. DNA barcodes were evaluated for intra- and inter-specific variance as well as haplotype patterning. No haplotype patterning was observed for either barcodes across sampled localities. Lastly, a single-blinded approach was used to assess the dataset, whereby DNA barcodes from ‘unknown’ specimens were correctly identified using this reference data. These identifications were more accurate than those using GenBank® or BOLD, highlighting the importance of using locally relevant reference data. This study has contributed new data pertaining to DNA barcodes for seven Calliphoridae species, which was previously scarce for the Western Cape, and this has directly contributed to an improvement in the accuracy of local species identification. 2020-05-06T12:05:01Z 2020-05-06T12:05:01Z 2019 2020-05-06T01:41:40Z Master Thesis Masters MPhil https://hdl.handle.net/11427/31810 eng application/pdf Department of Pathology Faculty of Health Sciences |
| spellingShingle | Biomedical Forensic Science Kulenkampff, Kyle Sieghard DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| thesis_degree_str | Master's |
| title | DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| title_full | DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| title_fullStr | DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| title_full_unstemmed | DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| title_short | DNA barcoding of forensically important blow flies (Diptera: Calliphoridae) within the Western Cape of South Africa |
| title_sort | dna barcoding of forensically important blow flies diptera calliphoridae within the western cape of south africa |
| topic | Biomedical Forensic Science |
| url | https://hdl.handle.net/11427/31810 |
| work_keys_str_mv | AT kulenkampffkylesieghard dnabarcodingofforensicallyimportantblowfliesdipteracalliphoridaewithinthewesterncapeofsouthafrica |