Taxonomy and Systematics of the Australian Sarcophaga S.L. (Diptera: Sarcophagidae) Kelly Ann Meiklejohn University of Wollongong

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Taxonomy and Systematics of the Australian Sarcophaga S.L. (Diptera: Sarcophagidae) Kelly Ann Meiklejohn University of Wollongong University of Wollongong Research Online University of Wollongong Thesis Collection University of Wollongong Thesis Collections 2012 Taxonomy and systematics of the Australian Sarcophaga s.l. (Diptera: Sarcophagidae) Kelly Ann Meiklejohn University of Wollongong Recommended Citation Meiklejohn, Kelly Ann, Taxonomy and systematics of the Australian Sarcophaga s.l. (Diptera: Sarcophagidae), Doctor of Philosophy thesis, School of Biological Sciences, University of Wollongong, 2012. http://ro.uow.edu.au/theses/3729 Research Online is the open access institutional repository for the University of Wollongong. For further information contact the UOW Library: [email protected] Taxonomy and systematics of the Australian Sarcophaga s.l. (Diptera: Sarcophagidae) A thesis submitted in fulfillment of the requirements for the award of the degree Doctor of Philosophy from University of Wollongong by Kelly Ann Meiklejohn BBiotech (Adv, Hons) School of Biological Sciences 2012 Thesis Certification I, Kelly Ann Meiklejohn declare that this thesis, submitted in fulfillment of the requirements for the award of Doctor of Philosophy, in the School of Biological Sciences, University of Wollongong, is wholly my own work unless otherwise referenced or acknowledged. The document has not been submitted for qualifications at any other academic institution. Kelly Ann Meiklejohn 31st of August 2012 ii Table of Contents List of Figures ................................................................................................................................................... vi List of Tables ..................................................................................................................................................... ix List of Appendices ............................................................................................................................................. x List of Abbreviations ....................................................................................................................................... xi Abstract ............................................................................................................................................................ xiv Acknowledgements ........................................................................................................................................ xvi CHAPTER 1: General Introduction ......................................................................................... 1 1.1 Preamble .................................................................................................................... 1 1.2 Distribution, characteristics and life histories of the subfamilies ..................... 1 1.2.1 Miltogramminae ........................................................................................................ 1 1.2.2 Paramacronychiinae ................................................................................................. 2 1.2.3 Sarcophaginae ........................................................................................................... 2 Forensic applications of the Sarcophaginae ................................................ 3 1.3 Species identification of the Sarcophagidae ......................................................... 4 1.3.1 Morphological species identification ..................................................................... 4 1.3.2 Molecular species identification ............................................................................. 5 Protein markers ............................................................................................... 5 DNA markers .................................................................................................. 5 Nuclear DNA ............................................................................................. 6 Mitochondrial DNA ................................................................................. 6 DNA barcoding ................................................................................. 7 1.4 Phylogenetic relationships within the genus Sarcophaga (sensu lato) ................... 8 1.5 Conclusions ............................................................................................................... 9 1.6 Aims ......................................................................................................................... 10 CHAPTER 2: Taxonomy of the Australian Sarcophagidae (Diptera) ................................... 12 2.1 Updates on the distribution and records of Australian Sarcophagidae ........ 12 2.1.1 Introduction ........................................................................................................... 13 2.1.2 Methods .................................................................................................................. 13 2.1.3 Results ..................................................................................................................... 14 New Australian records ............................................................................... 14 Miltogramminae ...................................................................................... 14 Sarcophaginae ......................................................................................... 15 2.1.4 Discussion .............................................................................................................. 19 2.2 Nomenclature and species descriptions ............................................................. 20 2.2.1 Introduction ........................................................................................................... 21 2.2.2 Materials and methods .......................................................................................... 21 iii 2.2.3 Results ..................................................................................................................... 22 Species descriptions ..................................................................................... 22 Sarcophaga (Sarcosolomonia) collessi sp. nov. ................................................. 22 Sarcophaga (Sarcorohdendorfia) clavus sp. nov. .............................................. 25 Nomenclature ............................................................................................... 27 Notes on synonymy: .............................................................................. 27 Notes on rank: ........................................................................................ 29 2.3 A revised key of the Australian Sarcophagidae (Diptera) with special emphasis on Sarcophaga (sensu lato) ....................................................................... 30 2.3.1 Introduction ........................................................................................................... 31 2.3.2 Methods .................................................................................................................. 32 2.3.3 Revised key ............................................................................................................. 33 2.3.4 Species information ............................................................................................... 56 2.3.5 Conclusions ............................................................................................................ 84 2.4 LUCID key for the Australian Sarcophaga (sensu lato) ....................................... 86 CHAPTER 3: Molecular identification of the Australian Sarcophagidae (Diptera) .............. 88 3.1 Comprehensive evaluation of DNA barcoding ................................................ 88 3.1.1 Introduction ........................................................................................................... 89 3.1.2 Materials and methods .......................................................................................... 90 Specimens ...................................................................................................... 90 DNA extraction, amplification and sequencing ...................................... 90 DNA sequence analysis ............................................................................... 91 DNA barcoding analysis ............................................................................. 91 3.1.3 Results and discussion .......................................................................................... 91 Morphological species identifications ....................................................... 91 Inclusion of female specimens ............................................................. 92 Evaluation of DNA Barcoding .................................................................. 93 NJ Tree ..................................................................................................... 93 Percentage divergences .......................................................................... 95 Intraspecific variation ..................................................................... 96 Interspecific variation ..................................................................... 98 Phylogenetic inference ................................................................................ 99 3.1.4 Conclusions ............................................................................................................ 99 3.2 Immature identification using DNA barcoding ............................................. 101 3.2.1 Introduction ........................................................................................................
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