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Microsatellite DNA Markers | |||||||||
| Sample ID | Lade 213 | C01.251 | Ren135 | sry | Wan142 | Wan502 | Wan374 | Ren195 | Wan402 |
| 140508-42 | - | 131141 | 161163 | 7878 | - | 7677 | 110110 | - | 8993 |
| 190608-17 | 110111 | 131134 | 157161 | 7878 | 134134 | 7576 | 109110 | 135136 | 8789 |
| 190608-19 | 110111 | 128128 | 161163 | F | 136148 | 7577 | 109110 | 136149 | 8993 |
| 190608-20 | 111111 | 128134 | 157163 | 7878 | 134142 | 7777 | 109112 | 136149 | 9393 |
| 150208-1 | 109111 | 128134 | - | 7878 | - | 7575 | 110112 | 141141 | 8787 |
| 020708-17 | 109110 | 128131 | 161161 | - | 134136 | 7678 | 109109 | 141141 | 8789 |
| 050109-01 | 109109 | 128134 | 157161 | F | 147148 | 7878 | 109110 | 136136 | 8989 |
| 261108-01 | 110111 | 131131 | - | 7878 | - | 7878 | 110110 | - | 9393 |
| *110309-24 | 110111 | 134134 | 161161 | F | 142147 | 7678 | - | 141149 | 8791 |
| *140509-43 | 110110 | 128128 | 157163 | - | 134136 | 7778 | - | 130141 | 8793 |
April 2009: Summary of genotyping analysis of fox scats collected in Tasmania: report on an additional eleven samples
Progress Report by Dr Oliver Berry, Invasive Animals CRC, School of Animal Biology, The University of Western Australia
6 April 2009
1. Summary
Microsatellite DNA genotyping identified three individual foxes from faecal samples collected in Tasmania by the Fox Eradication Program: one male, one female, one gender unknown. No recaptures were recorded among these samples and all were different to the five individual foxes already identified through DNA testing (reported 6 March 2009). The total number of foxes identified from scat samples collected in Tasmania is eight, including two females.
2. Background
This report summarises attempts to identify and distinguish individual foxes from eleven fox faecal samples collected in Tasmania by the Fox Eradication Program. The method employed was genotyping with microsatellite DNA markers via the polymerase chain reaction (PCR). This method is commonly known as DNA fingerprinting, and involves the same molecular DNA approaches that are employed in human forensic cases.
3. Methods
DNA from eleven carnivore faeces (scats) identified as being of fox origin by the Wildlife Genetics Laboratory at the University of Canberra was sent for processing in the Wildlife Forensics Laboratory at the University of Western Australia. All sample processing took place in a laboratory dedicated to trace DNA samples, and which employs strict protocols to minimise the opportunity for sample contamination, including regular UV sterilisation, a physically segregated sterile PCR set up cabinet, and multiple no-template PCR controls.
Microsatellite DNA genotyping was attempted on all faecal DNA samples following identical methodology to that described in the previous report (6 March 2009).
As is the case for all trace DNA analyses conducted in the Wildlife Forensics Laboratory, a quantitative real-time PCR step was used prior to genotyping to assess the quantity and quality of DNA present in each sample, and to determine the optimal PCR conditions for that sample. Additional sex-identification tests were conducted on sample 150208-1, for which gender was previously unavailable.
4. Results and discussion
Three scats produced genotypes of high enough quality to distinguish individual foxes. Each scat produced a unique individual genotype, indicating the presence of at least three different foxes in the sample. One of the foxes was male (presence of sry PCR product), and one was female (absence of sry, but strong co-amplification of other markers). The gender of one sample could not be confirmed. The details of these samples are presented in Table 1.
In addition, sample 150208-1 was determined to be male. The total number of foxes identified from faecal DNA samples collected in Tasmania is eight, including five males, two females and one gender unknown (Appendix 1).
Table 1. Details of three further individual foxes identified from 11 faecal (scat) samples collected in Tasmania.
| Sample ID | Location and date collected (scat) | Gender | Number of markers with consensus genotype |
| 020708-17 | Spreyton, 23 June 08 | Unknown | 8 |
| 050109-01 | Boat Harbour, 16 Dec 08 | Female | 9 |
| 261108-01 | Wynyard, 04 Nov 08 | Male | 6 |
Microsatellite DNA Markers | |||||||||
| Sample ID | Lade 213 | C01.251 | Ren135 | sry | Wan142 | Wan502 | Wan374 | Ren195 | Wan402 |
| 140508-42 | - | 131141 | 161163 | 7878 | - | 7677 | 110110 | - | 8993 |
| 190608-17 | 110111 | 131134 | 157161 | 7878 | 134134 | 7576 | 109110 | 135136 | 8789 |
| 190608-19 | 110111 | 128128 | 161163 | F | 136148 | 7577 | 109110 | 136149 | 8993 |
| 190608-20 | 111111 | 128134 | 157163 | 7878 | 134142 | 7777 | 109112 | 136149 | 9393 |
| 150208-1 | - | 128134 | - | 7878 | - | 7575 | 110112 | 141141 | 8787 |
| 020708-17 | 109110 | 128131 | 161161 | - | 134136 | 7678 | 109109 | 141141 | 8789 |
| 050109-01 | 109109 | 128134 | 157161 | F | 147148 | 7878 | 109110 | 136136 | 8989 |
| 261108-01 | 110111 | 131131 | - | 7878 | - | 7878 | 110110 | - | 9393 |
March 2009: Summary of genotyping analysis of fox scats collected in Tasmania
Progress Report by Dr Oliver Berry, Invasive Animals CRC, School of Animal Biology, The University of Western Australia
6 March 2009
1. Summary
Microsatellite DNA genotyping identified five individual foxes from faecal samples (scats) collected in Tasmania by the Fox Eradication Program. DNA analysis also demonstrated that three of the foxes were males and one was a female. One sample requires further testing to confirm its gender.
2. Background
This report summarises attempts to identify and distinguish individual foxes from fox faecal samples collected in Tasmania by the Fox Eradication Program. The method employed was genotyping with microsatellite DNA markers via the polymerase chain reaction (PCR). This method is commonly known as DNA fingerprinting, and involves the same molecular DNA approaches that are employed in human forensic cases.
3. Methods
DNA from 25 carnivore faeces identified as being of fox origin by the Wildlife Genetics Laboratory at the University of Canberra was sent for processing in the Wildlife Forensics Laboratory at the University of Western Australia.
All sample processing took place in a laboratory dedicated to trace DNA samples, and which employs strict protocols to minimise the opportunity for sample
contamination, including regular UV sterilisation, and a physically segregated sterile PCR setup cabinet.
Microsatellite DNA genotyping was attempted on all scat DNA samples. The marker panel consisted of eight microsatellite DNA markers and a male-specific marker (sry)1. These makers were co-amplified in three PCR multiplex reactions (each with three markers). Our studies of foxes on mainland Australia show that genotypes from a minimum of five of these markers are required to discriminate individual foxes if the sample includes full siblings (PIDsib ≤ 0.01). Fewer markers are required in the more usual case where siblings are not present (three to four).
All PCR reactions were replicated a minimum of five times. The criteria of Frantz et al.2 was used to establish consensus genotypes for each individual. Gender identification required that the male-specific PCR product (sry - testis determining gene) was present in all five replicate PCRs for the sample to be designated male. The absence of this product in all replicates was used to designate females only when microsatellite DNA markers co-amplifying in a PCR multiplex with the sry marker also amplified a product (to control for false negatives resulting from PCR failure). In the one sample where the male-identifying marker did not amplify we performed a further five PCR replicates to confirm the female result.
4. Results and discussion
Four scats produced genotypes of high enough quality to distinguish individual foxes at the high stringency where full-sibs could be distinguished (minimum of five microsatellite markers with consensus genotypes). An additional sample produced a four marker genotype (Appendix 1). Each scat produced a unique individual genotype, indicating the presence of at least five different foxes in the sample. Three of the foxes were male (presence of sry PCR product), and one was female (absence of sry). The gender of one sample could not be confirmed and requires further testing. The details of these samples are presented in Table 1.
Twenty samples did not produce adequate genotypes to distinguish individual foxes. In most cases no markers achieved consensus genotypes for these samples. It is significant that the highest quality genotypes were also the most recently collected. The poor result from the remainder of the samples reflects the rapid degradation of DNA as it ages1.
Table 1. Details of five individual foxes identified from faecal (scat) samples collected in Tasmania.
| Sample ID | Location and date collected (scat) | Gender | Number of markers with consensus genotype |
| 140508-42 | Spreyton, 07 May 08 | Male | 5 |
| 190608-17 | Burnie, 27 May 08 | Male | 7 |
| 190608-19 | Burnie, 16 Jun 08 | Male | 6 |
| 190608-20 | Lower Barrington, 17 Jun 08 | Female | 7 |
| 150208-1 | Campbell Town, 08 Feb 08 | Unknown | 4 |
Microsatellite DNA Markers | |||||||||
| Sample ID | Lade 213 | C01.251 | Ren135 | sry | Wan142 | Wan502 | Wan374 | Ren195 | Wan402 |
| 140508-42 | - | 131141 | 161163 | 78 | - | 7677 | 110110 | - | 8993 |
| 190608-17 | 110111 | 131134 | 157161 | 78 | 134134 | 7576 | 109110 | 135136 | 8789 |
| 190608-19 | 110111 | 128128 | 161163 | 78 | 136148 | 7577 | 109110 | 136149 | 8993 |
| 190608-20 | 111111 | 128134 | 157163 | F | 134142 | 7777 | 109112 | 136149 | 9393 |
| 150208-1 | - | 128134 | - | - | - | 7575 | 110112 | 141141 | 8787 |
August 2006: Red fox found killed on Glen Esk Rd (1 August 2006)
Independent Report by Consultant Veterinary Pathologist, Tony Ross into DPIW report documents
1 February 2007
This is a Portable Document Format (PDF) file and requires the use of Adobe Acrobat Reader. The Reader is easy to download and is free of charge.![]()
Review of Fox Incident Documents by Consultant Veterinary Pathologist, Dr Tony Ross - 1 February 2007
(PDF: 16 KB / 3 pages)
Updated report on the authenticity of a red fox found recently killed on Glen Esk Rd, 1 August 2006
This note summarises the reporting of a fox carcass to the Fox Free Taskforce by several members of the public and subsequent examination of the fox, the site and circumstances and reassessment of evidence. The summary includes evidence about the recovery and examinations of the carcass and site, investigations of the subsequent claim by a further witness that he ran the fox over in a vehicle and a later anonymous report and subsequent evidence that the death occurred earlier nearby and a rumour that the apparent road-kill was a hoax. The update also contains comment on corroborative evidence in the form of apparent fox positive scats found nearby.
1. Reported finding and subsequent recovery of the fox
At about 1010 hrs on 1 August 2006 the Taskforce was phoned by a man who identified himself and claimed to have just found a freshly killed fox on the side of Glen Esk Rd just east of its junction with the Midlands Highway. The informant advised that he'd wait with the fox for the Taskforce. Two Taskforce staff en route to Launceston from Hobart were diverted to the site arriving at 1035 hrs.
What seemed a full-sized Red Fox Vulpes vulpes (to be referred to as the 'Cleveland Fox') was in the back of a 4WD ute. The fox partly lay on clean irrigation hose and there was no body fluid in the relatively clean tray (photo 1). The ute was about 400m along Glen Esk Rd from the Midlands Highway (Cleveland 1:25,000 map 5237 grid ref 535150E 5370270N). Two witnesses were present, one claiming the fox was "warm and floppy" when he handled it "about an hour before". The day was slightly overcast and very cold (estimated at 1-3oC from comparing recordings at the nearby Cressy meteorological station to ambient on site). It had not rained the previous night nor that morning.
Immediate discussion revealed the following apparent sequence of events.
At about 0930 hrs, Witness 1 reported a dead fox on the roadside by mobile phone to Witness 2 following at some distance in a truck who immediately picked the fox up, reportedly to prevent further vehicle damage to it, placing it on a tool box. There was a discussion about whether to report it because it of the likelihood of public ridicule, one Witness even making the comment that "he didn’t want to become another Bosworth" (referring to the intense public ridicule a Mr Bosworth and his companion suffered after publicly claiming to have shot a fox in 2001) but eventually they decided to. The fox was transferred to an accompanying ute, a mobile phone photo of the fox being held by the tail being taken about then (published in the Mercury newspaper 3 August 2006). All of these witnesses were agricultural contractors going to work, hence their proximity and exchanges. A brief drive gave better phone reception and the report was made to the Taskforce (via a switchboard). The ute driver then returned with a colleague to the site of finding and they waited for the Taskforce, the other drivers continuing to work.
The two witnesses waiting for the Taskforce (Witnesses 3 and 4) were not present when Witness 2 actually picked up the fox so were not sure of the precise place but Witness 2 returned on request and showed the location to the Taskforce.
A person (Witness 5) passing the site at about 0830 reportedly saw no fox there (this suggests but does not mean the fox was not there).
2. Claim of running the fox over
At 1030 hrs on 2 August a man reported to the Taskforce that it was he who hit the fox on the morning of 1 August. He identified himself to the Taskforce but asked not to be publicly named because he feared ridicule. He was met and reported driving along the road sometime between about 0930 hrs, feeling a bump under a tyre and on checking saw what appeared to be a dead fox orientated as though it was travelling north to south (his left to right). He reported an impression that he "saw something to his left" before the collision but could not be absolutely sure. He assumed he himself had road-killed the fox. Subsequent to the collision, the vehicle concerned was used extensively; he said it bore no evidence of the collision, a heavy-duty tyre being the only point of contact.
3. Immediate examination of the fox
The carcass body appeared very slightly warm. Taskforce staff first arriving and undertaking this examination were delivering a car stripped of field equipment so had to improvise at this stage. A deep, narrow stab wound with a knife was made to the chest and a finger inserted which showed that the body core was slightly warm. The male fox looked and felt in good physical condition and appeared to be a young adult (although the fox had neat, sharp teeth and was not overly large it had well-developed testes). There was no sign of rigor mortis in jaw nor limbs.
The fox had firm, clear and moist eyes, fresh blood and saliva in and around the mouth, pale gums, intact teeth (except for one molar missing and healed) and a small cut on the lip in the back of the mouth matching teeth in the closed jaw. A large patch of skin about 35 cm long by 10-15 cm wide was hanging off but still attached to its side (Photos 2 and 3), small speckled bruising and pin-prick bleeding suggesting the skin was torn off. The wide, ragged tear extended along the groin exposing the penis shaft and continued into the right hind leg. This resulted in torn and bruised muscle being exposed. The abdomen was badly bruised but not ruptured. The scrotum was torn and one testicle appeared squashed.
Exposed flesh appeared very fresh (firm, shiny and moist). There was no blood on the external surface of the muzzle or elsewhere externally other than a small amount immediately around the right hind leg lesion.
There was a very small amount of fine soil/dust adhered to the labial aspect of the gums (Photo 4) which otherwise were clean. This soil could have been part of the course of foraging for soil invertebrates or it could have been because of snapping during death throes which might explain the cut lip. The former is more likely because the teeth and adjoining gums on the lingual aspect did not have this material (probably because of normal tongue action).
There was no smell of putrefaction (outside or in the mouth) just a slight, pungent smell typical of 'fox'. The pelt was dry and clean except for some entangled gravel. Limbs did not appear broken and the skull seemed intact. The tail had unusual hair growth from a scarred area distal of mid distance.
At 1055 hrs during discussions about the issue, Witness 3 commented that he had a soil thermometer probe with him (used to assess planting potential) and NJM immediately used it to take chest (12.4oC), rectal (11.90oC) and ambient (7.9oC and rapidly rising) temperatures. This thermometer was later calibrated against others and it proved accurate.
By this time, other taskforce staff had arrived and photos of the carcass were taken (Photo 1). The carcass was sealed in a new plastic bag and taken to the Launceston Veterinary Clinic, care being taking to try and keep it cool (the carcass had always been in the shade but the day was rapidly warming).
4. Site examination
There appeared to be fresh blood on the road-edge bitumen from exactly where the fox had reportedly been picked up and this was retrieved by Taskforce staff for DNA testing. This blood proved to be of fox. There were small patches of sand scattered along the roadside but no footprints that could be identified as fox, indeed few of any animals despite the many, well used runways criss-crossing the road. These runways passed through the fences adjacent to the site but no fur was found on the fence wires.
A search till the end of October of the area within about 5 km of where the carcass was retrieved produced another 110 carnivore scats. Five of these scats contained fox DNA; they were of fox or animal(s) that had eaten fox. ![]()
5. Initial veterinary examination of the fox
Dr Kim Barrett took four X-rays of the fox at 1200-1220 hrs briefly looking at the fox’s eyes and mouth, commenting on how recently killed it appeared and how the mouth was stiffening. She briefly commented on the X-rays noting the third last lumbar vertebrate was broken. In later examination she pointed out the left and right ishium (pelvis segments) were also broken.
The carcass was re-bagged (in the original bag) and taken to the nearby DPIW Animal Health Laboratories at Mt Pleasant being submitted at about 1240 hrs as specimen 06/2128 to veterinary pathologist Dr Richmond Loh for formal post-mortem examination.
6. Formal post mortem examination of the fox
The findings on cause of death are best summarised as "Based on the distribution and type of injuries sustained by the fox, it suggests a crushing type injury". Death appeared to be very quick but bruising suggests not instantaneous. Expert opinion is that death would have probably been in a few minutes and the animal may have been in extreme shock. There was no putrefaction and no evidence of freezing. The mouth became very difficult to open (an early sign of rigor mortis) and rigor mortis proper commenced as the formal post mortem examination progressed. The abdominal cavity was effectively crushed and 'jellied' but not ruptured, creating a huge sinus with much clotted blood free in the abdominal and to a lesser extent thoracic cavities. The abdominal muscles were markedly bruised. The partly detached belly skin flap showed only pin-prick bleeding.
Beyond pathology samples, the following were retrieved and sent for expert comment.
Further Information
Contact: Fox Eradication General Enquiries
Fox Eradication Program
167 Westbury Road
PROSPECT TAS 7250
Phone: 03 6336 5320
Fax: 03 6336 5453
Email: Fox.Enquiries@dpipwe.tas.gov.au
Department switchboard: 1300 368 550 (local call cost within Australia)
Media enquiries should be directed to 03 6233 3625; 0438042610.
Please report all fox sightings or any possible evidence of fox activity to the 24hr hotline: 1300 FOX OUT (1300 369 688)
Tasmania Online | Service Tasmania This page - http://www.dpipwe.tas.gov.au/inter.nsf/WebPages/EKOE-6T873S?open - was last published on 3 November 2009 by the Department of Primary Industries, Parks, Water and Environment. Questions concerning its content can be sent to Fox Enquiries by using the feedback form, by mail to GPO Box 44, Hobart, Tasmania, Australia 7001, or by telephone to 03 6336 5320. Please read our disclaimer and copyright statements governing the information we provide on this site. A text version of this page is also available. | ||