blanche d’anastasi – phd candidate 1,2,3 dr vimoksalehi lukoschek – research fellow 1 dr lynne...
TRANSCRIPT
Using Next Generation Amplicon Sequencing to undertake a high resolution diet study in true sea
snakes
Blanche D’Anastasi – PhD Candidate1,2,3
Dr Vimoksalehi Lukoschek – Research Fellow1
Dr Lynne van Herwerden – Senior Lecturer2
Dr. Colin Simpfendorfer – Professor and Centre Director3,4
Dr. Jean-Paul Hobbs – Post Doctoral Fellow5
1Australian Research Council Centre of Excellence for Coral Reef Studies, JCU2School of Marine and Tropical Biology, James Cook University3School of Earth and Environmental Sciences, JCU4Centre for Sustainable Tropical Fisheries and Aquaculture, James Cook University 5Oceans Institute, University of Western Australia
Simon Allen
1. Extract DNA from intestinal content of at least 20 snakes
per species
2. Use PCR to amplify genes of prey items and tag gut contents of 25 snakes
3. Pool equal amount of amplicons from 25 snakesN
GA
S –
How
it
work
s
4. Send for Next Generation Sequencing on a Roche GS
Junior 454 platform
NG
AS –
How
it
work
s
5. A library of 7000 sequence reads per snake
6. Use Bioinformatics platforms to match each read to a data bases
NG
AS –
How
it
work
s7. No match – geographic
information or assign higher taxonomic status
8. Calculate % contribution of each prey item
Murray et al., 2011