Abstract:
Genetic profiling data relating to studies on Antarctic krill, Euphausia superba, that document the sequence of expression of genes over the moult cycle and the spatial-temporal expression of clock genes. This work was carried out to examine rhythmic behaviour patterns in this species - namely diel vertical migration and the moult cycle - and the functioning of the genes that underlie these behaviours.
Circadian entrainment experiments were carried out twice during the Discovery 2010 summer cruise (cruise no JR177) using krill caught in nets at latitudes of 60S and 52S. Krill samples from each net were processed and preserved for subequent analysis using molecular biology technique to isolate canonical clock genes.
Keywords:
Euphausia, animal behaviour, circadian, clock-genes, krill, microarray, moult cycle, phylogenetics
| Creation Date: | 2012-03-07 |
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| Dataset Progress: | Complete |
| Dataset Language: | English |
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| Personnel: | |
| Name | UK PDC |
| Role(s) | Metadata Author |
| Organisation | British Antarctic Survey |
| Name | Dr Ezio Rosato |
| Role(s) | Investigator |
| Organisation | University of Leicester |
| Name | Dr Geraint Tarling |
| Role(s) | Investigator |
| Organisation | British Antarctic Survey |
| Name | Dr Rachael Shreeve |
| Role(s) | Investigator, Technical Contact |
| Name | Prof Charalambos Kyriacou |
| Role(s) | Investigator |
| Organisation | University of Leicester |
| Name | Dr Edward Gaten |
| Role(s) | Investigator |
| Organisation | University of Leicester |
| Parent Dataset: | N/A |
| Reference: | Papers: Goodall-Copestake WP, Pérez-Espona S, Clark MS, Murphy EJ, Seear PJ, Tarling GA (2010) Swarms of diversity at the gene cox1 in Antarctic krill. Heredity, 104: 513-518. Seear PJ, Tarling GA, Burns G, Goodall-Copestake WP, Gaten E, Özkaya Ö, Rosato E (2010). Differential gene expression during the moult cycle of Antarctic krill (Euphausia superba) BMC Genomics, 11: 582. Seear P J, Tarling GA, Teschke M, Meyer B, Thorne MAS , Clark MS, Gaten E, Rosato E (2009) Effects of simulated light regimes on gene expression in Antarctic krill (Euphausia superba Dana) Journal of Experimental Marine Biology and Ecology, 381: 57-64. Gaten T, Tarling G, Dowse H, Kyriacou CP, Rosato E (2008) Is vertical migration in Antarctic krill (Euphausia superba) influenced by an underlying circadian rhythm? Journal of Genetics, 87: 473-483. Conference proceedings and seminars: Ozkaya O, Gaten E,. Kyriacou CP, Tarling G, Rosato E. Rhythmic behaviour in Antarctic krill: a role for the clock? Poster presentation - SRBR, Sandestin, Florida (USA), 22-26 May 2010. p125 Ozkaya O, Seear P, Gaten E, Tarling G, Kyriacou CP, Rosato E. Gene function in Antartict krill: Determining the role of clock-genes in synchronised behavioural patterns. 9th Antartic Funding Initiative workshop, New Hall, Cambridge, 13-14 September 2010. Rosato E. Delayed coupling and feedback in the circadian network. Slide presentation Lorentz Centre workshop - Assembling a multi-cellular circadian pacemaker- August 16-20 2010, Leiden, The Netherlands. Ozkaya O. From flies to krill, reverse genetics to characterise a polar clock. Genome Science Research Theme Day, Leicester University, April 2010. Ozkaya O, Rosato E. The molecular basis of circadian rhythms in Antarctic krill. Australian Antarctic Division, Hobart, Australia, 25 February 2010. Ozkaya O, Seear P, Gaten E, Tarling G, Kyriacou CP, Rosato E. Gene function in Antartict krill: Determining the role of clock-genes in synchronised behavioural patterns. 8th Antartic Funding Initiative workshop, New Hall, Cambridge, 21-22 September 2009. Ozkaya O, Seear P, Gaten E, Tarling G, Kyriacou CP, Rosato E. Gene function in Antarctic krill: determining the role of clock-genes in synchronised behavioural patterns. 7th Antarctic Funding Initiative Workshop. New Hall, University of Cambridge, September 2008. Book Chapters: Rosato E, Kyriacou CP. The role of natural selection in circadian behaviour: a molecular genetic approach. Essays in Biochemistry, Chronobiology volume (Editor: H Piggins), 49(1):71-85, 2011, Portland Press Limited, London, UK. Tarling GA. Preface. Advances in Marine Biology, The Biology of Northern krill volume (Editor G Tarling); 57:xvii-xix, 2010 , Academic Press, London, UK. Tarling GA, Ensor NS, Fregin T, Goodall-Copestake WP, Fretwell P. An introduction to the biology of Northern krill (Meganyctiphanes norvegica Sars). Advances in Marine Biology, The Biology of Northern krill volume (Editor G Tarling);57:1-40, 2010, Academic Press, London, UK. Tarling GA. Population dynamics of Northern krill (Meganyctiphanes norvegica Sars). Advances in Marine Biology, The Biology of Northern krill volume (Editor G Tarling);57:59-90, 2010, Academic Press, London, UK Project ref: AFI 7/06: Gene function in Antarctic krill: determining the role of clock-genes in synchronised behavioural patterns |
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| Lineage: | An entrainment tank containing around 250 l of flowing seawater was used for studying the spatial and temporal expression of clock genes. The animals were maintained under a controlled light/environmental regime that mimicked that normally experienced by swarms at the latitude from which they were taken. After 2 days entrainment, a sample of krill (usually 10 animals) was taken at 3-hourly intervals over a period of 48 hours; these were either preserved in RNAlater (a commercially available solution for long term storage of tissues without deterioration of their RNA) or were frozen directly at -80C. During the next 24 hours samples were taken at 6-hourly intervals and fixed in PFA as above. The lights were switched off and on the 2nd, 3rd and 4th day in total darkness, the above sampling regime was repeated. The circadian entrainment experiment was carried out twice, using animals from nets at latitudes of 60S and 52S. A total of 1,090 preserved specimens were returned to the UK for subsequent molecular genetic analysis. A second entrainment tank was used to study the moult cycle genes. Up to 20 animals were removed each day at the same time, measured, moult staged and the heads preserved in RNAlater for subsequent use in the microarray studies to isolate the genes involved in the moult cycle. A total of 590 krill in RNAlater were returned to the UK at -20C for further analysis. The ambient water temperatures for these latitudes were taken from CTD data. |
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| Project: |
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| Temporal Coverage: | |
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| Start Date | 2007-12-31 |
| End Date | 2011-06-30 |
| Spatial Coverage: | |
| Latitude | |
| Southernmost | -61 |
| Northernmost | -50 |
| Longitude | |
| Westernmost | -49 |
| Easternmost | -33 |
| Altitude | |
| Min Altitude | N/A |
| Max Altitude | N/A |
| Depth | |
| Min Depth | N/A |
| Max Depth | N/A |
| Location: | |
| Location | Southern Ocean |
| Detailed Location | Near South Orkney Islands |
| Location | South Atlantic Ocean |
| Detailed Location | North-West of South Georgia |
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| Data Collection: | See the following for details: Seear PJ, Tarling GA, Burns G, Goodall-Copestake WP, Gaten E, Ozkaya O, Rosato E (2010). Differential gene expression during the moult cycle of Antarctic krill (Euphausia superba) BMC Genomics, 11: 582. Seear P J, Tarling GA, Teschke M, Meyer B, Thorne MAS , Clark MS, Gaten E, Rosato E (2009) Effects of simulated light regimes on gene expression in Antarctic krill (Euphausia superba Dana) Journal of Experimental Marine Biology and Ecology, 381: 57-64 |
| Data Storage: | Unique sequences generated for the gene cytochrome c oxidase subunit I (cox1) were deposited in GenBank with accession numbers GQ305462-GQ305901. Expressed Sequence Tags were deposited in dbEST with the following accession numbers: 60125367-60126646; 68794898-68797989. The EST sequences can also be located using the following Genbank accession numbers: FL688135-FL689414; GW421184-GW424275. Microarray data have been submitted to ArrayExpress with the accession number E-MEXP-2605. [The recording of the microarray experiment metadata complies with Minimum Information About a Microarray Experiment (MIAME) guidelines.] Libraries of clones and microarrays are currently stored at BAS. Sequences and clones of clock genes from krill are currently archived at Leicester University. The research project also generated flies carrying the Euphausia cryptochrome1 (cry1) and cryptochrome 2 (cry2) transformants. These are also archived at Leicester University. |
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