RAPD-PCR – still a suitable Method for Genetically Underexplored Species?
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1
University of Hamburg, Institute of Food Chemistry, Germany
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2
Max Rubner-Institut - Institut für Sicherheit und Qualität bei Milch und Fisch, Institute of Safety and Quality of Milk and Fish, Germany
Saithe (Pollachius virens) is a commercially important fish species; the annual catch quota in the Northeast Atlantic exceeds 100.000 t. Despite that saithe is underexplored from a fish population genetically view. Because saithe is a highly migratory species, which undergoes a long larval drift, the population structure of saithe within the Northeast Atlantic is not fully understood. Models used as a basis for the management plan are based on tagging studies, which have been carried out in the 1960th. But still there are doubts regarding the numbers of stocks living in the Northeast Atlantic. Migration routes are affected by salmon farming, growing steadily from the 1990th. In the last years a hyperstability of the saithe stock in the North Sea had been detected underlining the need to have a closer look on the saithe stocks in the Northeast Atlantic.
Random amplified polymorphic DNA (RAPD) - PCR is a DNA fingerprinting technique often used in species identification and population genetic research for species, whose genome has not been sequenced very extensive as being the case for most of the food fishes. We applied RAPD-PCR in a study of saithe populations from the North Atlantic. The suitability of RAPD-PCR was improved by optimisations for enhanced reproducibility. The “classical” protocol for RAPD-PCR was modified by increasing the annealing temperature and shortening the time of annealing, providing a much better reproducibility. Thus, RAPD-PCR was found to be a straightforward and low-cost way, compared to other population genetic tools, to get a first insight into the population structure of less sequenced fish species within a very short time, being useful for preliminary studies or laboratories without large capacities for DNA sequencing.
References
Behrmann, K., Rehbein, H., Appen, A. von, Fischer, M. (2015). Applying Population Genetics for Authentication of Marine Fish: The Case of Saithe ( Pollachius virens ). Journal of Agricultural and Food Chemistry 63:802–809. doi: 10.1021/jf506201m
Keywords:
Pollachius virens,
RAPD-PCR,
fingerprinting,
Population Genetics,
Migration
Conference:
XV European Congress of Ichthyology, Porto, Portugal, 7 Sep - 11 Sep, 2015.
Presentation Type:
Oral Presentation
Topic:
Phylogeny, Systematics and Genetics
Citation:
Behrmann
KU,
Rehbein
H and
Fischer
M
(2015). RAPD-PCR – still a suitable Method for Genetically Underexplored Species?.
Front. Mar. Sci.
Conference Abstract:
XV European Congress of Ichthyology.
doi: 10.3389/conf.fmars.2015.03.00096
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Received:
20 Nov 2015;
Published Online:
21 Nov 2015.
*
Correspondence:
Mrs. Konstanze U Behrmann, University of Hamburg, Institute of Food Chemistry, Hamburg, Hamburg, 20146, Germany, konstanze.behrmann@gmx.de