caa a22 4500 445845171 CHVBK 20180317145356.0 cr unu---uuuuu 170323e20110301xx s 000 0 eng 10.1007/s10709-011-9554-4 doi (NATIONALLICENCE)springer-10.1007/s10709-011-9554-4 Microsatellite standardization and evaluation of genotyping error in a large multi-partner research programme for conservation of Atlantic salmon ( Salmo salar L.) [Elektronische Daten] [J. Ellis, J. Gilbey, A. Armstrong, T. Balstad, E. Cauwelier, C. Cherbonnel, S. Consuegra, J. Coughlan, T. Cross, W. Crozier, E. Dillane, D. Ensing, C. García de Leániz, E. García-Vázquez, A. Griffiths, K. Hindar, S. Hjorleifsdottir, D. Knox, G. Machado-Schiaffino, P. McGinnity, D. Meldrup, E. Nielsen, K. Olafsson, C. Primmer, P. Prodohl, L. Stradmeyer, J.-P. Vähä, E. Verspoor, V. Wennevik, J. Stevens] Microsatellite genotyping is a common DNA characterization technique in population, ecological and evolutionary genetics research. Since different alleles are sized relative to internal size-standards, different laboratories must calibrate and standardize allelic designations when exchanging data. This interchange of microsatellite data can often prove problematic. Here, 16 microsatellite loci were calibrated and standardized for the Atlantic salmon, Salmo salar, across 12 laboratories. Although inconsistencies were observed, particularly due to differences between migration of DNA fragments and actual allelic size (‘size shifts'), inter-laboratory calibration was successful. Standardization also allowed an assessment of the degree and partitioning of genotyping error. Notably, the global allelic error rate was reduced from 0.05±0.01 prior to calibration to 0.01±0.002 post-calibration. Most errors were found to occur during analysis (i.e. when size-calling alleles; the mean proportion of all errors that were analytical errors across loci was 0.58 after calibration). No evidence was found of an association between the degree of error and allelic size range of a locus, number of alleles, nor repeat type, nor was there evidence that genotyping errors were more prevalent when a laboratory analyzed samples outside of the usual geographic area they encounter. The microsatellite calibration between laboratories presented here will be especially important for genetic assignment of marine-caught Atlantic salmon, enabling analysis of marine mortality, a major factor in the observed declines of this highly valued species. The Author(s), 2011 Atlantic salmon nationallicence Microsatellite nationallicence Calibration nationallicence Standardization nationallicence Genotyping error nationallicence Conservation nationallicence Ellis J. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut Gilbey J. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Armstrong A. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Balstad T. Norwegian Institute for Nature Research (NINA), 7485, Trondheim, Norway aut Cauwelier E. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Cherbonnel C. GENINDEXE, 6 rue des Sports, 17000, La Rochelle, France aut Consuegra S. Institute of Biological, Environmental & Rural Sciences, Aberystwyth University, SY23 3DA, Aberystwyth, UK aut Coughlan J. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut Cross T. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut Crozier W. Agri-Food and Biosciences Institute Northern Ireland, Fisheries and Aquatic Ecosystems Branch, Newforge Lane, BT9 5PX, Belfast, UK aut Dillane E. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut Ensing D. Agri-Food and Biosciences Institute Northern Ireland, Fisheries and Aquatic Ecosystems Branch, Newforge Lane, BT9 5PX, Belfast, UK aut García de Leániz C. School of the Environment and Society, Swansea University, SA2 8PP, Swansea, UK aut García-Vázquez E. Departament of Functional Biology, Genetics, Universidad de Oviedo, C/Julian Claveria s/n, 33006, Oviedo, Spain aut Griffiths A. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut Hindar K. Norwegian Institute for Nature Research (NINA), 7485, Trondheim, Norway aut Hjorleifsdottir S. Matis ohf., Vinlandsleid 12, 113, Reykjavik, Iceland aut Knox D. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Machado-Schiaffino G. Departament of Functional Biology, Genetics, Universidad de Oviedo, C/Julian Claveria s/n, 33006, Oviedo, Spain aut McGinnity P. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut Meldrup D. DTU Aqua, National Institute of Aquatic Resources, Technical University of Denmark, Vejlsøve 39, 8600, Silkeborg, Denmark aut Nielsen E. DTU Aqua, National Institute of Aquatic Resources, Technical University of Denmark, Vejlsøve 39, 8600, Silkeborg, Denmark aut Olafsson K. Matis ohf., Vinlandsleid 12, 113, Reykjavik, Iceland aut Primmer C. Department of Biology, University of Turku, 20014, Turku, Finland aut Prodohl P. School of Biological Sciences, Queens University, BT9 7BL, Belfast, UK aut Stradmeyer L. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Vähä J.-P Department of Biology, University of Turku, 20014, Turku, Finland aut Verspoor E. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut Wennevik V. Institute of Marine Research, Nordnesgaten 50, 5005, Bergen, Norway aut Stevens J. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut Genetica Springer Netherlands 139/3(2011-03-01), 353-367 0016-6707 139:3<353 2011 139 10709 https://doi.org/10.1007/s10709-011-9554-4 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s10709-011-9554-4 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Ellis J. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut NATIONALLICENCE 700 1- Gilbey J. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Armstrong A. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Balstad T. Norwegian Institute for Nature Research (NINA), 7485, Trondheim, Norway aut NATIONALLICENCE 700 1- Cauwelier E. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Cherbonnel C. GENINDEXE, 6 rue des Sports, 17000, La Rochelle, France aut NATIONALLICENCE 700 1- Consuegra S. Institute of Biological, Environmental & Rural Sciences, Aberystwyth University, SY23 3DA, Aberystwyth, UK aut NATIONALLICENCE 700 1- Coughlan J. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut NATIONALLICENCE 700 1- Cross T. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut NATIONALLICENCE 700 1- Crozier W. Agri-Food and Biosciences Institute Northern Ireland, Fisheries and Aquatic Ecosystems Branch, Newforge Lane, BT9 5PX, Belfast, UK aut NATIONALLICENCE 700 1- Dillane E. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut NATIONALLICENCE 700 1- Ensing D. Agri-Food and Biosciences Institute Northern Ireland, Fisheries and Aquatic Ecosystems Branch, Newforge Lane, BT9 5PX, Belfast, UK aut NATIONALLICENCE 700 1- García de Leániz C. School of the Environment and Society, Swansea University, SA2 8PP, Swansea, UK aut NATIONALLICENCE 700 1- García-Vázquez E. Departament of Functional Biology, Genetics, Universidad de Oviedo, C/Julian Claveria s/n, 33006, Oviedo, Spain aut NATIONALLICENCE 700 1- Griffiths A. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut NATIONALLICENCE 700 1- Hindar K. Norwegian Institute for Nature Research (NINA), 7485, Trondheim, Norway aut NATIONALLICENCE 700 1- Hjorleifsdottir S. Matis ohf., Vinlandsleid 12, 113, Reykjavik, Iceland aut NATIONALLICENCE 700 1- Knox D. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Machado-Schiaffino G. Departament of Functional Biology, Genetics, Universidad de Oviedo, C/Julian Claveria s/n, 33006, Oviedo, Spain aut NATIONALLICENCE 700 1- McGinnity P. Department of Zoology, Ecology & Plant Science/Aquaculture & Fisheries Development Centre, University College, Cork, Ireland aut NATIONALLICENCE 700 1- Meldrup D. DTU Aqua, National Institute of Aquatic Resources, Technical University of Denmark, Vejlsøve 39, 8600, Silkeborg, Denmark aut NATIONALLICENCE 700 1- Nielsen E. DTU Aqua, National Institute of Aquatic Resources, Technical University of Denmark, Vejlsøve 39, 8600, Silkeborg, Denmark aut NATIONALLICENCE 700 1- Olafsson K. Matis ohf., Vinlandsleid 12, 113, Reykjavik, Iceland aut NATIONALLICENCE 700 1- Primmer C. Department of Biology, University of Turku, 20014, Turku, Finland aut NATIONALLICENCE 700 1- Prodohl P. School of Biological Sciences, Queens University, BT9 7BL, Belfast, UK aut NATIONALLICENCE 700 1- Stradmeyer L. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Vähä J.-P Department of Biology, University of Turku, 20014, Turku, Finland aut NATIONALLICENCE 700 1- Verspoor E. Marine Scotland, Freshwater Laboratory, PH16 4LB, Faskally, Pitlochry, UK aut NATIONALLICENCE 700 1- Wennevik V. Institute of Marine Research, Nordnesgaten 50, 5005, Bergen, Norway aut NATIONALLICENCE 700 1- Stevens J. School of Biosciences, Hatherly Laboratories, University of Exeter, Prince of Wales Rd, EX4 4PS, Exeter, UK aut NATIONALLICENCE 773 0- Genetica Springer Netherlands 139/3(2011-03-01), 353-367 0016-6707 139:3<353 2011 139 10709 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer