Method Development

Vartia S*, Villanueva-Cañas JL, Finarelli J, Farrell ED, Collins PC, Hughes GM, Carlsson JEL, Gauthier DT, McGinnity P, Cross TF, FitzGerald RD, Mirimin L, Crispie F, Cotter PD & Carlsson J. 2016. A novel method of microsatellite genotyping-by-sequencing using individual combintorial barcoding. Royal Society Open Science 2016, 3 DOI: 10.1098/rsos.150565.

Vera M, Bello X, Alvarez-Dios J-A, Pardo BG, Sanchez L, Carlsson J, Carlsson JE, Bartolome C, Maside X & Martinez P. Screening of repetitive motifs inside the genome of the flat oyster (Ostrea edulis): Transposable elements and short tandem repeats. Marine Genomics. doi:10.1016/j.margen.2015.08.006.

Vartia S*, Collins PC, Cross TF, FitzGerald RD, Gauthier DT, McGinnity P, Mirimin L & Carlsson J. 2014. Multiplexing with three-primer PCR for rapid and economical microsatellite validation. Hereditas, 151: 43-54. doi: 10.1111/hrd2.00044.

Carlsson J, Gauthier D, Carlsson JEL, Coughlan JP, Dillane E, FitzGerald RD, Keating FU*, McGinnity P, Mirimin L & Cross TF. 2013. Rapid, economical SNP and microsatellite discovery based on de novo assembly of a reduced representation genome in a non-model organism: a case study of Atlantic cod Gadus morhua. Journal of Fish Biology, 82: 944-958. doi: 10.1111/jfb.12034.

Mirimin L, O'Keeffe D, Ruggiero A, Bolton-Warberg M, Vartia S, Fitzgerald R. 2011. A quick, least-invasive, inexpensive and reliable method for sampling Gadus morhua post larvae for genetic analysis. Journal of Fish Biology, 79: 801-805. doi: 10.1111/j.1095-8649.2011.03049.x.

Sagarin R, Carlsson J, Duval M, Freshwater W, Godfrey M, Litaker W, Munoz R, Noble R, Schultz T & Wynne B. 2009. Bringing molecular tools into environmental resource management: Untangling the molecules to policy pathway. PLoS Biology, 7: 426-430. doi: 10.1371/journal.pbio.1000069.

Carlsson J. 2008. Effects of microsatellite null alleles on assignment testing. Journal of Heredity, 99: 616-623. DOI: 10.1093/jhered/esn048

Fernandes PG, Ralph GM, Nieto A, Criado MG, Vasilakopoulos P, Maravelias CD, Cook R, Dulvy N, Pollom RA, Kovacic M, Pollard D, Farrell ED et al. 2017. Coherent assessments of Europe's marine fishes show regional divergence and megafauna loss. Nature Ecology and Evolution, 1, Article number: 0170.

Marino IAM, Finotto L, Colloca F, Di Lorenzo M, Gristina M, Farrell ED, Zane L & Mazzoldi C. 2017. Resolving the ambiguities in the identification of two smooth-hound sharks (Mustelus mustelus and Mustelus punctulatus) using genetics and morphology. Marine Biodiversity. 10.1007/s12526-017-0701-8

Farrell ED, Carlsson JEL & Carlsson J. 2016. Next Gen Pop Gen: implementing a high-throughput approach to population genetics in boarfish (Capros aper). Royal Society Open Science, 3:160651. doi:10.1098/rsos.160651.

Gubili C, Macleod K, Perry W, Hanel P, Batzakas I, Farrell ED, Lynghammar A, Mancusi C, Mariani S, Menezes GM, Neat F, Scarcella G & Griffiths AM. 2016. Connectivity in the deep: Phylogeography of the velvet belly lanternshark. Deep Sea Research Part I, 115: 233-239.doi:/10.1016/j.dsr.2016.07.002.

Frodella N, Cannas R, Velonà A, Carbonara P, Farrell ED, Fiorentino F, Follesa MC, Garofalo G, Hemida F, Mancusi C, Stagioni M, Ungaro N, Serena F, Tinti F & Cariani A. 2016. Population connectivity and phylogeography of the Mediterranean endemic skate Raja polystigma and evidence of its hybridization with the parapatric sibling R. montagui. Marine Ecology Progress Series, 554: 99-113.doi:10.3354/meps11799.

Brevé NWP, Winter HV, Van Overzee HMJ, Farrell ED & Walker PA. 2016. Seasonal migration of the starry smooth-hound shark Mustelus asterias as revealed from tag?recapture data of an angler?led tagging programme. Journal of Fish Biology, 89: 1158-1177.doi: 10.1111/jfb.12994.

Moore ABM, Henderson AC, Farrell, ED & Weekes LB. (in press) Biological data from a Data Deficient shark: the Arabian smoothhound Mustelus mosis (Carcharhiniformes: Triakidae). Journal of Fish Biology, 88: 2303-2307.doi: 10.1111/jfb.12979.

Marino IAM, Riginella E, Cariani A, Tinti F, Farrell ED, Mazzoldi C & Zane L 2015. New molecular tools for the identification of two endangered smooth-hound sharks, Mustelus mustelus and Mustelus punctulatus. Journal of Heredity, 106:123-30. doi: 10.1093/jhered/esu064.

Flannery G, Lynch SA, Carlsson J, Cross TF & Culloty SC. 2014. Assessment of the impact of a pathogen, Bonamia ostreae, on Ostrea edulis oyster stocks with different histories of exposure to the parasite in Ireland. Aquaculture, 432: 243-251. doi:10.1016/j.aquaculture.2014.04.038.

Lynch SA, Morgan E, Carlsson J, Mackenzie C, Wooton E, Rowley A, Malham S & Culloty SC. 2014. The health status of mussels, Mytilus spp., in Ireland and Wales with the molecular identification of a previously undescribed haplosporidian. Journal of Invertebrate Pathology. 18: 59-65. doi: 10.1016/j.jip.2014.02.012.

Coad JO, Hüssy K, Farrell ED, & Clarke MW. 2014. The recent population expansion of boarfish, Capros aper (Linnaeus, 1758): interactions of climate, growth and recruitment. Journal of Applied Ichthyology, 30: 463-471. doi: 10.1111/jai.12412

Farrell ED, O'Sullivan N, Sacchi C & Mariani S. 2014. Multiple paternity and sperm storage in the starry smooth-hound shark Mustelus asterias (Carcharhiniformes: Triakidae). Biological Journal of the Linnean Society, 111:119-125. doi: 10.1111/bij.12179

Gauthier DT, Audemard CA, Carlsson JEL, Darden TL, Denson M, Reece KS & Carlsson J. 2013. Genetic population structure of U.S. Atlantic coastal striped bass (Morone saxatilis). Journal of Heredity, 104: 510-520. doi: 10.1093/jhered/est031

Lynch SA, Dillane E, Carlsson J & Culloty SC. 2013. Development and assessment of a sensitive and cost effective cPCR to detect ostreid herpes virus 1 (OsHV-1) and variants. Journal of Shellfish Research, 32: 657-664. doi/abs/10.2983/035.032.0305

Farrell ED, Hüssy K, Coad JO, Clausen LW & Clarke MW. 2012. Oocyte development and maturity classification of boarfish (Capros aper) in the Northeast Atlantic. ICES Journal of Marine Science, 69: 498-507. doi: 10.1093/icesjms/fss037

Hüssy K, Coad JO, Farrell ED, Clausen LW & Clarke MW. 2012. Sexual dimorphism in size, age, maturation and growth characteristics of boarfish (Capros aper) in the Northeast Atlantic. ICES Journal of Marine Science, 69: 1729-1735. doi: 10.1093/icesjms/fss156

Hüssy K, Coad JO, Farrell ED, Clausen LW & Clarke MW. 2012. Age verification of boarfish (Capros aper) in the Northeast Atlantic. ICES Journal of Marine Science, 69: 34-40. doi: 10.1093/icesjms/fsr168

Kochmann J, Carlsson J, Crowe TP & Mariani S. 2012. Genetic evidence for the uncoupling of local aquaculture activities and a population of an invasive species – a case study of Pacific oysters (Crassostrea gigas). Journal of Heredity, 103: 661-671. doi: 10.1093/jhered/ess042

Lynch SA, Carlsson J, Reilly AO, Cotter E & Culloty SC. 2012. A previously undescribed ostreid herpes virus 1 (OsHV-1) genotype detected in the pacific oyster, Crassostrea gigas, in Ireland. Parasitology, 139: 1-7. doi:10.1017/S0031182012000881

Carlsson J, Shephard S, Coughlan J, Trueman CN, Rogan E & Cross TF. 2011. Fine-scale population structure in a deep-sea teleost (Orange roughy, Hoplostethus atlanticus). Deep-Sea Research Part I, 58: 627-636. doi:10.1016/j.dsr.2011.03.009

Redmond NE, Raleigh J, van Soest RWM, Kelly M, Travers SAA, Bradshaw B, Vartia S, Stephens KM & McCormack GP. 2011. Phylogenetic relationships of the marine Haplosclerida (Phylum Porifera) employing ribosomal (28s rRNA) and mitochondrial (cox1, nad1) gene sequence data. PLoS ONE, 6 (9), art. no. e24344. doi: 10.1371/journal.pone.0024344

Farrell ED, Mariani S & Clarke MW 2010. Reproductive biology of the starry smooth-hound shark (Mustelus asterias): geographic variation and implications for sustainable exploitation. Journal of Fish Biology, 77: 1505-1525. doi: 10.1111/j.1095-8649.2010.02771.x

Farrell ED, Mariani S & Clarke MW 2010. Age and growth estimates for the starry smoothhound, (Mustelus asterias) in the Northeast Atlantic Ocean. ICES Journal of Marine Science, 67: 931-939. doi: 10.1093/icesjms/fsp295

Farrell ED, Clarke MW & Mariani S. 2009. A simple genetic identification method for Northeast Atlantic smoothhound sharks (Mustelus spp.). ICES Journal of Marine Science, 66: 561-565. doi: 10.1093/icesjms/fsn218

Carlsson J, Carnegie RB, Cordes JF, Hare MP, Leggett AT & Reece KS. 2008. Evaluating recruitment contribution of a selectively bred Crassostrea virginica oyster aquaculture line used in restoration efforts. Journal of Shellfish Research, 27: 1117-1124. doi:10.2983/0730-8000-27.5.1117

Carlsson J & Reece KS. 2007. Eight PCR primers to amplify EST-linked microsatellites in the Eastern oyster, Crassostrea virginica genome. Molecular Ecology Notes, 7: 257-259. doi: 10.1111/j.1471-8286.2006.01573.x

Carlsson J, McDowell JR, Carlsson JEL & Graves JE. 2007. Genetic identity of YOY bluefin tuna from the eastern and western Atlantic spawning areas. Journal of Heredity, 98: 23–28. doi: 10.1093/jhered/esl046

Farrell ED & Crowe TP. 2007. The use of byssus threads by Mytilus edulis as an active defence against Nucella lapillus. Journal of the Marine Biological Association of the UK, 87: 559-564. doi:10.1017/S0025315407055622

McDowell JR, Carlsson JEL & Graves JE. 2007. Genetic analysis of blue marlin (Makaira nigricans) stock structure in the Atlantic Ocean. Gulf and Caribbean Research, 19: 75-82. link

Carlsson J, Morrison CL & Reece KS. 2006. Wild and aquaculture populations of the eastern oyster compared using microsatellites. Journal of Heredity, 97: 595-598. doi: 10.1093/jhered/esl034

Carlsson J, McDowell JR, Carlsson JEL, Ólafsdóttir D & Graves JE. 2006. Genetic heterogeneity of Atlantic bluefin tuna caught in the eastern North Atlantic Ocean south of Iceland. ICES Journal of Marine Science, 63: 1111-1117. doi: 10.1016/j.icesjms.2006.04.009

Carlsson J, McDowell JR, Díaz-Jaimes P, Carlsson JEL, Boles SB, Gold JR & Graves JE. 2004. Microsatellite and mitochondrial DNA analyses of Atlantic bluefin tuna (Thunnus thynnus thynnus) population structure in the Mediterranean Sea. Molecular Ecology, 13: 3345-3356. doi: 10.1111/j.1365-294X.2004.02336.x

Boschen RE, Collins PC, Tunnicliffe V, Carlsson J, Gardner JPA, Lowe J, McCrone A, Metaxas A, Sinniger F, Swaddling A. 2016. A primer for use of genetic tools in selecting and testing the suitability of set-aside sites protected from deep-sea seafloor massive sulfide mining activities. Ocean & Coastal Management. 122: 37-48. doi:10.1016/j.ocecoaman.2016.01.007

Collins PC, Carlsson J, Rowcroft P, Tibbles B. 2016. Ecosystem status of the deep Black Sea, soft sediment, benthic community. Marine Policy. 73: 216-223. doi:10.1016/j.marpol.2016.07.016

Collins PC, Croot P, Carlsson J, Colaço A, Grehan A, Hyeong K, Kennedy R, Mohn C, Smith S, Yamamoto H, Rowden A. 2013. A primer for the Environmental Impact Assessment of mining at seafloor massive sulfide deposits. Marine Policy, 42:198-209. doi:10.1016/j.marpol.2013.01.020

Collins PC, Kennedy R, Copley J, Boschen R, Forde J, Flemming N, Ju SJ, Lindsay D, Marsh L, Nye V, Patterson A, Watanabe H, Yamamoto H, Carlsson J, Thaler AD. 2013. Ventbase: Developing a consensus among stakeholders in the deep-sea regarding environmental impact assessment for deep-sea mining. Marine Policy, 42: 334-336. doi:10.1016/j.marpol.2013.03.002

Wheeler AJ, Murton B, Copley J, Lim A, Carlsson J, Collins P, Dorschel B, Green D, Judge M, Nye V, Benzie J, Antoniacomi A, Coughlan M, Morris K. 2013. Moytirra: discovery of the first known deep-sea hydrothermal vent field on the slow-spreading Mid-Atlantic Ridge north of the Azores. Geochemistry Geophysics Geosystems, 14: 4170-4184. doi: 10.1002/ggge.20243

Schultz TF, Hsing P-Y, Eng A, Zelnio KA, Thaler AD*, Carlsson J & Van Dover CL. 2011. Characterization of 18 polymorphic microsatellite loci from Bathymodiolus manusensis (Bivalvia, Mytilidae) from deep-sea hydrothermal vents. Conservation Genetics Resources, 3: 25-27. doi:10.1007/s12686-010-9272-8

Thaler AD*, Zelnio K, Saleu W, Schultz TF, Carlsson J, Cunningham C, Vrijenhoek R & Van Dover CL. 2011. The effects of spatial scale on the population dynamics of Ifremeria nautilei, a hydrothermal vent endemic gastropod from the southwest Pacific. BMC Evolutionary Biology, 11: 372. doi:10.1186/1471-2148-11-372

Thaler AD*, Zelnio K, Jones R, Carlsson J, Van Dover C & Schultz TF. 2010. Characterization of 12 polymorphic microsatellite loci in Ifremeria nautilei, a chemoautotrophic gastropod from deep-sea hydrothermal vents. Conservation Genetics Resources, 2: 101-103. doi:10.1007/s12686-010-9174-9

Zelnio KA, Thaler AD*, Jones Re, Saleu W, Schultz TH, Van Dover CL & Carlsson J. 2010. Characterization of nine polymorphic microsatellite loci in Chorocaris sp. (Crustacea, Caridea, Alvinocarididae) from deep-sea hydrothermal vents. Conservation Genetics Resources, 2: 222-226. doi:10.1007/s12686-010-9243-0

Ferreira DG, Souza-Shibatta L, Shibatta, OA, Sofia SH, Carlsson J, Dias JHP, Makrakis S, Makrakis MC. 2016. Genetic structure and diversity of migratory freshwater fish in a fragmented Neotropical river system. Review and Fish Biology and Fisheries. 2: 1-23. doi:10.1007/s11160-016-9441-2

Galindo BA, Ferreira DG, Almeida FS, Carlsson J & Sofia SH. 2015. Isolation and characterization of thirteen polymorphic microsatellite loci in Hypostomus ancistroides (Teleostei, Loricariidae) and cross-amplification in related species. Journal of Fish Biology, 86: 1860-1866. doi: 10.1111/jfb.12675.

Gustavson MS*, Collins PC, Finarelli JA, Egan D, Conchúir RÓ, Wightman GD, King JJ, Gauthier DT, Whelan K, Carlsson JEL & Carlsson J. 2015. An eDNA assay for Irish Petromyzon marinus and Salmo trutta and field validation in running water. Journal of Fish Biology, 87: 1254-1262. doi:10.1111/jfb.12781.

O'Malley KG, Cross TF, Ballie D, Carlsson J, Coughlan JP, Dillane E, Prodöhl PA, McGinnity P. 2014. Circadian clock gene (OtsClock1b) variation and time of ocean return in Atlantic salmon Salmo salar. Fisheries Management and Ecology, 1: 82-87. doi: 10.1111/fme.12058

O'Farrell B, Dennis C, Benzie J, McGinnity P, Carlsson J, de Eyto E, Coughlan J, Igoe F, Meehan R & Cross T. 2012. Balancing selection on MHC class I in wild brown trout (Salmo trutta). Journal of Fish Biology, 81: 1357-1374. doi: 10.1111/j.1095-8649.2012.03421.x

O'Farrell B, Benzie J, McGinnity P, Carlsson J, de Eyto E, Dillane E, Graham C, Coughlan J & Cross T. 2012. MHC-mediated spatial distribution in brown trout (Salmo trutta) fry. Heredity, 108: 403-409. doi:10.1038/hdy.2011.87

Carlsson J. 2007. The effect of family structure on the likelihood for kin-biased distribution: an empirical study of brown trout populations. Journal of Fish Biology, 71 (Supplement A): 98-110. doi: 10.1111/j.1095-8649.2007.01546.x

Jensen LF*, Hansen MM, Carlsson J, Loeschcke V & Mensberg K-LD. 2005. Spatial and temporal genetic differentiation and effective population size of brown trout (Salmo trutta, L.) in small Danish rivers. Conservation Genetics, 6: 615-621. doi: 10.1007/s10592-005-9014-8

Carlsson J, Aarestrup K, Nordwall F, Näslund I, Eriksson T & Carlsson JEL. 2004. Migration of landlocked brown trout in two Scandinavian streams as revealed from trap data. Ecology of Freshwater Fish, 13: 161-168. doi: 10.1111/j.1600-0633.2004.00058.x

Carlsson J, Carlsson JEL, Olsén KH, Hansen MM, Eriksson T & Nilsson J. 2004. Kin-biased distribution in brown trout: an effect of redd location or kin recognition? Heredity, 94: 53-61. Featured paper in Heredity. doi:10.1038/sj.hdy.6800376

Carlsson J & Carlsson JEL*. 2002. Micro-scale distribution of brown trout: an opportunity for kin-selection? Ecology of Freshwater Fish, 11: 234-239. doi: 10.1034/j.1600-0633.2002.00017.x

Carlsson J & Nilsson J. 2001. Effects of geomorphological structures on genetic differentiation among brown trout populations in a northern Boreal river drainage. Transactions of the American Fisheries Society, 130: 36-45. doi:10.1577/1548-8659(2001)130<0036:EOGSOG>2.0.CO;2

Carlsson J & Nilsson J. 2000. Population genetic structure of brown trout (Salmo trutta L.) within a northern boreal forest stream. Hereditas, 132: 173-181. doi: 10.1111/j.1601-5223.2000.00173.x

Carlsson J, Olsén HK, Nilsson J, Øverli Ø & Stabell OB. 1999. Microsatellites reveal fine-scale genetic structure in stream-living brown trout. Journal of Fish Biology, 55: 1290-1303. doi: 10.1111/j.1095-8649.1999.tb02076.x

Gargan LM, Cornette R, Yearsley JM, Montgomery WI, Paupério J, Alves PC, Butler F, Pascal M, Tresset A, Herrel A, Lusby J, Tosh DG, Searle JB, McDevitt AD. 2016. Molecular and morphological insights into the origin of the invasive greater white-toothed shrew (Crocidura russula) in Ireland. Biological Invasions. doi:10.?1007/?s10530-016-1056-y

Carlsson, J & Gauthier D. 2015. Comparative population genetics of two invading ticks: Evidence of the ecological mechanisms underlying tick range expansions. Infection, Genetics and Evolution, 35: 153-162. DOI:10.1016/j.meegid.2015.08.009

Finn J, Carlsson J, Kelly T & Davenport J. 2012. Avoidance of headwinds or exploitation of ground effect - why do birds fly low? Journal of Field Ornithology, 89: 192-202. doi: 10.1111/j.1557-9263.2012.00369.x

O'Meara DB, Edwards CJ, Sleeman DP, Cross TF, Statham MJ, McDowell JR, Dillane E, Coughlan JP, O'Leary D, O'Reilly C, Bradley DG & Carlsson J. 2012. Genetic relationships between Eurasian badgers Meles meles (Carnivora: Mustelidae) in Europe and implications for the colonisation history of Ireland. Biological Journal of the Linnean Society, 106: 893-909. doi: 10.1111/j.1095-8312.2012.01927.x

Farrell ED, McCully Philips S & Ellis JR. 2015. 7 - Hound sharks (Triakidae). (In: Fish Atlas of the Celtic Sea, North Sea and Baltic Sea. Heessen HJL, Daan N & Ellis JR eds). KNNV Publishing, Netherlands, 550pp. ISBN: 9789050115377

Farrell ED, Clarke MW & O'Donnell C. 2015. 71 - Boarfishes (Caproidae). (In: Fish Atlas of the Celtic Sea, North Sea and Baltic Sea. Heessen HJL, Daan N & Ellis JR eds). KNNV Publishing, Netherlands, 550pp. ISBN: 9789050115377

Sleeman DP, Carlsson J & Carlsson, JEL. 2014. Mind the Gap II: new insights into the Irish postglacial. Irish Naturalists' Journal, Belfast. ISBN 978-0-9569704-8-0.

Carlsson J, Cross TF, McGinnity P, Prodöhl P, McDevitt A. 2014. The use of genetics to infer the origins of the terrestrial and freshwater elements of the Irish fauna. (In: Mind the Gap II: new insights into the Irish postglacial Sleeman DP, Carlsson J & Carlsson, JEL eds). Irish Naturalists' Journal, Belfast. ISBN 978-0-9569704-8-0.

Sleeman DP and Carlsson J. 2014. Introduction. (In: Mind the Gap II: new insights into the Irish postglacial. Sleeman DP, Carlsson J & Carlsson, JEL eds). Irish Naturalists' Journal, Belfast. ISBN 978-0-9569704-8-0.

Carlsson J & Nilsson J. 1999. Genetisk variation hos öringpopulationer – vem är släkt med vem? (In: Fiske, skogsbruk och vattendrag – nyttjande i ett uthålligt perspektiv, Ammeråprojektet, ed. I. Näslund). Fiskeriverkets försökstation, 840 64 Kälarne.

Nordwall F & Carlsson J. 1999. Fiskar kan vandra, men varför och vart vandrar de? (In: Fiske, skogsbruk och vattendrag – nyttjande i ett uthålligt perspektiv, Ammeråprojektet, ed. I Näslund). Fiskeriverkets försökstation, 840 64 Kälarne.

Martinsohn J, Jardim E, Rodriguez-Ezpeleta N, Carlsson J, Prodöhl P, Coscia I. 2016. WGAGFM 2016 ToR d: Close-kin mark recapture approaches to estimate abundance and population parameters of deep-sea marine fish species in support of enhanced management under the Common Fisheries Policy. In: ICES WGAGFM Report (2016) Report of the Working Group on the Application of Genetics in Fisheries and Mariculture (WGAGFM) Belfast, Northern Ireland.

Lordan, C., Doyle, J., Fitzgerald, R., O’Connor, S., Blaszkowski, M., Stokes, D., Ni Chonchuir, G., Gallagher, J., Butler, R., Sheridan, M. and Simpson, S. 2015. FU19 Nephrops grounds 2015 UWTV Survey report and catch options for 2016. Marine Institute UWTV Survey report. Link.

Doyle, J., Lordan, C., Fitzgerald, R., O’Connor, S., Fee, D., Butler, R., Stokes, D., Ni Chonchuir, G.,Gallagher, J., Sheridan, M. and Simpson, S. 2015. Aran, Galway Bay and Slyne Head Nephrops Grounds (FU17) 2015 UWTV Survey Report and catch options for 2016. Marine Institute UWTV Survey report. Link.

Nieto A,....... Farrell ED, et al. 2015. European Red List of Marine Fishes. Luxembourg: Publications Office of the European Union. doi: 10.2779/082723

Cross T, Albaina A, Bradbury I, Carlsson J, Carvalho G, Dahle G, Gilbey J, Heylar S, McGinnity P, Prodöhl P, Robben J, Sánchez JA, Tysklind N, Zelenina D. 2012. WGAGFM 2012 TOR b: Review on the use of adaptive SNPs and other adaptive markers for genetic identification of populations (breeding stocks). In: ICES WGAGFM Report (2012) Report of the Working Group on the Application of Genetics in Fisheries and Mariculture (WGAGFM.) Bangor, Wales.

O'Donnell C, Farrell ED, Saunders S & Campbell A. 2012. The abundance of boarfish (Capros aper) along the western shelf estimated using hydro-acoustics. Irish Fisheries Investigations 23, Marine Institute, 38pp. ISSN: 1649-0037

Wheeler AJ, Benzie JAH, Carlsson J, Collins P, Copley J, Green D, Murton BJ, Dorschel B, Antoniacomi A, Coughlan M, Judge M, Lim A, Morris K, Nye V. 2011. Moytirra: a newly discovered hydrothermal vent field on the mid-Atlantic Ridge between the Azores and Iceland. InterRidge News 20: 37-39.

Helyar S, Carlsson J & Martinsohn J. 2010. Review the genetic effects of exploitation on deep-sea fishes. In: ICES WGAGFM Report (2010) Report of the Working Group on the Application of Genetics in Fisheries and Mariculture (WGAGFM), Cork, Ireland.

Carvalho G, Helyar S, Bekkevold D, Volkert F, Hanel R, McPhee D, Ford M, Carlsson J, Trautner J, Ogden R & Martinsohn J. 2009. Review the current status of traceability methods in the fisheries sector based on genetics. In: ICES WGAGFM Report (2009) Report of the Working Group on the Application of Genetics in Fisheries and Mariculture (WGAGFM), Sopot, Poland.

Cross TF, McGinnity P, Carlsson J, Coughlan J, Dillane E, deEyto E, Ferguson A, FitzGerald R & Prodöhl P. 2009. Possible genetic interactions between reared strains and wild populations of cod (Gadus morhua): lessons from salmon (Salmo salar) common garden field experiments. ICES CM 2009/Q:10, ASC Berlin, September 2009.