title: Methodological assessment of 2b-RAD genotyping technique for population structure inferences in yellowfin tuna (Thunnus albacares).
abstract: Global population genetic structure of yellowfin tuna (Thunnus albacares) is still poorly understood despite its relevance for the tuna fishery industry. Low levels of genetic differentiation among oceans speak in favour of the existence of a single panmictic population worldwide of this highly migratory fish. However, recent studies indicated genetic structuring at a much smaller geographic scales than previously considered, pointing out that YFT population genetic structure has not been properly assessed so far. In this study, we demonstrated for the first time, the utility of 2b-RAD genotyping technique for investigating population genetic diversity and differentiation in high gene-flow species. Running de novo pipeline in Stacks, a total of 6772 high-quality genome-wide SNPs were identified across Atlantic, Indian and Pacific population samples representing all major distribution areas. Preliminary analyses showed shallow but significant population structure among oceans (FST=0.0273; P-value<0.01). Discriminant Analysis of Principal Components endorsed the presence of genetically discrete yellowfin tuna populations among three oceanic pools. Although such evidence needs to be corroborated by increasing sample size, these results showed the efficiency of this genotyping technique in assessing genetic divergence in a marine fish with high dispersal potential.
authors.affiliation: Dept. Biological, Geological and Environmental Sciences (BIGEA), University of Bologna, Via Selmi 3, 40126 Bologna, Italy; Institut de Recherche pour le Développement (IRD), UMR MARBEC (IRD/Ifremer/UM2/CNRS) SFA, Fishing Port, BP570 Victoria, Seychelles. Electronic address: carlo.pecoraro2@unibo.it.
authors.forename: Carlo
authors.initials: C
authors.lastname: Pecoraro
authors.affiliation: Comparative Biomedicine and Food Science, University of Padova, viale dell'Università 16, 35020 Legnaro, PD, Italy. Electronic address: massimiliano.babbucci@unipd.it.
authors.forename: Massimiliano
authors.initials: M
authors.lastname: Babbucci
authors.affiliation: Dept. Biological, Geological and Environmental Sciences (BIGEA), University of Bologna, Via Selmi 3, 40126 Bologna, Italy. Electronic address: adriana.villamor@unibo.it.
authors.forename: Adriana
authors.initials: A
authors.lastname: Villamor
authors.affiliation: Comparative Biomedicine and Food Science, University of Padova, viale dell'Università 16, 35020 Legnaro, PD, Italy. Electronic address: rafaella.franch@unipd.it.
authors.forename: Rafaella
authors.initials: R
authors.lastname: Franch
authors.affiliation: Section of Integrative Ecophysiology, Alfred-Wegener-Institute for Polar and Marine Research, Am Handelshafen 12, Bremerhaven 27570, Germany. Electronic address: chiara.papetti@awi.de.
authors.forename: Chiara
authors.initials: C
authors.lastname: Papetti
authors.affiliation: Secretariat of the Pacific Community, Oceanic Fishery Programme, BP D5, 98848 Noumea, New Caledonia. Electronic address: brunol@spc.int.
authors.forename: Bruno
authors.initials: B
authors.lastname: Leroy
authors.affiliation: Departamento de Pesquerias, Instituto Politécnico Nacional-CICIMAR, Avenida IPN s/n, La Paz, BCS, Mexico. Electronic address: sortega@ipn.mx.
authors.forename: Sofia
authors.initials: S
authors.lastname: Ortega-Garcia
authors.affiliation: Pelagic Fisheries Research Program, University of Hawaii, Marine Science Building 312, Honolulu, HI 96822, USA. Electronic address: jmuir@hawaii.edu.
authors.forename: Jeff
authors.initials: J
authors.lastname: Muir
authors.affiliation: Department of Marine Biology, Texas A&M University, 1001 Texas Clipper Road, Galveston, TX 77553, USA. Electronic address: rookerj@tamug.edu.
authors.forename: Jay
authors.initials: J
authors.lastname: Rooker
authors.affiliation: Instituto Oceanográfico de Venezuela, Universidad de Oriente, Avda. Universidad Cerro Colorado, Cumana 6101, Venezuela. Electronic address: farocha@udo.edu.ve.
authors.forename: Freddy
authors.initials: F
authors.lastname: Arocha
authors.affiliation: Marine Research Division, AZTI, Herrera Kaia-Portualdea z/g, Pasaia, 20110, Gipuzkoa, Spain. Electronic address: hmurua@azti.es.
authors.forename: Hilario
authors.initials: H
authors.lastname: Murua
authors.affiliation: Ikerbasque Fundazioa, Maria Diaz de Haro, 3-6°, Bilbao, 48013, Bizkaia, Spain; Institut de Recherche pour le Développement (IRD), UMR MARBEC (IRD/Ifremer/UM2/CNRS) SFA, Fishing Port, BP570 Victoria, Seychelles.
authors.forename: Iker
authors.initials: I
authors.lastname: Zudaire
authors.affiliation: Institut de Recherche pour le Développement (IRD), UMR MARBEC (IRD/Ifremer/UM2/CNRS) SFA, Fishing Port, BP570 Victoria, Seychelles. Electronic address: emmanuel.chassot@ird.fr.
authors.forename: Emmanuel
authors.initials: E
authors.lastname: Chassot
authors.affiliation: Institut de Recherche pour le Développement (IRD), UMR MARBEC (IRD/Ifremer/UM2/CNRS) SFA, Fishing Port, BP570 Victoria, Seychelles. Electronic address: nathalie.bodin@ird.fr.
authors.forename: Nathalie
authors.initials: N
authors.lastname: Bodin
authors.affiliation: Dept. Biological, Geological and Environmental Sciences (BIGEA), University of Bologna, Via Selmi 3, 40126 Bologna, Italy. Electronic address: fausto.tinti@unibo.it.
authors.forename: Fausto
authors.initials: F
authors.lastname: Tinti
authors.affiliation: Comparative Biomedicine and Food Science, University of Padova, viale dell'Università 16, 35020 Legnaro, PD, Italy. Electronic address: luca.bargelloni@unipd.it.
authors.forename: Luca
authors.initials: L
authors.lastname: Bargelloni
authors.affiliation: Dept. Biological, Geological and Environmental Sciences (BIGEA), University of Bologna, Via Selmi 3, 40126 Bologna, Italy. Electronic address: alessia.cariani@unibo.it.
authors.forename: Alessia
authors.initials: A
authors.lastname: Cariani
mesh_terms: D063147:Animal Distribution; D000818:Animals; D001483:Base Sequence; D004247:DNA / Q000235:genetics; D005838:Genotype; D060005:Genotyping Techniques / Q000662:veterinary*; D009792:Oceans and Seas; D012984:Software; D013045:Species Specificity; D014413:Tuna / Q000235:genetics* / Q000502:physiology
chemical_list: D004247:DNA
keywords: Marine fish; Population genomics; RAD sequencing; SNP; Tropical tuna; Tuna fishery