Table 1.

SWOT analysis of parentage assignment with genomic markers for aquaculture breeding.

Strengths	Weaknesses
–Absence of common environment effects –Allows any type of mating design –No investment in structures and limited fish rearing costs (labor, consumables) –Allows family evaluation in industry conditions –Microsatellites available in most species –High flexibility	–Each new trait measured on sibs may require additional genotyping to balance with the benefit expected –Biased BLUP estimates if pre-selection done –Unit cost of genotyping sometimes dissuasive –Ability to produce high numbers of families simultaneously needed for full benefits
Opportunities	Threats
–Ease to develop SNP or microsatellites at low cost in any species with next-generation sequencing technologies –Future use of (within family) genomic selection will decrease the cost of pedigree information and provide within-family relatedness estimates improving accuracy –Many research laboratories with appropriate knowledge in genotyping to initiate programs	–Lack of maintenance of microsatellite genotyping equipment with the advent of SNPs –Limited number of professional genotyping companies high volume, service and automation capacities –Lack of efficiency when maker set assignment power overestimated or genotyping errors too numerous