@article{liu_rexroad_couch_cordes_reece_sullivan_2012, title={A Microsatellite Linkage Map of Striped Bass (Morone saxatilis) Reveals Conserved Synteny with the Three-Spined Stickleback (Gasterosteus aculeatus)}, volume={14}, ISSN={["1436-2236"]}, DOI={10.1007/s10126-011-9407-2}, abstractNote={The striped bass (Morone saxatilis) and its relatives (genus Morone) are of great importance to fisheries and aquaculture in North America. As part of a collaborative effort to employ molecular genetics technologies in striped bass breeding programs, we previously developed nearly 500 microsatellite markers. The objectives of this study were to construct a microsatellite linkage map of striped bass and to examine conserved synteny between striped bass and three-spined stickleback (Gasterosteus aculeatus). Of 480 microsatellite markers screened for polymorphism, 289 informative markers were identified and used to genotype two half-sib mapping families. Twenty-six linkage groups were assembled, and only two markers remain unlinked. The sex-averaged map spans 1,623.8 cM with an average marker density of 5.78 cM per marker. Among 287 striped bass microsatellite markers assigned to linkage groups, 169 (58.9%) showed homology to sequences on stickleback chromosomes or scaffolds. Comparison between the stickleback genome and the striped bass linkage map revealed conserved synteny between these two species. This is the first linkage map for any of the Morone species. This map will be useful for molecular mapping and marker-assisted selection of genes of interest in striped bass breeding programs. The conserved synteny between striped bass and stickleback will facilitate fine mapping of genome regions of interest and will serve as a new resource for comparative mapping with other Perciform fishes such as European sea bass (Dicentrarchus labrax), gilthead sea bream (Sparus aurata), and tilapia (Oreochromis ssp.).}, number={2}, journal={MARINE BIOTECHNOLOGY}, author={Liu, Sixin and Rexroad, Caird E., III and Couch, Charlene R. and Cordes, Jan F. and Reece, Kimberly S. and Sullivan, Craig V.}, year={2012}, month={Apr}, pages={237–244} }
 @article{skalski_couch_garber_weir_sullivan_2006, title={Evaluation of DNA pooling for the estimation of microsatellite allele frequencies: A case study using striped bass (Morone saxatilis)}, volume={173}, ISSN={["1943-2631"]}, DOI={10.1534/genetics.105.053702}, abstractNote={Abstract
               Using striped bass (Morone saxatilis) and six multiplexed microsatellite markers, we evaluated procedures for estimating allele frequencies by pooling DNA from multiple individuals, a method suggested as cost-effective relative to individual genotyping. Using moment-based estimators, we estimated allele frequencies in experimental DNA pools and found that the three primary laboratory steps, DNA quantitation and pooling, PCR amplification, and electrophoresis, accounted for 23, 48, and 29%, respectively, of the technical variance of estimates in pools containing DNA from 2–24 individuals. Exact allele-frequency estimates could be made for pools of sizes 2–8, depending on the locus, by using an integer-valued estimator. Larger pools of size 12 and 24 tended to yield biased estimates; however, replicates of these estimates detected allele frequency differences among pools with different allelic compositions. We also derive an unbiased estimator of Hardy–Weinberg disequilibrium coefficients that uses multiple DNA pools and analyze the cost-efficiency of DNA pooling. DNA pooling yields the most potential cost savings when a large number of loci are employed using a large number of individuals, a situation becoming increasingly common as microsatellite loci are developed in increasing numbers of taxa.}, number={2}, journal={GENETICS}, author={Skalski, Garrick T. and Couch, Charlene R. and Garber, Amber F. and Weir, Bruce S. and Sullivan, Craig V.}, year={2006}, month={Jun}, pages={863–875} }
 @article{rexroad_vallejo_coulibaly_couch_garber_westerman_sullivan_2006, title={Identification and characterization of microsatellites for striped bass from repeat-enriched libraries}, volume={7}, ISSN={["1572-9737"]}, DOI={10.1007/s10592-006-9122-0}, number={6}, journal={CONSERVATION GENETICS}, author={Rexroad, Caird and Vallejo, Roger and Coulibaly, Issa and Couch, Charlene and Garber, Amber and Westerman, Mark and Sullivan, Craig}, year={2006}, month={Dec}, pages={971–982} }
 @article{couch_garber_rexroad_abrams_stannard_westerman_sullivan_2006, title={Isolation and characterization of 149 novel microsatellite DNA markers for striped bass, Morone saxatilis, and cross-species amplification in white bass, Morone chrysops, and their hybrid}, volume={6}, ISSN={["1471-8278"]}, DOI={10.1111/j.1471-8286.2006.01292.x}, abstractNote={AbstractTo support detailed genetic analysis of striped bass (Morone saxatilis) and white bass (Morone chrysops), we isolated 153 microsatellite loci from repeat‐enriched striped bass DNA libraries. Of these, 147 markers amplified in striped bass (average 4.7 alleles per locus) and 133 in white bass (average 2.2 alleles per locus). One hundred twenty‐two markers amplified in their hybrid. Development of new microsatellite markers will facilitate evaluations of genetic structure in wild populations and will support pedigree analysis and linkage mapping for selective breeding.}, number={3}, journal={MOLECULAR ECOLOGY NOTES}, author={Couch, C. R. and Garber, A. . F. and Rexroad, C. E., III and Abrams, J. . M. and Stannard, J. . A. and Westerman, M. E. and Sullivan, C. V.}, year={2006}, month={Sep}, pages={667–669} }