@inproceedings{kline_mamoozadeh_goldsworthy_peterson_miller_meek_2025, title={Genomic analyses reveal contemporary patterns of genetic diversity: Implications for source-sink dynamics of coaster brook trout in Lake Superior}, booktitle={Great Lakes Fishery Commission Lake Superior Technical Committee Meeting}, author={Kline, B. and Mamoozadeh, N. and Goldsworthy, C. and Peterson, N. and Miller, L. and Meek, M.}, year={2025} }
 @inproceedings{meek_mahapatra_mamoozadeh_o'leary_portnoy_2024, title={Advancing fisheries sustainability by combining the power of genomics and artificial intelligence}, booktitle={World Fisheries Congress}, author={Meek, M. and Mahapatra, N. and Mamoozadeh, N. and O'Leary, S. and Portnoy, D.}, year={2024} }
 @inproceedings{mamoozadeh_barker_cronin_frazier_mahapatra_o'leary_meek_2024, title={Development of iCatch species identification technology for threatened shark and ray species}, booktitle={World Fisheries Congress}, author={Mamoozadeh, N. and Barker, A. and Cronin, M. and Frazier, B. and Mahapatra, N. and O'Leary, S. and Meek, M.}, year={2024} }
 @inproceedings{kline_mamoozadeh_goldsworthy_peterson_miller_meek_2024, title={Genomic variation of brook trout along the Minnesota shoreline of Lake Superior}, booktitle={Great Lakes Fishery Commission Lake Superior Technical Committee Meeting}, author={Kline, B. and Mamoozadeh, N. and Goldsworthy, C. and Peterson, N. and Miller, L. and Meek, M.}, year={2024} }
 @inproceedings{meek_mamoozadeh_2024, title={iCatch: Harnessing the power of AI and genomics to amplify detection of illegal harvest and trade}, booktitle={European Union Wildlife Forensic Conference}, author={Meek, M. and Mamoozadeh, N.}, year={2024} }
 @inproceedings{meek_mahapatra_mamoozadeh_o'leary_portnoy_2024, title={iCatch: solving species identification challenges by combining genomics and AI}, booktitle={American Fisheries Society National Meeting}, author={Meek, M. and Mahapatra, N. and Mamoozadeh, N. and O'Leary, S. and Portnoy, D.}, year={2024} }
 @article{mamoozadeh_whiteley_letcher_kazyak_tarsa_meek_2023, title={A new genomic resource to enable standardized surveys of <scp>SNPs</scp> across the native range of brook trout (<i>Salvelinus fontinalis</i>)}, volume={8}, ISSN={1755-098X 1755-0998}, url={http://dx.doi.org/10.1111/1755-0998.13853}, DOI={10.1111/1755-0998.13853}, abstractNote={Abstract Understanding how genetic diversity is distributed across spatiotemporal scales in species of conservation or management concern is critical for identifying large‐scale mechanisms affecting local conservation status and implementing large‐scale biodiversity monitoring programmes. However, cross‐scale surveys of genetic diversity are often impractical within single studies, and combining datasets to increase spatiotemporal coverage is frequently impeded by using different sets of molecular markers. Recently developed molecular tools make surveys based on standardized single‐nucleotide polymorphism (SNP) panels more feasible than ever, but require existing genomic information. Here, we conduct the first survey of genome‐wide SNPs across the native range of brook trout ( Salvelinus fontinalis ), a cold‐adapted species that has been the focus of considerable conservation and management effort across eastern North America. Our dataset can be leveraged to easily design SNP panels that allow datasets to be combined for large‐scale analyses. We performed restriction site‐associated DNA sequencing for wild brook trout from 82 locations spanning much of the native range and domestic brook trout from 24 hatchery strains used in stocking efforts. We identified over 24,000 SNPs distributed throughout the brook trout genome. We explored the ability of these SNPs to resolve relationships across spatial scales, including population structure and hatchery admixture. Our dataset captures a wide spectrum of genetic diversity in native brook trout, offering a valuable resource for developing SNP panels. We highlight potential applications of this resource with the goal of increasing the integration of genomic information into decision‐making for brook trout and other species of conservation or management concern.}, journal={Molecular Ecology Resources}, publisher={Wiley}, author={Mamoozadeh, Nadya R. and Whiteley, Andrew R. and Letcher, Benjamin H. and Kazyak, David C. and Tarsa, Charlene and Meek, Mariah H.}, year={2023}, month={Aug} }
 @inproceedings{meek_mamoozadeh_kline_2023, title={Assessing genomic status and potential threats to lake trout and brook trout recovery in Lake Superior}, booktitle={Great Lakes Fishery Commission Lake Superior Technical Committee Meeting}, author={Meek, M. and Mamoozadeh, N. and Kline, B.}, year={2023} }
 @inproceedings{kazyak_white_mamoozadeh_meek_2023, title={Conservation genetics and wild trout: Evolving opportunities to support management. Wild Trout XIII – Reducing the Gap Between Science and Public Opinion}, booktitle={Wild Trout Symposium}, author={Kazyak, D. and White, S. and Mamoozadeh, N. and Meek, M.}, year={2023}, month={Sep} }
 @inproceedings{mamoozadeh_goldsworthy_peterson_miller_meek_2023, title={Genetic relationships of brook trout along the Minnesota North Shore}, booktitle={Great Lakes Fishery Commission Lake Superior Technical Committee Meeting}, author={Mamoozadeh, N. and Goldsworthy, C. and Peterson, N. and Miller, L. and Meek, M.}, year={2023} }
 @article{mamoozadeh_graves_bealey_schratwieser_holdsworth_ortega-garcia_mcdowell_2023, title={Genomic data resolve long-standing uncertainty by distinguishing white marlin (<i>Kajikia albida</i>) and striped marlin (<i>K. audax</i>) as separate species}, volume={80}, ISSN={1054-3139 1095-9289}, url={http://dx.doi.org/10.1093/icesjms/fsad114}, DOI={10.1093/icesjms/fsad114}, abstractNote={Abstract Large pelagic fishes are often broadly distributed and capable of long-distance movements. These factors can promote gene flow that makes it difficult to disentangle intra- vs. inter-specific levels of genetic differentiation. Here, we assess the relationship of two istiophorid billfishes, white marlin (Kajikia albida) and striped marlin (K. audax), presently considered sister species inhabiting separate ocean basins. Previous studies report levels of genetic differentiation between these species that are smaller than those observed among populations of other istiophorid species. To determine whether white marlin and striped marlin comprise separate species or populations of a single globally distributed species, we surveyed 2520 single nucleotide polymorphisms (SNPs) in 62 white marlin and 242 striped marlin across the Atlantic, Pacific, and Indian oceans. Multivariate analyses resolved white marlin and striped marlin as distinct groups, and a species tree composed of separate lineages was strongly supported over a single lineage tree. Genetic differentiation between white marlin and striped marlin (FST = 0.5384) was also substantially larger than between populations of striped marlin (FST = 0.0192–0.0840), and we identified SNPs that allow unambiguous species identification. Our findings indicate that white marlin and striped marlin comprise separate species, which we estimate diverged at approximately 2.38 Mya.}, number={6}, journal={ICES Journal of Marine Science}, publisher={Oxford University Press (OUP)}, author={Mamoozadeh, N R and Graves, J E and Bealey, R and Schratwieser, J and Holdsworth, J C and Ortega-Garcia, S and McDowell, J R}, editor={Grant, W StewartEditor}, year={2023}, month={Jul}, pages={1802–1813} }
 @inproceedings{meek_mamoozadeh_2023, title={New genomic resources and information for brook trout across the Lake Superior basin}, booktitle={Great Lakes Fishery Commission Upper Lakes Committee Meetings}, author={Meek, M. and Mamoozadeh, N.}, year={2023} }
 @article{mamoozadeh_goldsworthy_miller_peterson_meek_2023, title={Sources of coaster brook trout (Salvelinus fontinalis) revealed by genomic analysis of brook trout populations along Minnesota’s shoreline with Lake Superior}, volume={49}, ISSN={0380-1330}, url={http://dx.doi.org/10.1016/j.jglr.2023.06.005}, DOI={10.1016/j.jglr.2023.06.005}, abstractNote={Knowledge of population-level relationships and how these relationships pertain to different life history forms is critical to developing effective management plans for native trout, char, and salmon. In the Lake Superior basin, identifying effective restoration strategies for coaster brook trout (Salvelinus fontinalis), a lake-inhabiting form of brook trout, is hampered by limited information on genetic connectivity and source-sink dynamics among brook trout populations. Here, we infer these relationships by surveying 8,178 single nucleotide polymorphisms in 234 brook trout from seven rivers along the Minnesota shoreline with Lake Superior, including from reaches above and below natural waterfalls that prevent upstream movement. We identified well-differentiated above-barrier populations that supply brook trout to below-barrier reaches. We also compared within-river brook trout to 26 coaster brook trout from Lake Superior. We identified at least four source populations for these coaster brook trout, three of which were located within rivers. Additionally, we estimated NE for within-river populations and detected a decline across recent generations, with the most recent estimates approaching critical thresholds. Finally, comparisons with 94 domestic brook trout representing nine hatchery strains revealed a lack of domestic introgression into wild populations, demonstrating the importance of natural reproduction to population persistence. Our results offer novel insights into sources of coaster brook trout and highlight the role of within-river populations in supporting the coaster life history. Management efforts focused on instream restoration may be more important to rehabilitating coaster brook trout than previously thought and are urgently needed given the population-level conservation status reported here.}, number={4}, journal={Journal of Great Lakes Research}, publisher={Elsevier BV}, author={Mamoozadeh, N. and Goldsworthy, C. and Miller, L. and Peterson, N. and Meek, M.}, year={2023}, month={Aug}, pages={901–917} }
 @inproceedings{mamoozadeh_mahapatra_o'leary_meek_2023, title={iCatch: Integrating genomics and AI to make species identification possible from point-of-capture to marketplace}, booktitle={Seafood and Fisheries Emerging Technologies Conference}, author={Mamoozadeh, N. and Mahapatra, N. and O'Leary, S. and Meek, M.}, year={2023} }
 @book{meek_mamoozadeh_2022, title={Population genetic analysis of Lake Superior basin brook trout}, institution={United States Fish & Wildlife Service. US Fish & Wildlife Service}, author={Meek, M. and Mamoozadeh, N.}, year={2022} }
 @article{ålund_emery_jarrett_macleod_mccreery_mamoozadeh_phillips_schossau_thompson_warwick_et al._2020, title={Academic ecosystems must evolve to support a sustainable postdoc workforce}, volume={4}, ISSN={2397-334X}, url={http://dx.doi.org/10.1038/s41559-020-1178-6}, DOI={10.1038/s41559-020-1178-6}, number={6}, journal={Nature Ecology & Evolution}, publisher={Springer Science and Business Media LLC}, author={Ålund, Murielle and Emery, Nathan and Jarrett, Benjamin J. M. and MacLeod, Kirsty J. and McCreery, Helen F. and Mamoozadeh, Nadya and Phillips, John G. and Schossau, Jory and Thompson, Andrew W. and Warwick, Alexa R. and et al.}, year={2020}, month={Apr}, pages={777–781} }
 @article{nathan_mamoozadeh_tumas_gunselman_klass_metcalfe_edge_waits_spruell_lowery_et al._2019, title={A spatially-explicit, individual-based demogenetic simulation framework for evaluating hybridization dynamics}, volume={401}, ISSN={0304-3800}, url={http://dx.doi.org/10.1016/j.ecolmodel.2019.03.002}, DOI={10.1016/j.ecolmodel.2019.03.002}, journal={Ecological Modelling}, publisher={Elsevier BV}, author={Nathan, Lucas R. and Mamoozadeh, Nadya and Tumas, Hayley R. and Gunselman, Samuel and Klass, Keren and Metcalfe, Anya and Edge, Chris and Waits, Lisette P. and Spruell, Paul and Lowery, Erin and et al.}, year={2019}, month={Jun}, pages={40–51} }
 @article{mamoozadeh_graves_mcdowell_2019, title={Genome‐wide SNPs resolve spatiotemporal patterns of connectivity within striped marlin (<i>Kajikia audax</i>), a broadly distributed and highly migratory pelagic species}, volume={13}, ISSN={1752-4571 1752-4571}, url={http://dx.doi.org/10.1111/eva.12892}, DOI={10.1111/eva.12892}, abstractNote={Genomic methodologies offer unprecedented opportunities for statistically robust studies of species broadly distributed in environments conducive to high gene flow, providing valuable information for wildlife conservation and management. Here, we sequence restriction site-associated DNA to characterize genome-wide single nucleotide polymorphisms (SNPs) in a broadly distributed and highly migratory large pelagic fish, striped marlin (Kajikia audax). Assessment of over 4,000 SNPs resolved spatiotemporal patterns of genetic connectivity throughout the species range in the Pacific and, for the first time, Indian oceans. Individual-based cluster analyses identified six genetically distinct populations corresponding with the western Indian, eastern Indian, western South Pacific, and eastern central Pacific oceans, as well as two populations in the North Pacific Ocean (FST = 0.0137-0.0819). FST outlier analyses identified a subset of SNPs (n = 59) putatively under the influence of natural selection and capable of resolving populations separated by comparatively high degrees of genetic differentiation. Temporal collections available for some regions demonstrated the stability of allele frequencies over three to five generations of striped marlin. Relative migration rates reflected lower levels of genetic connectivity between Indian Ocean populations (mR ≤ 0.37) compared with most populations in the Pacific Ocean (mR ≥ 0.57) and highlight the importance of the western South Pacific in facilitating gene flow between ocean basins. Collectively, our results provide novel insights into rangewide population structure for striped marlin and highlight substantial inconsistencies between genetically distinct populations and stocks currently recognized for fisheries management. More broadly, we demonstrate that species capable of long-distance dispersal in environments lacking obvious physical barriers to movement can display substantial population subdivision that persists over multiple generations and that may be facilitated by both neutral and adaptive processes. Importantly, surveys of genome-wide markers enable inference of population-level relationships using sample sizes practical for large pelagic fishes of conservation concern.}, number={4}, journal={Evolutionary Applications}, publisher={Wiley}, author={Mamoozadeh, Nadya R. and Graves, John E. and McDowell, Jan R.}, year={2019}, month={Nov}, pages={677–698} }
 @article{mcdowell_mamoozadeh_brightman_graves_2018, title={Use of rapidly evolving molecular markers to distinguish species and clarify range uncertainties in the spearfishes (Istiophoridae, <i> Tetrapturus</i>)}, volume={94}, ISSN={0007-4977}, url={http://dx.doi.org/10.5343/bms.2017.1130}, DOI={10.5343/bms.2017.1130}, abstractNote={Despite broad spatial distributions in the Atlantic, Pacific, and Indian oceans, relatively little is known about spearfishes (family Istiophoridae, genus Tetrapturus) due to their pelagic nature and relative scarcity. The limited biological understanding of spearfishes includes uncertain taxonomic relationships complicated by conserved morphology, thus specific identification relies heavily on geographic location of capture. Previous phylogenetic studies incorporating a limited number of loci and few representatives of each species have been unable to consistently resolve the four currently recognized species comprising Tetrapturus. In the present study, we surveyed 14 nuclear microsatellite loci and the mitochondrial DNA control region across relatively large numbers of samples per species to genetically discriminate spearfish species. Molecular data resolved roundscale spearfish (n = 89) (Tetrapturus georgii Lowe, 1841) and Mediterranean spearfish (n = 12) (Tetrapturus belone Rafinesque, 1810) as genetically distinct groups. Longbill spearfish (n = 79) (Tetrapturus pfluegeri Robins and de Sylva, 1963) and shortbill spearfish (n = 29) (Tetrapturus angustirostris Tanaka, 1915) were not consistently resolved. A single individual collected in the western central Atlantic Ocean off Brazil assigned to shortbill spearfish and likely represents a vagrant. Additionally, a spearfish sampled from the Indian Ocean off eastern South Africa was morphologically identified as a longbill spearfish, and the molecular profile of this specimen was consistent with the morphological identification. Our study represents the most extensive molecular evaluation of the spearfishes to date. Results reported here underscore the substantial level of genetic similarity between longbill and shortbill spearfishes, and suggest high-resolution genomic methods may be required to unambiguously resolve these species.}, number={4}, journal={Bulletin of Marine Science}, publisher={Bulletin of Marine Science}, author={McDowell, Jan R and Mamoozadeh, Nadya R and Brightman, Heidi L and Graves, John E}, year={2018}, month={Oct}, pages={1355–1378} }
 @article{mamoozadeh_mcdowell_rooker_graves_2017, title={Genetic evaluation of population structure in white marlin (Kajikia albida): the importance of statistical power}, volume={75}, ISSN={1054-3139 1095-9289}, url={http://dx.doi.org/10.1093/icesjms/fsx047}, DOI={10.1093/icesjms/fsx047}, abstractNote={Abstract The genetic basis of population structure in white marlin (Kajikia albida) is not well understood. Previous evaluation of genetic population structure in this species utilized a small number of molecular markers to survey genetic variation across opportunistically collected samples of adults, resulting in statistically significant levels of genetic differentiation for some pairwise comparisons and global levels of genetic differentiation that approached statistical significance. This study increased statistical power to improve resolution of genetic population structure in white marlin by surveying a larger number of molecular markers across sample collections of increased size, including collections from additional geographic locations and a robust collection of larvae. Increased statistical power resulted in lower levels of genetic heterogeneity compared with the previous study, and results were consistent with the presence of a single genetic stock of white marlin in the Atlantic Ocean. These results indicate that when statistical power is low, the ability to distinguish noise from a true signal of population structure is compromised. This relationship is especially important for population genetic assessments of marine fishes where genetic differentiation, if it exists, is expected to be low.}, number={2}, journal={ICES Journal of Marine Science}, publisher={Oxford University Press (OUP)}, author={Mamoozadeh, Nadya R and McDowell, Jan R and Rooker, Jay R and Graves, John E}, editor={Hauser, LorenzEditor}, year={2017}, month={Apr}, pages={892–902} }
 @article{mamoozadeh_freshwater_2012, title={Polysiphonia sensu lato</i> (Ceramiales, Florideophyceae) species of Caribbean Panama including <i>Polysiphonia lobophoralis</i> sp. nov. and <i>Polysiphonia nuda</i> sp. nov.}, volume={55}, ISSN={1437-4323 0006-8055}, url={http://dx.doi.org/10.1515/bot-2012-0147}, DOI={10.1515/bot-2012-0147}, abstractNote={Abstract Only two species of Polysiphonia sensu lato (predominately species of Polysiphonia and Neosiphonia ) have been reported from Caribbean Panama. In contrast, 16 species are documented from the neighboring countries of Costa Rica and Colombia. Molecular-assisted identification using plastid-encoded ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit gene ( rbc L) and mitochondria-encoded cytochrome c oxidase subunit I gene (COI) loci identified 14 species from 38 samples collected along the Caribbean coast of Panama. Morphological character states were examined and used to identify each sample, and phylogenetic relationships among these species were estimated through maximum likelihood analyses of rbc L and nuclear-encoded SSU sequence data. Neosiphonia ferulaceae , N. tongatensis , Polysiphonia binneyi , P. havanensis , P. macrocarpa , P. pseudovillum , P. schneideri , P. subtilissima , and two species that could only be identified as P. cf. sertularioides are reported for the first time from Panama. Polysiphonia pentamera , a species only known from the eastern Pacific is reported for the first time in the Caribbean, and two new species, P. lobophoralis and P. nuda are described. A key to Caribbean Panama species, descriptions of species morphology and remarks on taxonomy and relationships are provided. These findings demonstrate that previous limited reports of Polysiphonia sensu lato species from Panama resulted from a lack of study, rather than a lack of diversity, within the region.}, number={4}, journal={botm}, publisher={Walter de Gruyter GmbH}, author={Mamoozadeh, Nadya R. and Freshwater, D. Wilson}, year={2012}, month={Jul}, pages={317–347} }
 @article{mamoozadeh_freshwater_2011, title={Taxonomic notes on Caribbean Neosiphonia and Polysiphonia (Ceramiales, Florideophyceae): five species from Florida, USA and Mexico}, volume={54}, ISSN={1437-4323 0006-8055}, url={http://dx.doi.org/10.1515/bot.2011.036}, DOI={10.1515/bot.2011.036}, abstractNote={Molecular-assisted identification using plastid-encoded rbcL and mitochondrion-encoded COI loci identified five species of Polysiphonia sensu lato from 16 Florida and Caribbean Mexico samples. Morphological character states were examined and used to identify these species as Neosiphonia bajacali comb. nov., N. echinata comb. nov., N. sphaerocarpa, N. tepida, and Polysiphonia anomala. Descriptions are provided and the phylogenetic relationships of the five species were determined through maximum likelihood analyses of rbcL and nuclear-encoded SSU sequence data. Neosiphonia bajacali and N. echinata had a combination of character states described for Neosiphonia: rhizoids cut-off from pericentral cells, lateral branch or trichoblast initials on every segment in a spiral pattern, tetrasporangia in spiral series, and spermatangial stichidia developing as bifurcations of trichoblasts, and these new combinations are proposed. Examination of N. echinata, P. fracta and North Carolina specimens identified as P. breviarticulata revealed no significant morphological differences. Polysiphonia fracta is proposed as a synonym of N. echinata and the presence of P. breviarticulata within the western Atlantic is questioned. This is the first report of N. bajacali from the Caribbean and the first report of N. echinata from Caribbean Mexico.}, number={3}, journal={Botanica Marina}, publisher={Walter de Gruyter GmbH}, author={Mamoozadeh, Nadya R. and Freshwater, D. Wilson}, year={2011}, month={Jan} }