Mixed-stock analysis of Atlantic coast striped bass (Morone saxatilis) using nuclear DNA and mitochondrial DNA markers

1997 ◽  
Vol 54 (12) ◽  
pp. 2814-2826 ◽  
Author(s):  
Isaac I Wirgin ◽  
John R Waldman ◽  
Lorraine Maceda ◽  
Joseph Stabile ◽  
Victor J Vecchio
Keyword(s):  
Mitochondrial Dna ◽  
Chesapeake Bay ◽  
Striped Bass ◽  
Nuclear Dna ◽  
Morone Saxatilis ◽  
Hudson River ◽  
Mixed Stock Analysis ◽  
Stock Analysis ◽  
Length Variant ◽  
Mixed Stock

Striped bass (Morone saxatilis) stocks comingle along the northeastern United States and Canadian coasts and support mixed-stock fisheries in which stock compositions fluctuate widely. Many approaches to stock analysis of these populations have been tried. The recent use of mitochondrial DNA (mtDNA) haplotype frequency data showed promising results, despite low levels of mtDNA variation; to improve resolution, we used a single-copy nuclear DNA (nDNA) probe with two mtDNA markers (major length variants and Taq I variants), alone or in combination. Striped bass reference collections were from the Hudson River and Chesapeake Bay, and mixed-stock collections (1989 and 1991) were from eastern Long Island, New York. The combination of the nDNA and mtDNA major length variant data provided lower but still quite high resolution potential (Dst = 0.417) in mixed-stock analysis (1991 collection) than the combination of all three markers (Dst = 0.552). However, unlike the Hudson River stock, the Chesapeake Bay stock is composed of multiple substocks that vary significantly in the frequencies of Taq I variants; this among-substock variation destabilizes the Chesapeake Bay reference data set and the resultant mixed-stock estimates. Thus, we recommend an approach based on composite nDNA and mtDNA major length variant markers.

A comprehensive mitochondrial DNA mixed-stock analysis clarifies the composition of loggerhead turtle aggregates in the Adriatic Sea

2018 ◽  
Vol 165 (4) ◽  
Author(s):  
Livia Tolve ◽  
Paolo Casale ◽  
Angela Formia ◽  
Luisa Garofalo ◽  
Bojan Lazar ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Adriatic Sea ◽  
Loggerhead Turtle ◽  
Mixed Stock Analysis ◽  
Stock Analysis ◽  
Mixed Stock

Mitochondrial DNA Variation in Striped Bass (Morone saxatilis) from Canadian Rivers

1993 ◽  
Vol 50 (1) ◽  
pp. 80-87 ◽  
Author(s):  
Isaac I. Wirgin ◽  
Tun-Liang Ong ◽  
Lorraine Maceda ◽  
John R. Waldman ◽  
David Moore ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Striped Bass ◽  
Genetic Relatedness ◽  
Morone Saxatilis ◽  
Hudson River ◽  
Gene Pools ◽  
Dna Variation ◽  
Genotype Frequencies ◽  
Mitochondrial Dna Genotype ◽  
The Impact

Mitochondrial DNA(mtDNA)was analysed to determine the genetic relatedness of striped bass (Morone saxatilis) populations in tributaries to the Gulf of St. Lawrence and the Bay of Funday. Mitochondrial DNA genotype frequencies were compared with those of striped bass from the Shubenacadie River (Bay of Fundy) and the Miramichi and Tabusintac rivers (Gulf of St. Lawrence). These mtDNA genotype frequencies were compared with those of striped bass representative of the Atlantic coastal migratory stock originating in the Hudson River and Chesapeake Bay. Differences in the frequencies of mtDNA length variants permitted discrimination of the Shubenacadie River from the Miramichi River and Tabusintac River populations and all three Canadian populations from the U S. spawned costal migratory stock. No difference in the frequency of mtDNA length variants was observed between Tabusintac River and Miramichi River striped bass. Heteroplasmy for mtDNA length variants was observed in 35% of Gulf of St. Lawrence fish, the highest frequency observed in any striped bass population. These results highlight the genetic heterogeneity of these Canadian striped bass populations and their distinctiveness from U S. stocks. Future efforts to restore these depleted Canadian striped bass populations should consider the impact of stock transfer on endemic striped bass gene pools.

Mitochondrial DNA divergence among popylations of American shad (Alosa sapidissima): how much variation is enough for mixed-stock analysis?

1995 ◽  
Vol 52 (8) ◽  
pp. 1688-1702 ◽  
Author(s):  
John M. Epifanio ◽  
Bonnie L. Brown ◽  
Peter E. Smouse ◽  
Carol J. Kobak
Keyword(s):  
Mitochondrial Dna ◽  
Restriction Enzymes ◽  
American Shad ◽  
Data Set ◽  
Fourfold Increase ◽  
Mixed Stock Analysis ◽  
Haplotype Frequencies ◽  
Stock Analysis ◽  
Mtdna Diversity ◽  
Mixed Stock

We investigated the geographic distribution of the mitochondrial DNA (mtDNA) diversity of American shad from 15 North American rivers in 1992 with the intent of assessing sampling efficiency for future mixed-stock analysis. We observed 116 haplotypes among the 988 individuals assayed. Because no single or group of haplotypes completely discriminated river stocks or regional complexes, we investigated haplotype frequencies as stock descriptors. Analysis of four unique indices of haplotype divergence indicated that including rather than suppressing restriction site heteroplasmy increased resolution; however, the final results were not overwhelmingly dependent on this choice. A redundancy of variation among restriction enzymes diminished information returns rapidly after considering the six best enzymes, caused by physical linkage of restriction sites on the mtDNA molecule. Stock discriminatory power was tested by computing allocation efficiencies of mtDNA characters. When each individual was temporarily removed from the data set and reallocated to the various candidate populations on the basis of haplotypic similarity, 28% of the reallocations were correct, a fourfold increase over random success. We demonstrate that although the specific stock identity of individuals cannot be confidently established, the haplotypic arrays from baseline stocks can support stock identification and mixed-stock analysis for shad because rivers support stock-specific haplotype frequencies.

Mixed-stock analysis of striped bass in two rivers of the Bay of Fundy as revealed by mitochondrial DMA

1995 ◽  
Vol 52 (5) ◽  
pp. 961-970 ◽  
Author(s):  
Isaac Wirgin ◽  
Mark Pedersen ◽  
Steven Maceda ◽  
Brian Jessop ◽  
Simon Courtenay ◽  
...  
Keyword(s):  
Chesapeake Bay ◽  
Striped Bass ◽  
Hudson River ◽  
Bay Of Fundy ◽  
Frequency Data ◽  
River Population ◽  
Saint John ◽  
Spawning Stock ◽  
Mitochondrial Dna Genotype ◽  
Mixed Stock

Mark–recapture studies have shown that striped bass from the Hudson River and Chesapeake Bay migrate to the Bay of Fundy and its tributaries during spring and summer. The objective of this study was to determine the relative contributions of U.S. stocks and the endemic Shubenacadie River population to the adult striped bass aggregations that occurred during 1992 and 1993 in two rivers of the Bay of Fundy: the Saint John River, New Brunswick (where striped bass spawning may not presently occur), and the Shubenacadie River, Nova Scotia (where striped bass spawning occurs). Mitochondrial DNA genotype frequency data were used in a mixture model. Up to 97% of adults from the Saint John River were determined to be of U.S. origin, whereas less than 10% of adult striped bass collected in the Shubenacadie River were migrants from U.S. stocks. Consequently, we suggest that efforts to maintain or restore the Saint John River population with native broodstock may be unsuccessful owing to possible extinction of the native stock; however, protection of the Shubenacadie River spawning stock should be enhanced.

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