Population genetics of shortnose sturgeon Acipenser brevirostrum based on mitochondrial DNA control region sequences

Molecular Ecology

Volumn 11, Issue 10, 2002, Pages 1885-1898

  Grunwald, C ^a   Stabile, J ^b   Waldman, J R ^c   Gross, R ^a   Wirgin, I ^a  

^a NEW YORK UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b IONA COLLEGE   (United States)

^c Hudson River Foundation   (United States)

Author keywords

Acipenseriformes; Control region; Endangered species; Heteroplasmy; Mitochondrial DNA; Sturgeon

Indexed keywords

ANIMALS; CONSERVATION OF NATURAL RESOURCES; DNA, MITOCHONDRIAL; FISHES; GENETICS, POPULATION; HAPLOTYPES; MOLECULAR SEQUENCE DATA; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

ACIPENSER; ACIPENSER BREVIROSTRUM; ACIPENSERIFORMES;

EID: 0036790546     PISSN: 09621083     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-294X.2002.01575.x     Document Type: Article

References (63)

1. Bain MB, Peterson DL, Arend KK (1998) Population status of shortnose sturgeon in the Hudson River. Final Project Report by the New York Cooperative Fish and Wildlife Research Unit, Cornell University, Ithaca, NY, to National Marine Fisheries Service, U.S. Army Corps of Engineers and the Hudson River Foundation.
2. Barber PH (1999) Patterns of gene flow and population genetic structure in the canyon treefrog, Hyla arenicolor (Cope). Molecular Ecology, 8, 563-576.
3. Bemis WE, Findeis EK, Grande L (1997) An overview of Acipenseriformes. Environmental Biology of Fishes, 48, 25-71.
4. Bernatchez L, Wilson CC (1998) Comparative phylogeography of Nearctic and Palearctic fishes. Molecular Ecology, 7, 431-452.
5. Birstein VJ, Bemis WE, Waldman JR (1997) The threatened status of acipenseriform species: a summary. Environmental Biology of Fishes, 48, 427-435.
6. Birstein VJ, Doukakis P (2000) Molecular analysis of Acipenser sturio L., 1758 and Acipenser oxyrinchus Mitchill, 1815: a review. Boletin Instituto Espanological de Oceanografia, 16, 1-4.
7. Blacklidge KH, Bidwell CA (1993) Three ploidy levels indicated by genome quantification in Acipenseriformes of North America. Journal of Heredity, 84, 427-430.
8. Brown JR, Beckenbach K, Beckenbach AT, Smith MJ (1996) Length variation, heteroplasmy and sequence divergence in the mitochondrial DNA of four species of sturgeon (Acipenser). Genetics, 142, 525-535.
9. Brown JR, Beckenbach AT, Smith MJ (1992) Mitochondrial DNA length variation and heteroplasmy in populations of white sturgeon (Acipenser transmontanus). Genetics, 132, 21-228.
10. Brown JR, Beckenbach AT, Smith MJ (1993) Intraspecific DNA sequence variation of the mitochondrial control region of white sturgeon (Acipenser transmontanus). Molecular Biology and Evolution, 10, 326-341.
11. Dadswell MJ (1979) Biology and population characteristics of the shortnose sturgeon, Acipenser brevirostrum LeSueur 1818 (Osteichthyes: Acipenseridae), in the Saint John River estuary, New Brunswick. Canadian Journal of Zoology, 57, 2186-2210.
12. Dadswell MJ, Taubert BD, Squires TS, Marchette D, Buckley J (1984) Synopsis of biological data on shortnose sturgeon, Acipenser brevirostrum Le Sueur 1818. FAO Fisheries Synopsis, 140, 1-45.
13. Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 131, 479-491.
14. Felsenstein J (1985) Confidence limits on phylogenies: an approach using bootstrap. Environmental Biology of Fishes, 48, 299-309.
15. Felsenstein J (1989) PHYLIP. Phylogeny inference package. Cladistics, 5, 164-166.
16. Ferguson MM, Bernatchez L, Gatt M et al. (1993) Distribution of mitochondrial DNA variation in lake sturgeon (Acipenser fulvescens) from the Moose River Basin, Ontario. Journal of Fish Biology, 43 (Suppl. A), 91-101.
17. Ferguson MM, Duckworth GA (1997) The status and distribution of lake sturgeon, Acipenser fulvescens, in the Canadian provinces of Manitoba, Ontario and Quebec: a genetic perspective. Environmental Biology of Fishes, 48, 299-309.
18. Frankham R (1994) Effective population size/adult population size ratios in wildlife: a review. Genetic Research, 66, 95-107.
19. Franklin IR (1980) Evolutionary change in small populations. In: Conservation Biology: An Evolutionary-Ecological Perspective (eds Soule' ME, Wilcox BA), pp. 135-150. Sinauer Associates, Sunderland, MA.
20. Guenette S, Fortin R, Rassart R (1993) Mitochondrial DNA variation in lake sturgeon (Acipenser fulvescens) from the St. Lawrence River and James Bay drainage basins in Quebec, Canada. Canadian Journal of Aquatic Sciences, 50, 659-664.
21. Hillis DM, Bull JJ (1993) An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology, 42, 182-192.
22. Hudson RR, Slatkin M, Maddison WP (1992) Estimation of levels of gene flow from DNA sequence data. Genetics, 132, 583-589.
23. Kimura M (1980) A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111-120.
24. Kocher TD, Thomas WK, Meyer A et al. (1989) Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers. Proceedings of the National Academy of Sciences of the USA, 86, 6196-6200.
25. Kretz KA, O'Brien JS (1993) Direct sequencing of polymerase chain reaction products from low melting temperature agarose. Methods in Enzymology, 218, 72-79.
26. Kynard B (1997) Life history, latitudinal patterns, and status of shortnose sturgeon, Acipenser brevirostrum. Environmental Biology of Fishes, 48, 319-334.
27. Kynard B (1998) Twenty-two years of passing shortnose sturgeon in fish lifts on the Connecticut River: what has been learned?. In: Fish Migration and Fish Bypasses (Eds Jungwirth M, Schmutz S, Weiss S), pp. 255-264. Fishing News Books, London.
28. Ludwig A, Jenneckens I (2000) A PCR test for mitochondrial heteroplasmy in sturgeon. Animal Genetics, 31, 140-157.
29. Ludwig A, May B, Debus L, Jenneckens I (2000) Heteroplasmy in the mtDNA control region of sturgeon (Acipenser, Huso, and Scaphirhynchus). Genetics, 156, 1933-1947.
30. Lunt DH, Whipple LE, Hyman BC (1998) Mitochondrial DNA variable number tandem repeats (VNTRs): utility and problems in molecular ecology. Molecular Ecology, 7, 1441-1455.
31. Mccusker MR, Parkinson E, Taylor EB (2000) Mitochondrial DNA variation in rainbow trout (Oncorhynchus mykiss) across its native range. Testing biogeographical hypotheses and their relevance to conservation. Molecular Ecology, 9, 2089-2108.
32. McElroy D, Moran P, Bermingham E, Kornfield I (1992) REAP: an integrated environment for the manipulation of and phylogenetic analysis of restriction data. Journal of Heredity, 83, 157-158.
33. Miller MP (1997) Tools for population genetic analyses (TFPGA) 1.3; A Windows program for the analysis of allozyme and molecular population genetic data. Computer software distributed by author.
34. Moritz C, Lavery S, Slade R (1995) Using allele frequency and phylogeny to define units for conservation and management. American Fisheries Society Symposium, 17, 249-262.
35. Moser ML, Ross SW (1995) Habitat use and movements of shortnose and Atlantic sturgeons in the lower Cape Fear River, North Carolina. Transactions of the American Fisheries Society, 124, 225-234.
36. Nei M (1972) Genetic distances between populations. American Naturalist, 106, 283-292.
37. Nei M (1987) Molecular Evolutionary Genetics. Columbia University Press, New York.
38. Nei M, Tajima F (1981) DNA polymorphism detectable by restriction endonucleases. Genetics, 97, 145-163.
39. Nelson K, Soule' M (1987) Genetical conservation of exploited fishes. In: Population Genetics and Fishery Management (eds Ryman N, Utter F), pp. 345-368. University of Washington, Seattle.
40. NMFS (National Marine Fisheries Service) (1998) Recovery plan for the shortnose sturgeon (Acipenser brevirostrum). Prepared by the Shortnose Sturgeon Recovery Team for the National Marine Fisheries Service, Silver Spring, Maryland.
41. O'Brien SJ (1994) Genetic and phylogenetic analyses of endangered species. Annual Review of Genetics, 28, 467-489.
42. 2 and the problem of small samples. Molecular Biology and Evolution, 6, 539-545.
43. Saghai-Maroof MA, Soliman KM, Jorgneson RA, Allard RW (1984) Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proceedings of the National Academy of Sciences of the USA, 81, 8014-8018.
44. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular Cloning: A Laboratory Manual, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
45. Schmidt RE (1986) Zoogeography of the northern Appalachians. In: The Zoogeography of North American Freshwater Fishes (ed. Hocutt CH, Wiley EO), pp. 137-159. Wiley, New York.
46. Schneider S, Roessli D, Excoffier L (2000) ARLEQUIN: A Software for Population Genetic Data Analysis, Version 2.000 Genetics and Biometry Laboratory, Department of Anthropology. University of Geneva.
47. Secor DH, Waldman JR (1999) Historical abundance of Delaware Bay Atlantic sturgeon and potential rate of recovery. American Fisheries Society Symposium, 23, 203-216.
48. Slatkin M (1985) rare alleles as indicators of gene flow. Evolution, 39, 53-65.
49. Slatkin M (1993) Isolation by distance in equlibrium and non-equilibrium populations. Evolution, 47, 64-279.
50. Smith TIJ, Clugston JP (1997) Status and management of Atlantic sturgeon, Acipenser oxyrinchus, in North America. Environmental Biology of Fishes, 48, 335-346.
51. Stabile J, Waldman JR, Parauka F, Wirgin I (1996) Stock structure and homing fidelity of Gulf sturgeon (Acipenser oxyrinchus desotoi) based on RFLP and sequence analysis of mitochondrial DNA. Genetics, 144, 767-775.
52. Stellwag EJ, Rulifson RA (1995) Mitochondrial DNA stability and striped bass stock identification: response to comment. Transactions of the American Fisheries Society, 124, 956-959.
53. Swofford DL (1998) PAUP: Phylogenetic Analysis Using Parsimony, Version 4.0b. Sinauer Associates, Sunderland, MA.
54. Tallman RF, Healey MC (1994) Homing, straying, and gene flow among seasonally separated populations of chum salmon (Oncorhynchus keta). Canadian Journal of Fisheries and Aquatic Sciences, 51, 577-588.
55. Waldman JR, Hart JT, Wirgin II (1996) Stock composition of the New York Bight Atlantic sturgeon fishery based on analysis of mitochondrial DNA. Transactions of the American Fisheries Society, 125, 364-371.
56. Waldman JR, Wirgin I (1994) Use of DNA analyses in the management of natural fish populations. In: Molecular Environmental Biology (ed. Garte SJ), pp. 29-64. Lewis Publishers, Boca Raton, FL.
57. Waldman JR, Wirgin II (1995) Comment: mitochondrial DNA stability and striped bass stock identification. Transactions of the American Fisheries Society, 124, 954-956.
58. Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358-1370.
59. Wirgin II, D'Amore M, Grunwald C, Goldman A, Garte SJ (1990) Genetic diversity at an oncogene locus and in mitochondrial DNA between populations of cancer-prone Atlantic tomcod. Biochemical Genetics, 28, 459-475.
60. Wirgin II, Ong TL, Maceda L, Waldman J, Moore D, Courtenay S (1993) Mitochondrial DNA variation in Canadian striped bass. Canadian Journal of Fisheries and Aquatic Sciences, 50, 80-87.
61. Wirgin II, Stabile JE, Waldman JR (1997) Molecular analysis in the conservation of sturgeons and paddlefish. Environmental Biology of Fishes, 48, 385-398.
62. Wirgin I, Waldman JR, Rosko J, Gross R, Collins MR, Rogers SG, Stabile J (2000) Genetic structure of Atlantic sturgeon populations based on mitochondrial DNA control region sequences. Transactions of the American Fisheries Society, 129, 476-486.
63. Wright S (1951) The genetical structure of populations. Annals of Eugenics, 15, 323-354.