Population genetic structure and demographic history of the fat greenling Hexagrammos otakii

다국어 초록 (Multilingual Abstract)

Fat greenling (Hexagrammos otakii) is an important commercial fish in the Northwestern Pacific, being distributed along the coastal waters of the East/Japan Sea and the Yellow Sea.
To investigate population genetic structure and demographic history of this species, one hundred and fifty five individuals were collected from five localities in the distribution range of the species and sequence variations in the mitochondrial genes COI, COIII-ND3-ND4L, and cytochrome b were examined. For all the genes in every sampling location, the nucleotide diversities were very low (0.001 ~ 0.005) although the haplotype diversities were relatively high, 0.55 ~ 0.81 for COI, 0.79 ~ 0.84 for COIII-ND3-ND4L, and 0.95 ~ 0.97 for cytochrome b. Hierarchical analysis of molecular variance (AMOVA), the conventional population statistic FST, and exact test of population differentiation revealed no significant genetic structuring among the samples, indicating that fat greening is panmictic throughout the range of its distribution.
Neutrality tests such as Tajima’s D and Fu’s FS statistics and mismatch distribution analyses suggested that fat greening has undergone the demographic history of population expansion during the late Pleistocene period approximately 91,000 ~327,000 years ago. The star-burst patterns of haplotype networks and low nucleotide diversities also indicated recent population expansion. These results help establish the fisheries management strategy for fat greenling in the Northwestern Pacific.

참고문헌 (Reference)

1 강희웅, "서해산 쥐노래미, Hexagrammos otakii의 성성숙과 산란 특성" 한국양식학회 17 (17): 30-38, 2004

2 Thomas WK, "Variation in salmonid mitochondrial DNA: evolutionary constraints and mechanisms of substitution" 29 : 233-245, 1989

3 Saitou N, "The neighbour-joining method: a new method for reconstructing phylogenetic trees" 4 : 406-425, 1987

4 Hewitt GM, "The genetic legacy of the Quaternary ice ages" 405 : 907-913, 2000

5 Clement M, "TCS: a computer program to estimate gene genealogies" 9 : 1657-1659, 2000

6 Xu X, "Surface-water evolution of the eastern East China Sea during the last 36,000 years" 156 : 285-304, 1999

7 Sotka EE, "Strong genetic clines and geographical variation in gene flow in the rocky intertidal barnacle Balanus glandula" 13 : 2143-2156, 2004

8 Fu,Y-X, "Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection" 147 : 915-925, 1997

9 Tajima F, "Statistical method for testing the neutral mutation hypothesis by DNA polymorphism" 123 : 585-595, 1989

10 Huh, SH, "Species composition and seasonal variations of fishes in eelgrass (Zostera marina) bed in Kwangyang Bay" 9 : 202-220, 1997

11 Harpending RC, "Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution" 66 : 591-600, 1994

12 Atarhouch T, "Signature of an early genetic bottleneck in a population of Moroccan sardines (Sardina pilchardus)" 39 : 373-383, 2006

13 Grant WS, "Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation" 89 : 415-426, 1998

14 Zhu D, "Sequence Evolution and Phylogenetic Signal in Control-Region and Cytochrome b Sequences of Rainbow Fishes (Melanotaeniidae)" 11 : 672-683, 1994

15 Park YA, "Sea level fluctuation in the Yellow Sea basin" 29 (29): 42-49, 1994

16 Wang PX, "Response of Western Pacific marginal seas to glacial cycles: aleoceangraphic and sedimentological features" 156 : 5-39, 1999

17 Kotilainen AT, "Rapid climate variability in the North PaciWc Ocean during the past 95,000 years" 377 : 323-326, 1995

18 Kuhn KL, "Preliminary assessment of population structure in the mackerel icefish (Champsocephalus gunnari)" 29 : 927-935, 2006

19 Shirai SM, "Population structure of the sailfin sandfish, Arctoscopus japonicus (Trichodontidae), in the Sea of Japan" 53 : 357-368, 2006

20 Rogers AR, "Population growth makes waves in the distribution of pairwise genetic difference" 9 : 552-569, 1992

21 Song N, "Population genetic structure and larval dispersal potential of spottedtail goby Synechogobius ommaturus in the north-west Pacific" 77 : 388-402, 2010

22 Hare MP, "Phylogeography of surfclams, Spisula solidissima, in the western North Atlantic based on mitochondrial and nuclear DNA sequences" 146 : 707-716, 2005

23 Pfenninger M, "Phylogeographic history of the land snail Candidula unifasciata (Helicellinae, Stylommatophora): fragmentation, corridor migration, and secondary contact" 56 (56): 1776-1788, 2002

24 McKay SJ, "Phylogeny of Pacific salmon and trout based on growth hormone type-2 and mitochondrial NADH dehydrogenase subunit 3 DNA sequences" 53 : 1165-1176, 1996

25 Excoffier L, "Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model" 13 : 853-864, 2004

26 Slatkin M, "Pairwise comparisons of mitochondrial DNA sequences in stable and exponenetially growing populations" 129 : 555-562, 1991

27 Ishiwatari R, "Organic geochemistry of the Japan Sea sediments. 1. Bulk organic matter and hydrocarbon analyses of core KH-79-3, C-3 from the Oki Ridge for paleoenvironment assessments" 50 : 179-195, 1994

28 Imbrie J, "On the structure and origin of major glaciation cycles, 1. Linear responses to Milankovitch forcing" 7 : 701-738, 1992

29 Kanamoto Z, "On the ecology of hexagrammid fish IV:mode of the distribution of Agrammus agrammus (Temmincket Schlegel) and Hexagrammos otakii Jordan et Starks and composition, abundance and food items of reef fish around the several reefs" 29 : 171-183, 1979

30 Crow KD, "Molecular phylogeny of the hexagrammid fishes using a multi-locus approach" 32 : 986-997, 2004

31 Nei. M, "Molecular evolutionary genetics" Columbia University Press 1987

32 Posada D, "Modeltest: testing the model of DNA substitution" 14 : 817-818, 1998

33 Arnason E, "Mitochondrial cytochrome b DNA sequence variation of Atlantic cod from Iceland and Greenland" 56 : 409-430, 2000

34 Yu ZN, "Mitochondrial DNA sequence variation of Japanese anchovy Engraulis japonicus from the Yellow Sea and East China Sea" 71 : 299-307, 2005

35 Carr SM, "Mitochondrial DNA sequence variation and genetic stock structure of Atlantic cod (Gadus morhua) from bay and offshore locations on the Newfoundland shelf" 4 : 79-88, 1995

36 Marko PB, "Mitochondrial DNA population structure and gene Xow in lingcod (Ophiodon elongatus): limited connectivity despite long-lived pelagic larvae" 150 : 1301-1311, 2007

37 Heyden S, "Mitochondrial DNA analyses of the Cape hakes reveal an expanding, panmictic population for Merluccius capensis and population structuring for mature fish in Merluccius paradoxus" 42 : 517-552, 2007

38 Kumar S, "Mega 3: integrated software for molecular evolutionary genetics analysis and sequence alignment" 5 : 150-163, 2004

39 Choi SH, "Maturity and spawning of the greenling Hexagrammos otakii in the southern part of the East sea of Korea" 53 : 17-22, 1997

40 Kimura MR, "Maternal identification of hybrid eggs in Hexageammos spp. by means of multiplex amplified product length polymorphism of mitochondrial DNA" 1 : 187-194, 2007

41 Lecomte F, "Living with uncertainty: genetic imprints of climate shrifts in East Pacific anchovy (Engraulis mordax) and sardine (Sardinops sagax)" 13 : 2169-2182, 2004

42 Lambeck K, "Links between climate and sea levels for the past three million years" 419 : 199-206, 2002

43 Liu J-X, "Late Pleistocene divergence and subsequent population expansion of two closely related fish species, Japanese anchovy (Engraulis japonicus) and Australian anchovy" 40 : 712-723, 2006

44 Ray N, "Intra-deme molecular diversity in spatially expanding populations" 20 : 76-86, 2003

45 Nohara K, "Genetic variability and stock structure of red tilefish Branchiostegus japonicus inferred from mitochondrial DNA sequence analysis" 76 : 75-81, 2010

46 Han ZQ, "Genetic population structure of Nibea albiflora in Yellow Sea and East China Sea" 74 : 544-552, 2008

47 Adachi T, "Genetic population structure and morphological characters of Japanese psychrolutids of genus Malacocottus (Scorpaeniformes: Psychrolutidae)" 56 (56): 323-329, 2009

48 Rogers AR, "Genetic evidence of Pleistocene population explosion" 49 : 608-615, 1995

49 Xiao Y, "Genetic diversity in the mitochondrial DNA control region and population structure in the small yellow croaker Larimichthys polyactis" 85 : 303-314, 2009

50 Kim GE, "Genetic Diversity and Population Structure of Chum Salmon in the North Pacific" (4) : 203-209, 2007

51 Posada D, "GEODIS: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes" 9 : 487-488, 2000

52 FSIS, "Food safety information service"

53 Bermingham E, "Fish biogeography and molecular clocks: perspectives from the Panamanian Isthmus, in Molecular Systematics of Fishes" Academic Press 113-128, 1997

54 Cho S-H, "Fish Fauna Associated with Drifting Seaweed in the Coastal Area of Tongyeong, Korea" 130 : 1190-1202, 2001

55 Dynesius M, "Evolutionary consequences of changes in species’ geographical distributions driven by Milankovitch climate oscillations" 97 : 9115-9120, 2000

56 Crow KD, "Evidence for multiple maternal contributors in nests of kelp greenling (Hexagrammos decagrammus, Hexagrammidae)" 1997 : 9-15, 1997

57 Larmuseau MHD, "Distributional and demographic consequences of Pleistocene climate fluctuations for a marine demersal fish in the north-eastern Atlantic" 36 : 1138-1151, 2009

58 Liu J-X, "Differential population structuring and demographic history of two closely related fish species, Japanese sea bass (Lateolabrax japonicus) and spotted sea bass (Lateolabrax maculatus) in Northwesternern Pacific" 39 : 799-811, 2006

59 Matsuda H, "Development of an adaptive marine ecosystem management and co-management plan at the Shiretoko World Natural Heritage Site" 142 : 1937-1941, 2009

60 Avise JC, "Demographic influences on mitochondrial DNA lineage survivorship in animal populations" 20 : 99-105, 1984

61 Xiao Y, "Demographic History and Population Structure of Blackfin Flounder (Glyptocephalus stelleri) in Japan Revealed by Mitochondrial Control Region Sequences" 48 : 402-417, 2010

62 Felsenstein J, "Confidence limits on phylogenies: an approach using the bootstrap" 39 : 783-791, 1985

63 백근욱, "Comparative feeding ecology of two sympatric greenling species, Hexagrammos otakii and Hexagrammos agrammus in eelgrass Zostera marina beds" SPRINGER 74 : 129-140, 2005

64 Petit JR, "Climate and atmospheric history of the past 420,000 years from the Vostok ice core, Antarctica" 399 : 429-436, 1999

65 Schneider S, "Arlequin: a software for population genetics data analysis. Ver 2.000. Genetics and Biometry Laboratory, Department of Anthropology" University of Geneva 2000

66 Excoffier L, "Analysis of molecular varuance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data" 131 : 479-491, 1992

67 Raymond M, "An exact test for population differentiation" 49 : 1280-1283, 1995

68 Templeton AR, "A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. I. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila" 117 : 343-351, 1987

69 Bond G, "A Pervasive Millennial- Scale Cycle in North Atlantic Holocene and Glacial Climates" 278 : 1257-1266, 1997