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1.
Megan E. Mach Elizabeth J. Sbrocco Lyndie A. Hice Tara A. Duffy David O. Conover Paul H. Barber 《Marine Biology》2011,158(3):515-530
The coastal marine environment of the Northwest Atlantic contains strong environmental gradients that create distinct marine
biogeographic provinces by limiting dispersal, recruitment, and survival. This region has also been subjected to numerous
Pleistocene glacial cycles, resulting in repeated extirpations and recolonizations in northern populations of marine organisms.
In this study, we examined patterns of genetic structure and historical demography in the Atlantic silverside, Menidia menidia, an annual marine fish with high dispersal potential but with well-documented patterns of clinal phenotypic adaptation along
the environmental gradients of the Northwest Atlantic. Contrary to previous studies indicating genetic homogeneity that should
preclude regional adaptation, results demonstrate subtle but significant (F
ST = 0.07; P < 0.0001) genetic structure among three phylogeographic regions that partially correspond with biogeographic provinces, suggesting
regional limits to gene flow. Tests for non-equilibrium population dynamics and latitudinal patterns in genetic diversity
indicate northward population expansion from a single southern refugium following the last glacial maximum, suggesting that
phylogeographic and phenotypic patterns have relatively recent origins. The recovery of phylogeographic structure and the
partial correspondence of these regions to recognized biogeographic provinces suggest that the environmental gradients that
shape biogeographic patterns in the Northwest Atlantic may also limit gene flow in M. menidia, creating phylogeographic structure and contributing to the creation of latitudinal phenotypic clines in this species. 相似文献
2.
We used microsatellite genetic markers to investigate adult population structure and the formation of a new year-class in
Sebastes mystinus (blue rockfish). Since S. mystinus may live as long as 45 years and reach reproductive age at approximately 5 years, the adult population may contain as many
as eight generations of reproductive adults. We investigated whether the juveniles of the 2000 year-class and the adult population
were genetically homogeneous along the California coast. We sampled approximately 100 juveniles from three sites, two sites
along the Monterey Peninsula (Carmel and Monterey) in central California and one at Fort Ross in northern California, and
approximately 50 adult S. mystinus from five sites throughout the population center. The adult sampling spanned approximately 700 km from the northern Channel
Islands to Fort Bragg. The juveniles showed significant heterogeneity in allele frequencies among distant locations and genetic
homogeneity among adjacent locations. In contrast, the adults showed genetic homogeneity over large distances (San Miguel
Island to Fort Bragg), indicating little limitation of gene flow in this region. Allele frequencies of juveniles differed
from adult samples and in some cases reduced genetic diversity indicative of sweepstakes recruitment (small sample of the
adult reproductive potential). The genetic structure of the 2000 year-class suggests that despite a genetically homogenous
adult population, settled juveniles can be genetically heterogeneous along the California coast. The results also suggest
that the adults, with several year-classes, are capable of maintaining a panmictic population despite the genetic distinctiveness
of individual year-classes. 相似文献
3.
Sagitta elegans and S. setosa are the two dominant chaetognaths in the North-East (NE) Atlantic. They are closely related and have a similar ecology and
life history, but differ in distributional ranges. Sagitta setosa is a typical neritic species occurring exclusively above shelf regions, whereas S. elegans is a more oceanic species with a widespread distribution. We hypothesised that neritic species, because of smaller and more
fragmented populations, would have been more vulnerable to population bottlenecks resulting from range contractions during
Pleistocene glaciations than oceanic species. To test this hypothesis we compared mitochondrial Cytochrome Oxidase II DNA
sequences of S. elegans and S. setosa from sampling locations across the NE Atlantic. Both species displayed very high levels of genetic diversity with unique
haplotypes for every sequenced individual and an approximately three times higher level of nucleotide diversity in S. elegans (0.061) compared to S. setosa (0.021). Sagitta setosa mitochondrial DNA (mtDNA) haplotypes produced a star-like phylogeny and a uni-modal mismatch distribution indicative of a
bottleneck followed by population expansion. In contrast, S. elegans had a deeper mtDNA phylogeny and a multi-modal mismatch distribution as would be expected from a more stable population.
Neutrality tests indicated that assumptions of the standard neutral model were violated for both species and results from
the McDonald-Kreitman test suggested that selection played a role in the evolution of their mitochondrial DNA. Congruent with
these results, both species had much smaller effective population sizes estimated from genetic data when compared to census
population sizes estimated from abundance data, with a factor of ~108–109 difference. Assuming that selective effects are comparable for the two species, we conclude that the difference in genetic
signature can only be explained by contrasting demographic histories. Our data are consistent with the hypothesis that in
the NE Atlantic, the neritic S. setosa has been more severely affected by population bottlenecks resulting from Pleistocene range shifts than the more oceanic S. elegans. 相似文献
4.
Nathan L. Kirk Jason P. Andras C. Drew Harvell Scott R. Santos Mary Alice Coffroth 《Marine Biology》2009,156(8):1609-1623
Numerous marine invertebrates form endosymbiotic relationships with dinoflagellates in the genus Symbiodinium. However, few studies have examined the fine-scale population structure of these symbionts. Here, we describe the genetic
structure of Symbiodinium type “B1/B184” inhabiting the gorgonian Gorgonia
ventalina along the Florida Keys. Six polymorphic microsatellite loci were utilized to examine 16 populations along the Upper, Middle,
and Lower Keys spanning a range of ~200 km. Multiple statistical tests detected significant differentiation in 54–92% of the
120 possible pairwise comparisons between localities, suggesting low levels of gene flow in these dinoflagellates. In general,
populations clustered by geographic region and/or reefs in close proximity. Some of the sharpest population differentiation
was detected between Symbiodinium from deep and shallow sites on the same reef. In spite of the high degree of population structure, alleles and genotypes
were shared among localities, indicating some connectivity between Symbiodinium populations associated with G. ventalina.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. 相似文献
5.
Matías Feijoo Enrique P. Lessa Rocío Loizaga de Castro Enrique A. Crespo 《Marine Biology》2011,158(8):1857-1867
Several major breeding areas have been defined for the South American sea lion (Otaria flavescens) along the Atlantic Ocean including the Uruguayan and Patagonian coasts. Together with a documented and severe reduction
in population sizes caused by commercial hunting in the last century, these areas show opposite population trends. While Patagonian
populations are recovering since hunting ceased, Uruguayan populations are declining. In this context, population genetic
structure and genetic diversity were studied for the first time with both nuclear (microsatellites) and mitochondrial (control
region) markers together. Alternative scenarios were found for both markers. While mitochondrial marker showed geographically
structured populations, the nuclear loci showed a lack of geographical structure. These opposite patterns in genetic structure
could be explained by female phylopatry and high male dispersion. The reduction in population size caused by commercial hunting
did not leave a detectable footprint of bottleneck at the genetic level. 相似文献
6.
Genetic diversity and population structure of the Chinese mitten crab <Emphasis Type="Italic">Eriocheir sinensis</Emphasis> in its native range 总被引:1,自引:0,他引:1
Liying Sui Fumin Zhang Xiaomei Wang Peter Bossier Patrick Sorgeloos Bernd Hänfling 《Marine Biology》2009,156(8):1573-1583
The Chinese mitten crab Eriocheir sinensis is an indigenous and economically important species in China, but can also be found as invasive species in Europe and America.
Mitten crabs have been exploited extensively as a food resource since the 1990s. Despite its ecological and economic importance,
the genetic structure of native mitten crab populations is not well understood. In this paper, we investigated the genetic
structure of mitten crab populations in China by screening samples from ten locations covering six river systems at six microsatellite
loci. Our results provide further evidence that mitten crabs from the River Nanliujiang in Southern China are a genetically
differentiated population within the native range of Eriocheir, and should be recognized as a separate taxonomic unit. In contrast, extremely low levels of genetic differentiation and
no significant geographic population structure were found among the samples located north of the River Nanliujiang. Based
on the reproductive biology of mitten crabs and the geography of their habitat we argue that both natural and human-mediated
gene flow are unlikely to fully account for the similar allele frequency distributions at microsatellite loci. Large population
sizes of mitten crabs suggest instead that a virtual absence of genetic drift and significant homoplasy of microsatellite
alleles have contributed to the observed pattern. Furthermore, a coalescent-based maximum likelihood method indicated a more
than two-fold lower effective population size of the Southern population compared to the Northern Group and low but significant
levels of gene flow between both areas. 相似文献
7.
Mitochondrial d-loop sequences were analyzed to characterize the phylogeographic and population genetic structure of the
northern clingfish (Gobbiesox maeandricus Girard). Sequence analysis of 378 bp from 111 individuals sampled in 14 localities along the northeast Pacific coast and
within the Strait of Georgia from 1996 to 1999 revealed marked genetic differentiation (Φct=0.247) among regional population groupings. The gene genealogy distinguished two major clades of haplotypes separated by
at least 1.1% sequence divergence. One clade with very low haplotype diversity (h=0.2095, n=18) occurred only within the recently unglaciated Strait of Georgia. The other clade had high haplotype diversity (h=0.8808, n=93) and was found in all populations. High haplotype diversity was found in open coastal populations, both north and south
of the maximum extant of the Wisconsin ice sheet, suggesting that the clingfish range was not pushed to a southern refugium
during the last glacial maximum. A nested clade analysis also did not detect a large northward expansion from a single southern
refugium. The level of sequence divergence and coalescent-based analyses suggest that the observed patterns of polymorphism
are the result of Pleistocene diversification within multiple refugia, followed by population expansion and asymmetrical lineage
introgression.
Received: 5 February 2000 / Accepted: 31 August 2000 相似文献
8.
Mioko Taguchi Susan J. Chivers Patricia E. Rosel Takashi Matsuishi Syuiti Abe 《Marine Biology》2010,157(7):1489-1498
Genetic structure and phylogeography of the harbour porpoise Phocoena phocoena in the North Pacific were examined using 358 bps sequences from the 5′ end of the mitochondrial DNA control region including
those reported previously and newly obtained from the west Pacific. AMOVA and pairwise population φ
st
estimates clearly revealed genetic differentiation between an east/south and a north/northwest group with the break along
the Pacific Rim at British Columbia. In addition, nested clade phylogeographical analysis, neutrality tests, mismatch distribution
analysis, genetic diversities and Mantel test, suggested that the observed genetic structure might have been influenced by
contiguous range expansion with restricted gene flow in the direction from south to north along the North American coasts
and east to west along the Pacific Rim in the middle to late Pleistocene. 相似文献
9.
Rosemary E. Golding Donald J. Colgan Guy Nelmes Tina Reutelshöfer 《Marine Biology》2011,158(6):1259-1269
DNA sequences of the mitochondrial cytochrome c oxidase subunit I (COI) gene were collected from estuarine snails in the genus
Phallomedusa to examine the effects of estuarine isolation on population structure and gene flow. Three clades were recovered, one corresponding
to Phallomedusa austrina and two others with the morphology of Phallomedusa solida. The haplotype diversity in all three clades indicated recent population expansion. Phallomedusa austrina was restricted to the west of a previous land bridge in the Bass Strait between mainland Australia and Tasmania, and P. solida to its east and to northern Tasmania. Phylogeographic analysis of P. austrina and P. solida shows strong geographic separation of species, but no local genetic structure indicative of regional or estuarine isolation.
The clades of P. solida exhibit substantial genetic divergence and were sympatric across their entire distribution in eastern Tasmania and mainland
Australia. Such a situation, which has not previously been observed in phylogeographic studies of southeast Australia, suggests
that P. solida has had a complex refugial history during periods of environmental challenge. 相似文献
10.
Cécile Fauvelot Francesca Bertozzi Federica Costantini Laura Airoldi Marco Abbiati 《Marine Biology》2009,156(11):2313-2323
Human-made structures are increasingly found in marine coastal habitats. The aim of the present study was to explore whether
urban coastal structures can affect the genetic variation of hard-bottom species. We conducted a population genetic analysis
on the limpet Patella caerulea sampled in both natural and artificial habitats along the Adriatic coast. Five microsatellite loci were used to test for
differences in genetic diversity and structure among samples. Three microsatellite loci showed strong Hardy–Weinberg disequilibrium
likely linked with the presence of null alleles. Genetic diversity was significantly higher in natural habitat than in artificial
habitat. A weak but significant differentiation over all limpet samples was observed, but not related to the type of habitat.
While the exact causes of the differences in genetic diversity deserve further investigation, these results clearly point
that the expansion of urban structures can lead to genetic diversity loss at regional scales. 相似文献
11.
Noam Leader Eli Geffen Ofer Mokady Yoram Yom-Tov 《Behavioral ecology and sociobiology》2008,62(8):1299-1305
Geographic variation in vocalizations is widespread in passerine birds, but its origins and maintenance remain unclear. In
this study, we test the hypothesis that song dialect, a culturally transmitted trait, is related to the population genetic
structure of the orange-tufted sunbird, Nectarinia osea. To address this, we compared mitochondrial DNA (mtDNA) sequence variation together with allele frequencies at five microsatellite
loci from an urban population of sunbirds exhibiting two distinct song dialects on a microgeographic scale. Our findings reveal
no association between dialect membership and genetic composition. All genetic measures, from both mitochondrial and nuclear
DNA, indicate high levels of gene flow between both dialect populations. The low F
ST values obtained from mtDNA and microsatellite analysis imply that the variation among dialects does not account for more
than 2%, at best, of the overall genetic variation found in the entire population. These measures fall well within the range
of similar measures obtained in other studies of species exhibiting vocal dialects, most of which fail to detect any dialect-based
genetic differentiation. The persistence of dialects in the orange-tufted sunbird may thus best be explained by dispersal
of individuals across dialect boundaries and possibly from surrounding areas, followed by postdispersal vocal matching. Because
genetic structuring appears weaker than cultural structure in this species, we discuss the behavioral mechanisms underlying
dialect maintenance in the presence of apparent gene flow. 相似文献
12.
Evolutionary diversification of the broadly distributed copepod sibling species complex Eurytemora affinis has been documented in the northern hemisphere. However, the fine scale geographic distribution, levels of genetic subdivision,
evolutionary, and demographic histories of European populations have been less explored. To gain information on genetic subdivision
and to evaluate heterogeneity among European populations, we analyzed samples from 8 locations from 58° to 45°N and 0° to
23°E, using 549 base pairs of the mitochondrial cytochrome oxidase subunit I (COI) gene. We discovered three distinct lineages
of E. affinis in Western Europe, namely the East Atlantic lineage, the North Sea/English Channel (NSEC) lineage, and the Baltic lineage.
These geographically separated lineages showed sequences divergence of 1.7–2.1%, dating back 1.9 million years (CI: 0.9–3.0
My) with no indication of isolation by distance. Genetic divergence in Europe was much lower than among North American lineages.
Interestingly, genetic structure varied distinctively among the three lineages: the East Atlantic lineage was divided between
the Gironde and the Loire populations, the NSEC lineage comprised one single population unit spanning the Seine, Scheldt and
Elbe rivers and the third lineage was restricted to the Baltic Proper (Sweden). We revealed high haplotype diversity in the
East Atlantic and the Baltic lineages, whereas in the NSEC lineage haplotype diversity was comparatively low. All three lineages
showed signs of at least one demographic expansion event during Pleistocene glaciations that marked their genetic structure.
These results provide a preliminary overview of the genetic structure of E. affinis in Europe. 相似文献
13.
Claudia Hollatz Leonardo Flach C. Scott Baker Fabrício R. Santos 《Marine Biology》2011,158(4):927-933
A large macrogeographic differentiation has been observed among Sotalia guianensis populations along the South American coast. However, no genetic structure has been detected so far in closely distributed
populations of this species, even though it has been observed in other cetaceans. Here, we examined the fine scale population
structure for the largest populations of S. guianensis inhabiting Sepetiba and Paraty embayments at the south-eastern coast of Rio de Janeiro, Brazil. Analysis of mitochondrial
DNA (mtDNA) control region sequences failed to detect variability among sequences. Conversely, evidence of significant male
population structure was found on the basis of ten nuclear microsatellite loci. Surprisingly, the microsatellite markers were
able to distinguish between individuals from the two embayments located 60 km apart. The results suggest that differences
in habitat type and behavioral specializations are likely to explain the patterns of genetic structure. These findings should
provide baselines for the management of communities exposed to increasing human-driven habitat loss. 相似文献
14.
The population genetic structure of the neon damselfish (Pomacentrus coelestis) in the northwestern Pacific Ocean was revealed by the hypervariable control region of the mitochondrial gene (343 bp). In
total, 170 individuals were sampled from 8 localities distributed between Taiwan and Japan, and 71 haplotypes were obtained
through sequence alignment. High haplotype diversity (h = 0.956 ± 0.008) with low nucleotide diversity (π = 0.010 ± 0.006) was observed, and the results of the mismatch distribution test suggested that a historical population expansion
after a period of population bottleneck might have occurred among P. coelestis populations. Based on the results of the UPGMA tree and AMOVA (Φct = 0.193, P < 0.05) analyses, fish populations from eight localities could be divided into two groups: one includes populations from localities
around mainland Japan, and the other includes those from Okinawa and southern Taiwan. A genetic break was found between populations
from mainland Japan and Okinawa, and this break was congruent with the pattern of phenotypic variations documented in previous
studies. This evidence supports the latitudinal variation of reproductive traits among P. coelestis populations likely being genetically based. It is suggested that the changes in sea level and sea surface temperatures during
past glaciations might have resulted in population bottlenecks in P. coelestis and the modern populations in the northern West Pacific are likely the results of recolonization after such events. The Kuroshio
Current acts not only as a vehicle for larval transport along its pathway (between populations in southern Taiwan and Okinawa)
but also as a barrier for larval dispersal across the Kuroshio axis (between populations in mainland Japan and Okinawa).
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. 相似文献
15.
In a previous study on the kuruma shrimp Penaeus japonicus from the South China Sea, we detected high genetic divergence between two morphologically similar varieties (I and II) with
distinct color banding patterns on the carapace, indicating the occurrence of cryptic species. In the present study, we clarify
the geographical distribution of the two varieties in the western Pacific by investigating the genetic differentiation of
the shrimp from ten localities. Two Mediterranean populations are also included for comparison. Based on the mitochondrial
DNA sequence data, the shrimps are separated into two distinct clades representing the two varieties. Variety I comprises
populations from Japan and China (including Taiwan), while variety II consists of populations from Southeast Asia (Vietnam,
Singapore and the Philippines), Australia and the Mediterranean. Population differentiation is evident in variety II, as supported
by restriction profiles of two mitochondrial markers and analysis of two microsatellite loci. The Australian population is
genetically diverged from the others, whereas the Southeast Asian and Mediterranean populations show a close genetic relationship.
Variety I does not occur in these three localities, while a small proportion of variety II is found along the northern coast
of the South China Sea and Taiwan, which constitute the sympatric zone of the two varieties. The present study reveals high
genetic diversity of P. japonicus. Further studies on the genetic structure of this species complex, particularly the populations in the Indian Ocean and Mediterranean,
are needed not only to understand the evolutionary history of the shrimp, but also to improve the knowledge-based fishery
management and aquaculture development programs of this important biological resource. 相似文献
16.
Tina Fredsted Mikkel H. Schierup Linn F. Groeneveld Peter M. Kappeler 《Behavioral ecology and sociobiology》2007,61(6):943-954
Mating system and dispersal patterns influence the spatio-genetic structure within and between populations. Among mammals,
monogamy is rare, and its socio-genetic consequences have not been studied in detail before. The goal of our study was to
investigate population history, demographic structure, and dispersal patterns in a population of pair-living fat-tailed dwarf
lemurs, Cheirogaleus medius, a small, nocturnal primate from western Madagascar, and to infer their underlying behavioral mechanisms. Tissue samples
for DNA extraction were obtained from a total of 140 individuals that were captured in two subpopulations about 3 km apart.
Analyses of mtDNA variability at the population level revealed very low levels of genetic variability combined with high haplotype
diversity, which is indicative of a recent population bottleneck. We found no evidence for spatial clustering of same-sexed
individuals with identical haplotypes within each of two subpopulations but significant clustering between them. Thus, a high
level of local subpopulation differentiation was observed (F
ST = 0.230). The sexes showed equal variances in the number of individuals representing each haplotype, as well as equal levels
of aggregation of identical haplotypes. Hence, both sexes disperse from their natal area, one pattern expected in a pair-living
mammal. There is a possibility of behavioral and social flexibility in this species, however, because we documented pronounced
differences in density and sex ratio between the two subpopulations, suggesting that single study sites or populations may
not be representative of a given local population or even species. 相似文献
17.
Spatial and temporal genetic homogeneity in the Arctic surfclam (<Emphasis Type="Italic">Mactromeris polynyma</Emphasis>) 总被引:1,自引:0,他引:1
Commercially harvested marine bivalve populations show a broad range of population-genetic patterns that may be driven by
planktonic larval dispersal (gene flow) or by historical (genetic drift) and ecological processes (selection). We characterized
microsatellite genetic variation among populations and year classes of the commercially harvested Arctic surfclam, Mactromeris polynyma, in order to test the relative significance of gene flow and drift on three spatial scales: within commercially harvested
populations in the northwest Atlantic; among Atlantic populations; and between the Atlantic and Pacific oceans. We found small
nonsignificant genetic subdivision among eight populations from the northwest Atlantic (F
ST = 0.002). All of these Atlantic populations were highly significantly differentiated from a northeast Pacific population
(F
ST = 0.087); all populations showed high inbreeding coefficients (F
IS = 0.432). We tested one likely source of heterozygote deficits by aging individual clams and exploring genetic variation
among age classes within populations (a temporal Wahlund effect). Populations showed strikingly different patterns of age
structure, but we found little differentiation among age classes. In one case, we were able to analyze genetic diversity between
age classes older or younger than the advent of intensive commercial harvesting. The results generally suggest spatially broad
and temporally persistent genetic homogeneity of these bivalves. We discuss the implications of the results for the biology
and management of surfclam populations.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. 相似文献
18.
In a previous study that investigated genetic structure of Octopus vulgaris along the South African coast by sequencing the mitochondrial cytochrome oxidase III gene (COIII), all sequences generated
were identical. Such a finding is unusual, because mitochondrial DNA mutates quickly, and several marine invertebrates present
in southern Africa show considerable genetic variation and structure. We reanalysed the samples using two different mitochondrial
markers, namely cytochrome oxidase I (COI) and the large ribosomal subunit (16S rRNA). Sequences of both these markers showed
variation. The conclusion of the previous study, that South Africa’s O. vulgaris population is characterised by a lack of genetic structure along the coast, is rejected. Some specimens from Durban (southeast
Africa) were genetically more different from those found in the remainder of the country than were specimens from other regions
(Tristan da Cunha and Senegal). We suggest that the lineage in Durban may have been recently introduced. 相似文献
19.
20.
S. M. Francisco R. Castilho M. Soares L. Congiu A. Brito M. N. Vieira V. C. Almada 《Marine Biology》2009,156(7):1421-1432
A fragment of the mitochondrial control region was used to assess phylogeographic patterns and historical demography of the
sand-smelt Atherina presbyter in the North-eastern Atlantic, covering its geographical range. A striking result is the highly marked differentiation between
the Canary Islands population and western European ones. A genetic structure among European populations of A. presbyter was revealed, with a pattern of isolation-by-distance or a gradient effect at a scale of hundreds kilometres, an uncommon
pattern likely related to the biological and life-history traits of the sand-smelt. The northern European populations present
a much lower genetic diversity when compared to southern populations, which is consistent with a recent colonization from
southern populations. The results showed signs of Pleistocene signatures, with the population age estimates for the European
populations being clearly older than the Last Glacial Maximum (18,000 years bp). Nevertheless, paleotemperature reconstructions
show that the sand-smelt could not have inhabited the western European shores during the last glacial phase.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. 相似文献