Multiple ice-age refugia in Pacific cod, Gadus macrocephalus.

Abstract:

:Pleistocene ice-ages greatly influenced the historical abundances of Pacific cod, Gadus macrocephalus, in the North Pacific and its marginal seas. We surveyed genetic variation at 11 microsatellite loci and mitochondrial (mt) DNA in samples from twelve locations from the Sea of Japan to Washington State. Both microsatellite (mean H = 0.868) and mtDNA haplotype (mean h = 0.958) diversities were large and did not show any geographical trends. Genetic differentiation between samples was significantly correlated with geographical distance between samples for both microsatellites (FST = 0.028, r(2) = 0.33) and mtDNA (FST = 0.027, r(2) = 0.18). Both marker classes showed a strong genetic discontinuity between northwestern and northeastern Pacific populations that likely represents groups previously isolated during glaciations that are now in secondary contact. Significant differences appeared between samples from the Sea of Japan and Okhotsk Sea that may reflect ice-age isolations in the northwest Pacific. In the northeast Pacific, a microsatellite and mtDNA partition was detected between coastal and Georgia Basin populations. The presence of two major coastal mtDNA lineages on either side of the Pacific Ocean basin implies at least two ice-age refugia and separate postglacial population expansions facilitated by different glacial histories. Northward expansions into the Gulf of Alaska were possible 14-15 kyr ago, but deglaciation and colonization of the Georgia Basin probably occurred somewhat later. Population expansions were evident in mtDNA mismatch distributions and in Bayesian skyline plots of the three major lineages, but the start of expansions appeared to pre-date the last glacial maximum.

journal_name

Mol Ecol

journal_title

Molecular ecology

authors

Canino MF,Spies IB,Cunningham KM,Hauser L,Grant WS

doi

10.1111/j.1365-294X.2010.04815.x

subject

Has Abstract

pub_date

2010-10-01 00:00:00

pages

4339-51

issue

19

eissn

0962-1083

issn

1365-294X

pii

MEC4815

journal_volume

19

pub_type

杂志文章
  • When can refuges mediate the genetic effects of fire regimes? A simulation study of the effects of topography and weather on neutral and adaptive genetic diversity in fire-prone landscapes.

    abstract::Understanding how landscape heterogeneity mediates the effects of fire on biodiversity is increasingly important under global changes in fire regimes. We used a simulation experiment to investigate how fire regimes interact with topography and weather to shape neutral and selection-driven genetic diversity under alter...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14250

    authors: Banks SC,Davies ID,Cary GJ

    更新日期:2017-10-01 00:00:00

  • Genetic structuring and recent demographic history of red pandas (Ailurus fulgens) inferred from microsatellite and mitochondrial DNA.

    abstract::Clarification of the genetic structure and population history of a species can shed light on the impacts of landscapes, historical climate change and contemporary human activities and thus enables evidence-based conservation decisions for endangered organisms. The red panda (Ailurus fulgens) is an endangered species d...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2011.05126.x

    authors: Hu Y,Guo Y,Qi D,Zhan X,Wu H,Bruford MW,Wei F

    更新日期:2011-07-01 00:00:00

  • Fine-scale phylogeographical analysis of Mediterranean Anacamptis palustris (Orchidaceae) populations based on chloroplast minisatellite and microsatellite variation.

    abstract::The phylogeographical history of the rare marsh orchid Anacamptis palustris (Orchidaceae) was reconstructed using highly polymorphic chloroplast minisatellite and microsatellite loci. Allelic variation at chloroplast microsatellite loci was due to length variation in poly(A/T) repeats and was informative on a regional...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2003.01958.x

    authors: Cozzolino S,Cafasso D,Pellegrino G,Musacchio A,Widmer A

    更新日期:2003-10-01 00:00:00

  • Some like it toxic.

    abstract::Humans are notorious for disturbing terrestrial ecosystems worldwide, especially those that are in close proximity to urban areas. This disturbance has involved the accumulation of various types of chemical pollutants, of either agricultural or industrial origins, in both soil and water ecosystems. Pollutants have som...

    journal_title:Molecular ecology

    pub_type: 评论,新闻

    doi:10.1111/j.1365-294x.2011.05186.x

    authors: Corradi N,Charest C

    更新日期:2011-08-01 00:00:00

  • Bottlenecks, drift and differentiation: the population structure and demographic history of sika deer (Cervus nippon) in the Japanese archipelago.

    abstract::We assessed genetic differentiation and diversity in 14 populations of sika deer (Cervus nippon) from Japan and four populations of sika deer introduced to the UK, using nine microsatellite loci. We observed extreme levels of differentiation and significant differences in diversity between populations. Our results do ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2001.01277.x

    authors: Goodman SJ,Tamate HB,Wilson R,Nagata J,Tatsuzawa S,Swanson GM,Pemberton JM,McCullough DR

    更新日期:2001-06-01 00:00:00

  • Matrilinear phylogeography of Atlantic salmon (Salmo salar L.) in Europe and postglacial colonization of the Baltic Sea area.

    abstract::Sixty-four samples from 46 salmon populations totalling 2369 specimens were used for polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of the mitochondrial ND1 region. The final analyses included 3095 specimens from 60 populations in Northern Europe. A subsample was analysed by RFL...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2001.01168.x

    authors: Nilsson J,Gross R,Asplund T,Dove O,Jansson H,Kelloniemi J,Kohlmann K,Löytynoja A,Nielsen EE,Paaver T,Primmer CR,Titov S,Vasemägi A,Veselov A,Ost T,Lumme J

    更新日期:2001-01-01 00:00:00

  • A comparison of pedigree- and DNA-based measures for identifying inbreeding depression in the critically endangered Attwater's Prairie-chicken.

    abstract::The primary goal of captive breeding programmes for endangered species is to prevent extinction, a component of which includes the preservation of genetic diversity and avoidance of inbreeding. This is typically accomplished by minimizing mean kinship in the population, thereby maintaining equal representation of the ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12482

    authors: Hammerly SC,Morrow ME,Johnson JA

    更新日期:2013-11-01 00:00:00

  • Genetic structure of Mesoamerican populations of Big-leaf mahogany (Swietenia macrophylla) inferred from microsatellite analysis.

    abstract::While microsatellites have been used to examine genetic structure in local populations of Neotropical trees, genetic studies based on such high-resolution markers have not been carried out for Mesoamerica as a whole. Here we assess the genetic structure of the Mesoamerican mahogany Swietenia macrophylla King (big-leaf...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2003.01951.x

    authors: Novick RR,Dick CW,Lemes MR,Navarro C,Caccone A,Bermingham E

    更新日期:2003-11-01 00:00:00

  • Contrasting landscape epidemiology of two sympatric rabies virus strains.

    abstract::Viral strain evolution and disease emergence are influenced by anthropogenic change to the environment. We investigated viral characteristics, host ecology, and landscape features in the rabies-striped skunk disease system of the central Great Plains to determine how these factors interact to influence disease emergen...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2010.04668.x

    authors: Barton HD,Gregory AJ,Davis R,Hanlon CA,Wisely SM

    更新日期:2010-07-01 00:00:00

  • Heterozygosity, inbreeding and neonatal traits in Soay sheep on St Kilda.

    abstract::We investigated whether birth weight and neonatal survival, a period within which 24% of all mortalities occur, were correlated with levels of inbreeding in St Kilda Soay sheep, using pedigree inbreeding coefficients and four marker-based estimators of inbreeding. None of the inbreeding estimators, either of the offsp...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2005.02682.x

    authors: Overall AD,Byrne KA,Pilkington JG,Pemberton JM

    更新日期:2005-10-01 00:00:00

  • Postglacial northward expansion and genetic differentiation between migratory and sedentary populations of the broad-tailed hummingbird (Selasphorus platycercus).

    abstract::Unlike other migratory hummingbirds in North America, the broad-tailed hummingbird (Selasphorus platycercus) exhibits both long-distance migratory behaviour in the USA and sedentary behaviour in Mexico and Guatemala. We examined the evolution of migration linked to its northward expansion using a multiperspective appr...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12614

    authors: Malpica A,Ornelas JF

    更新日期:2014-02-01 00:00:00

  • Multiple dispersal vectors drive range expansion in an invasive marine species.

    abstract::The establishment and subsequent spread of invasive species is widely recognized as one of the most threatening processes contributing to global biodiversity loss. This is especially true for marine and estuarine ecosystems, which have experienced significant increases in the number of invasive species with the increa...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13817

    authors: Richardson MF,Sherman CD,Lee RS,Bott NJ,Hirst AJ

    更新日期:2016-10-01 00:00:00

  • Mitochondrial pseudo-control region in old world eagles (genus Aquila).

    abstract::The mitochondrial pseudo-control region was analysed in five species of Aquila eagles. Indels caused great length differences in the nonrepetitive part of the region, whereas tandem repeat units were highly conserved among the genus. In a reconstructed phylogenetic tree, the clade formed by A. clanga and A. pomarina s...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2002.01578.x

    authors: Väli U

    更新日期:2002-10-01 00:00:00

  • Rates of gut microbiome divergence in mammals.

    abstract::The variation and taxonomic diversity among mammalian gut microbiomes raises several questions about the factors that contribute to the rates and patterns of change in these microbial communities. By comparing the microbiome compositions of 112 species representing 14 mammalian orders, we assessed how host and ecologi...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14473

    authors: Nishida AH,Ochman H

    更新日期:2018-04-01 00:00:00

  • Integrating genomic and phenotypic data to evaluate alternative phylogenetic and species delimitation hypotheses in a recent evolutionary radiation of grasshoppers.

    abstract::Although resolving phylogenetic relationships and establishing species limits are primary goals of systematics, these tasks remain challenging at both conceptual and analytical levels. Here, we integrated genomic and phenotypic data and employed a comprehensive suite of coalescent-based analyses to develop and evaluat...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14504

    authors: Noguerales V,Cordero PJ,Ortego J

    更新日期:2018-03-01 00:00:00

  • Insecticide resistance mediated by an exon skipping event.

    abstract::Many genes increase coding capacity by alternate exon usage. The gene encoding the insect nicotinic acetylcholine receptor (nAChR) α6 subunit, target of the bio-insecticide spinosad, is one example of this and expands protein diversity via alternative splicing of mutually exclusive exons. Here, we show that spinosad r...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13882

    authors: Berger M,Puinean AM,Randall E,Zimmer CT,Silva WM,Bielza P,Field LM,Hughes D,Mellor I,Hassani-Pak K,Siqueira HA,Williamson MS,Bass C

    更新日期:2016-11-01 00:00:00

  • Expression of a carotenoid-modifying gene and evolution of red coloration in weaverbirds (Ploceidae).

    abstract::Red carotenoid colours in birds are widely assumed to be sexually selected quality indicators, but this rests on a very incomplete understanding of genetic mechanisms and honesty-mediating costs. Recent progress was made by the implication of the gene CYP2J19 as an avian carotenoid ketolase, catalysing the synthesis o...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14451

    authors: Twyman H,Prager M,Mundy NI,Andersson S

    更新日期:2018-01-01 00:00:00

  • The effect of habitat fragmentation on the genetic structure of a top predator: loss of diversity and high differentiation among remnant populations of Atlantic Forest jaguars (Panthera onca).

    abstract::Habitat fragmentation may disrupt original patterns of gene flow and lead to drift-induced differentiation among local population units. Top predators such as the jaguar may be particularly susceptible to this effect, given their low population densities, leading to small effective sizes in local fragments. On the oth...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2010.04856.x

    authors: Haag T,Santos AS,Sana DA,Morato RG,Cullen L Jr,Crawshaw PG Jr,De Angelo C,Di Bitetti MS,Salzano FM,Eizirik E

    更新日期:2010-11-01 00:00:00

  • Extreme QTL mapping of germination speed in Arabidopsis thaliana.

    abstract::Seed germination is a key life history transition for annual plants and partly determines lifetime performance and fitness. Germination speed, the elapsed time for a nondormant seed to germinate, is a poorly understood trait important for plants' competitiveness and fitness in fluctuating environments. Germination spe...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13768

    authors: Yuan W,Flowers JM,Sahraie DJ,Ehrenreich IM,Purugganan MD

    更新日期:2016-09-01 00:00:00

  • Major histocompatibility complex heterozygosity enhances reproductive success.

    abstract::We investigated how heterozygosity at the major histocompatibility complex (MHC) affects fitness in wild-derived (F2) house mice (Mus musculus musculus). To compare and control for potential confounding effects from close inbreeding and genome-wide heterozygosity, we used mice that were systematically outbred. We asse...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2011.05009.x

    authors: Thoss M,Ilmonen P,Musolf K,Penn DJ

    更新日期:2011-04-01 00:00:00

  • Y chromosome haplotyping in Scandinavian wolves (Canis lupus) based on microsatellite markers.

    abstract::The analysis of mitochondrial DNA sequences has for a long time been the most extensively used genetic tool for phylogenetic, phylogeographic and population genetic studies. Since this approach only considers female lineages, it tends to give a biased picture of the population history. The use of protein polymorphisms...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2001.01326.x

    authors: Sundqvist AK,Ellegren H,Olivier M,Vilà C

    更新日期:2001-08-01 00:00:00

  • Assessment of genetic structure within and among Bulgarian populations of the common ash (Fraxinus excelsior L.).

    abstract::We analysed genetic variation within and between populations of the common ash from Bulgaria in order to extract biological information useful in the context of conservation management of eastern European genetic resources of noble hardwood species. A total of 321 trees from three regions of Bulgaria were typed at six...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2001.01300.x

    authors: Heuertz M,Hausman JF,Tsvetkov I,Frascaria-Lacoste N,Vekemans X

    更新日期:2001-07-01 00:00:00

  • Case studies and mathematical models of ecological speciation. 3: Ecotype formation in a Swedish snail.

    abstract::Formation of partially reproductively isolated ecotypes in the rough periwinkle, Littorina saxatilis, may be a case of incipient nonallopatric ecological speciation. To better understand the dynamics of ecotype formation, its timescale, driving forces and evolutionary consequences, we developed a spatially explicit, i...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2009.04320.x

    authors: Sadedin S,Hollander J,Panova M,Johannesson K,Gavrilets S

    更新日期:2009-10-01 00:00:00

  • Plants and tortoises: mutations in the Arabidopsis jasmonate pathway increase feeding in a vertebrate herbivore.

    abstract::Photosynthetic tissues, the major food source of many invertebrates and vertebrates, are well defended. Many defence traits in leaves are controlled via the jasmonate signalling pathway in which jasmonate acts as a hormone by binding to a receptor to activate responses that lead to increased resistance to invertebrate...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2012.05533.x

    authors: Mafli A,Goudet J,Farmer EE

    更新日期:2012-05-01 00:00:00

  • Assessing niche partitioning of co-occurring sibling bat species by DNA metabarcoding.

    abstract::Niche partitioning through foraging is a mechanism likely involved in facilitating the coexistence of ecologically similar and co-occurring animal species by separating their use of resources. Yet, this mechanism is not well understood in flying insectivorous animals. This is particularly true of bats, where many ecol...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14508

    authors: Arrizabalaga-Escudero A,Clare EL,Salsamendi E,Alberdi A,Garin I,Aihartza J,Goiti U

    更新日期:2018-03-01 00:00:00

  • Environmentally induced phenotypes and DNA methylation: how to deal with unpredictable conditions until the next generation and after.

    abstract::Organisms often respond to environmental changes by producing alternative phenotypes. Epigenetic processes such as DNA methylation may contribute to environmentally induced phenotypic variation by modifying gene expression. Changes in DNA methylation, unlike DNA mutations, can be influenced by the environment; they ar...

    journal_title:Molecular ecology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1365-294X.2010.04580.x

    authors: Angers B,Castonguay E,Massicotte R

    更新日期:2010-04-01 00:00:00

  • Habitat fragmentation in coastal southern California disrupts genetic connectivity in the cactus wren (Campylorhynchus brunneicapillus).

    abstract::Achieving long-term persistence of species in urbanized landscapes requires characterizing population genetic structure to understand and manage the effects of anthropogenic disturbance on connectivity. Urbanization over the past century in coastal southern California has caused both precipitous loss of coastal sage s...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13176

    authors: Barr KR,Kus BE,Preston KL,Howell S,Perkins E,Vandergast AG

    更新日期:2015-05-01 00:00:00

  • Seascape genomics provides evidence for thermal adaptation and current-mediated population structure in American lobster (Homarus americanus).

    abstract::Investigating how environmental features shape the genetic structure of populations is crucial for understanding how they are potentially adapted to their habitats, as well as for sound management. In this study, we assessed the relative importance of spatial distribution, ocean currents and sea surface temperature (S...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13811

    authors: Benestan L,Quinn BK,Maaroufi H,Laporte M,Clark FK,Greenwood SJ,Rochette R,Bernatchez L

    更新日期:2016-10-01 00:00:00

  • High variation and very low differentiation in wide ranging plains zebra (Equus quagga): insights from mtDNA and microsatellites.

    abstract::Patterns of genetic differentiation in the plains zebra (Equus quagga) were analysed using mitochondrial DNA control region variation and seven microsatellites. The six morphologically defined subspecies of plains zebra lacked the population genetic structure indicative of distinct evolutionary units. Both marker sets...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2008.03781.x

    authors: Lorenzen ED,Arctander P,Siegismund HR

    更新日期:2008-06-01 00:00:00

  • Dual RNA-sequencing analyses of a coral and its native symbiont during the establishment of symbiosis.

    abstract::Despite the ecological significance of the mutualistic relationship between Symbiodiniaceae and reef-building corals, the molecular interactions during establishment of this relationship are not well understood. This is particularly true of the transcriptional changes that occur in the symbiont. In the current study, ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.15612

    authors: Mohamed AR,Andrade N,Moya A,Chan CX,Negri AP,Bourne DG,Ying H,Ball EE,Miller DJ

    更新日期:2020-10-01 00:00:00