Statistical methods in spatial genetics

Molecular Ecology, Год журнала: 2009, Номер 18(23), С. 4734 - 4756

Опубликована: Окт. 29, 2009

Abstract The joint analysis of spatial and genetic data is rapidly becoming the norm in population genetics. More more studies explicitly describe quantify organization variation try to relate it underlying ecological processes. As has become increasingly difficult keep abreast with latest methodological developments, we review statistical toolbox available analyse a spatially explicit framework. We mostly focus on concepts but also discuss practical aspects analytical methods, highlighting not only potential various approaches pitfalls.

Язык: Английский

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Taking the chaos out of genetic patchiness: seascape genetics reveals ecological and oceanographic drivers of genetic patterns in three temperate reef species

Molecular Ecology, Год журнала: 2010, Номер 19(17), С. 3708 - 3726

Опубликована: Авг. 13, 2010

Abstract Marine species frequently show weak and/or complex genetic structuring that is commonly dismissed as ‘chaotic’ patchiness and ecologically uninformative. Here, using three datasets individually feature chaotic patchiness, we demonstrate combining inferences across incorporating environmental data can greatly improve the predictive value of marine population genetics studies on small spatial scales. Significant correlations in patterns microsatellite markers among species, kelp bass Paralabrax clathratus , Kellet’s whelk Kelletia kelletii California spiny lobster Panulirus interruptus Southern Bight suggest slight differences diversity pairwise differentiation sampling sites are not simply noise or but meaningful. To test whether interspecies potentially result from shared drivers patterns, assembled bed size, sea surface temperature estimates site‐to‐site migration probability derived a high resolution multi‐year ocean circulation model. These served predictor variables linear models mixed were assessed with information–theoretic model selection. Kelp was most informative for all also played minor role bass. The single management strategy may effectively protect multiple species. This study demonstrates power ecological to shed light highlights need future focus mechanistic understanding links between oceanography, ecology structure.

Язык: Английский

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Limits to gene flow in a cosmopolitan marine planktonic diatom

Proceedings of the National Academy of Sciences, Год журнала: 2010, Номер 107(29), С. 12952 - 12957

Опубликована: Июль 6, 2010

The role of geographic isolation in marine microbial speciation is hotly debated because the high dispersal potential and large population sizes planktonic microorganisms apparent lack strong barriers open sea. Here, we show that gene flow between distant populations globally distributed, bloom-forming diatom species Pseudo-nitzschia pungens (clade I) limited follows a by distance pattern. Furthermore, phylogenetic analysis implies under appropriate environmental circumstances, like pronounced climatic changes Pleistocene, structuring may lead to hence play an important diversification microorganisms. A better understanding factors control thus essential reveal allopatric

Язык: Английский

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Ocean's eleven: a critical evaluation of the role of population, evolutionary and molecular genetics in the management of wild fisheries

Fish and Fisheries, Год журнала: 2013, Номер 16(1), С. 125 - 159

Опубликована: Авг. 27, 2013

Abstract Significant changes have occurred in the well‐established partnership between fisheries managers and geneticists over last 50 years. It is therefore timely to review recalibrate ways which genetic technologies can assist fishing industry maintain productive sustainable harvests. Our objective contribute mutual understanding of all stakeholders genetics–management partnership. Genetic that are relevant management grouped into eleven themes, described plain language for a non‐specialist audience. The role information plays explained, along with an assessment challenges barriers may be preventing uptake process. compelling conclusion genetics offers diverse collection versatile useful tools informing about issues biological basis. Presently, mainstream use focuses on narrow set issues, but diversity novel they address indicates will grow, particularly as communication end‐users improves.

Язык: Английский

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Plio-Pleistocene sea level and temperature fluctuations in the northwestern Pacific promoted speciation in the globally-distributed flathead mullet Mugil cephalus

BMC Evolutionary Biology, Год журнала: 2011, Номер 11(1)

Опубликована: Март 31, 2011

The study of speciation in the marine realm is challenging because apparent absence physical barriers to dispersal, which are one main drivers genetic diversity. Although phylogeographic studies using mitochondrial DNA (mtDNA) information often reveal significant heterogeneity within species, evolutionary significance such diversity difficult interpret with these markers. In northwestern (NW) Pacific, several have emphasised potential importance sea-level regression during most recent glaciations as a driver species. These failed, however, determine whether period isolation was long enough for divergence attain speciation. Among cosmopolitan estuarine-dependent fish Mugil cephalus represents an interesting case study. Several divergent allopatric mtDNA lineages been described this species worldwide, and three occur sympatry NW Pacific.Ten nuclear microsatellites were surveyed estimate level role fluctuation evolution Pacific M. cephalus. Three cryptic identified region (NWP1, 2 3) assignment test on microsatellite data. Each corresponds COI phylogenetic tree. NWP3 distribution range that suggests tropical affinities, while NWP1, northward from Taiwan Russia, temperate NWP2 distributed along warm Kuroshio Current. NWP1 dates back Pleistocene epoch probably separation Japan China Seas when sea levels dropped. Despite their subsequent expansion since glaciation, no gene flow observed among lineages, indicating has achieved.This successfully inhabiting combination current architecture complex result interaction contemporary processes historical events. Sea temperature fluctuations Plio-Pleistocene epochs played major creating found today.

Язык: Английский

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Effects of geography and life history traits on genetic differentiation in benthic marine fishes

Ecography, Год журнала: 2011, Номер 34(4), С. 566 - 575

Опубликована: Янв. 19, 2011

Dispersal of planktonic larvae can create connections between geographically separated adult populations benthic marine animals. How geographic context and life history traits affect these is largely unresolved. We use data from genetic studies (species level FST) teleost fishes combined with linear models to evaluate the importance transitions biogeographic regions, distance, egg type (benthic or pelagic eggs), larval duration (PLD), marker as factors affecting differentiation within species. find that regions are significant consistent contributors population structure, whereas PLD does not significantly explain structure. Total study distance frequently contributes interaction terms, particularly in association markers, whereby FST increases for employing mtDNA sequences, but allozyme microsatellite show no increase distance. These results highlight spatial (biogeography distance) imply there inherent differences dispersal ability associated type. also over which maximum pairwise occurs (relative total highly variable be observed at any scale. This result stochastic processes inflating and/or insufficient consideration biological relevant connectivity.

Язык: Английский

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Outlier SNP markers reveal fine‐scale genetic structuring across European hake populations (Merluccius merluccius)

Molecular Ecology, Год журнала: 2013, Номер 23(1), С. 118 - 135

Опубликована: Окт. 18, 2013

Abstract Shallow population structure is generally reported for most marine fish and explained as a consequence of high dispersal, connectivity large size. Targeted gene analyses more recently genome‐wide studies have challenged such view, suggesting that adaptive divergence might occur even when neutral markers provide genetic homogeneity across populations. Here, 381 SNP s located in transcribed regions were used to assess large‐ fine‐scale the European hake ( M erluccius merluccius ), widely distributed demersal species priority fishery. Analysis 850 individuals from 19 locations entire distribution range showed evidence several outlier loci, with significantly higher resolving power. While 299 putatively confirmed break between basins F CT = 0.016) weak differentiation within basins, loci revealed dramatic Atlantic Mediterranean populations 0.275–0.705) significant structure. Outlier separated North Sea Northern Portugal all other samples strong among Western, Central Eastern geographical samples. Significant correlation allele frequencies at seawater surface temperature salinity supported hypothesis be adapted local conditions. Such highlights importance integrating information evolutionary patterns towards better assessment diversity. Accordingly, generated data could tackling illegal practices fishing commercialization well develop explicit spatial models defining management units stock boundaries.

Язык: Английский

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A Unifying Model for the Analysis of Phenotypic, Genetic, and Geographic Data

Systematic Biology, Год журнала: 2012, Номер 61(6), С. 897 - 911

Опубликована: Март 6, 2012

Recognition of evolutionary units (species, populations) requires integrating several kinds data, such as genetic or phenotypic markers spatial information in order to get a comprehensive view concerning the differentiation units. We propose statistical model with double original advantage: (i) it incorporates about distribution samples, aim increase inference power and relate more explicitly observed patterns geography (ii) allows one analyze data within unified framework, thus opening way robust comparisons between possibly combined analyses. show from simulated well real that our method estimates parameters accurately is an improvement over alternative approaches many situations. The this exemplified using intricate case inter- intraspecies based on set georeferenced morphometric obtained Myodes voles Sweden. A computer program made available extension R package Geneland.

Язык: Английский

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Impact of life history traits on gene flow: A multispecies systematic review across oceanographic barriers in the Mediterranean Sea

PLoS ONE, Год журнала: 2017, Номер 12(5), С. e0176419 - e0176419

Опубликована: Май 10, 2017

Background Marine species can demonstrate strong genetic differentiation and population structure despite the hypothesis of open seas high connectivity. Some suggested drivers causing breaks are oceanographic barriers species' biology. We assessed relevance seven major fronts on connectivity while considering their dispersal capacity life strategy. Methods systematically reviewed scientific articles reporting along Mediterranean Sea across Atlantic-Mediterranean transition. retained those at least one sampling locality each side an front, two localities with no-front between them to correctly assess effect front. To estimate impact history characteristics affecting we considered planktonic larval duration (PLD) adult Results Oceanographic in seem reduce gene flow globally; however, this is not homogeneous traits species. The reduces highly mobile PLD larger than 2–4 weeks. Benthic sessile and/or short (< 2 weeks) have more significant higher motility; occurs independently presence a Conclusion Genetic important for populations recover from anthropogenic or natural impacts. show that low mobility, mostly habitat-formers, but reduction mediated by therefore, importance these species, emphasize vulnerability ecosystems necessity protection strategies based whole ecosystem.

Язык: Английский

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Effects of climate change on Mediterranean marine ecosystems: the case of the Catalan Sea

Climate Research, Год журнала: 2011, Номер 50(1), С. 1 - 29

Опубликована: Авг. 23, 2011

CR Climate Research Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout JournalEditorsSpecials 50:1-29 (2011) - DOI: https://doi.org/10.3354/cr01040 REVIEW Effects of climate change on Mediterranean marine ecosystems: case Catalan Sea Eva Calvo1,*, Rafel Simó1, Coma2, Marta Ribes1, Josep Pascual3, Anna Sabatés1, M. Gili1, Carles Pelejero1,4 1Institut de Ciències del Mar, CSIC, 08003 Barcelona, Spain 2Centre d'Estudis Avançats Blanes, 17300 3Estació Meteorològica l'Estartit, Girona, 4Institució Catalana Recerca i Estudis (ICREA), 08010 *Email: [email protected] ABSTRACT: The Sea, located between eastern Iberian coast and Balearic Islands, is a representative portion western basin provides valuable study for effects ecosystems. Global warming reflected regionally by rise in sea level over last century, an increase surface temperature around 1.1°C 35 yr, progressive salinisation intermediate deep waters strengthening stratification. A likely scenario what we can expect considerable decrease rainfall wind, warmer prolonged stratification period. ecosystems are evident in: (1) meridionalisation algal, invertebrate vertebrate species, which favours more thermophilic species temperate species; (2) mass mortality events sessile invertebrates coralligenous communities owing anomalous warm during period when food scarce; (3) increases smallest phytoplankton due prolongation water period; (4) proliferation gelatinous carnivores, including jellyfish, lack rainfall; (5) faster acidification seawater, compared with global oceans, accompanied capacity absorb atmospheric CO2. In order anticipate mitigate these predicted changes, recommend investing research observation, conserving areas that serve as indicators reducing other anthropogenic pressures such habitat destruction, overfishing or pollution, may act synergistically accelerate changes. KEY WORDS: · Marine Time series Full text pdf format NextCite this article as: Calvo E, Simó R, Coma Ribes M others Sea. Clim Res 50:1-29. Export citation Tweet linkedIn Cited Published Vol. 50, No. 1. Online publication date: December 01, 2011 Print ISSN: 0936-577X; 1616-1572 Copyright © Inter-Research.

Язык: Английский

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