Geographic Structure (geographic + structure)

Distribution by Scientific Domains


Selected Abstracts


Phylogeography of the world's tallest angiosperm, Eucalyptus regnans: evidence for multiple isolated Quaternary refugia

JOURNAL OF BIOGEOGRAPHY, Issue 1 2010
Paul G. Nevill
Abstract Aim, There is a need for more Southern Hemisphere phylogeography studies, particularly in Australia, where, unlike much of Europe and North America, ice sheet cover was not extensive during the Last Glacial Maximum (LGM). This study examines the phylogeography of the south-east Australian montane tree species Eucalyptus regnans. The work aimed to identify any major evolutionary divergences or disjunctions across the species' range and to examine genetic signatures of past range contraction and expansion events. Location, South-eastern mainland Australia and the large island of Tasmania. Methods, We determined the chloroplast DNA haplotypes of 410 E. regnans individuals (41 locations) based on five chloroplast microsatellites. Genetic structure was examined using analysis of molecular variance (AMOVA), and a statistical parsimony tree was constructed showing the number of nucleotide differences between haplotypes. Geographic structure in population genetic diversity was examined with the calculation of diversity parameters for the mainland and Tasmania, and for 10 regions. Regional analysis was conducted to test hypotheses that some areas within the species' current distribution were refugia during the LGM and that other areas have been recolonized by E. regnans since the LGM. Results, Among the 410 E. regnans individuals analysed, 31 haplotypes were identified. The statistical parsimony tree shows that haplotypes divided into two distinct groups corresponding to mainland Australia and Tasmania. The distribution of haplotypes across the range of E. regnans shows strong geographic patterns, with many populations and even certain regions in which a particular haplotype is fixed. Many locations had unique haplotypes, particularly those in East Gippsland in south-eastern mainland Australia, north-eastern Tasmania and south-eastern Tasmania. Higher haplotype diversity was found in putative refugia, and lower haplotype diversity in areas likely to have been recolonized since the LGM. Main conclusions, The data are consistent with the long-term persistence of E. regnans in many regions and the recent recolonization of other regions, such as the Central Highlands of south-eastern mainland Australia. This suggests that, in spite of the narrow ecological tolerances of the species and the harsh environmental conditions during the LGM, E. regnans was able to persist locally or contracted to many near-coastal refugia, maintaining a diverse genetic structure. [source]


Spatial Autocorrelation Analysis and the Identification of Operational Units for Conservation in Continuous Populations

CONSERVATION BIOLOGY, Issue 4 2002
José Alexandre Felizola Diniz-Filho
We show that spatial autocorrelation analysis, applied to phenotypic or molecular data, can be used to describe the geographic structure and therefore can help define optimum strategies for conserving genetic variability within species. We propose that the intercept of a spatial correlogram can be an indication of the minimum distance between samples that can conserve and assess genetic diversity with maximum efficiency at lower costs. This parameter can be used both to define units and to establish sampling strategies for conservation programs. We illustrate the utility of this approach by autocorrelation analyses applied to three data sets: isozyme variability among Eugenia dysenterica populations in Brazilian Cerrado and within populations of Adenophora glandiflora in Korea, and microsatellite variation among Ursus arctos populations in North America. Our results suggest that the intercept of spatial correlograms is a useful parameter for establishing operational units for intraspecific conservation in continuous populations, based on overall genetic or phenotypic variability, by defining the minimum geographic distance at which samples are independent. Resumen: A pesar de los avances recientes en la identificación de la estructura genética poblacional mediante la tecnología de marcadores moleculares, la definición de las unidades intraespecíficas para la conservación es aún problemática. Esto sucede particularmente cuando la variación genética y fenotípica se encuentra distribuida de manera continua en un espacio geográfico. Demostramos que el análisis de autocorrelación espacial, aplicado a los datos fenotípicos o moleculares puede ser usado para describir la estructura geográfica y, por lo tanto, puede ayudar a definir estrategias óptimas para la conservación de la variabilidad genética en las especies. Proponemos que el intercepto de un correlograma espacial puede ser un indicador de la distancia mínima entre muestras que pueden conservar y evaluar la diversidad genética con mayor eficiencia a un costo más bajo. Este parámetro puede ser usado tanto para definir unidades como para establecer estrategias de muestreo para los programas de conservación. Ejemplificamos la utilidad de este método mediante la aplicación de análisis de autocorrelación a tres grupos de datos: variabilidad de isozomas entre poblaciones de Adenophora dysenterica en el cerrado brasileño, dentro de poblaciones de Adenophora glandiflora en Korea y variación microsatélite entre poblaciones de Ursus arctos en América del Norte. Nuestros resultados sugieren que el intercepto de los correlogramas espaciales son un parámetro útil que puede establecer unidades operacionales para conservación intraespecífica en poblaciones continuas, en base a la variabilidad general genética o fenótipica, al definir la distancia geográfica mínima a la cual las muestras son independientes. [source]


Is natural selection a plausible explanation for the distribution of Idh- 1 alleles in the cricket Allonemobius socius?

ECOLOGICAL ENTOMOLOGY, Issue 1 2006
Diana L. Huestis
Abstract., 1.,Allozyme alleles in natural populations have been proposed as either neutral markers of genetic diversity or the product of natural selection on enzyme function, as amino acid substitutions that change electrophoretic mobility may also alter enzyme performance. To address these possibilities, researchers have used both correlative analyses and empirical studies. 2.,Here, geographically structured variation of the enzyme isocitrate dehydrogenase (Idh- 1) in the striped ground cricket Allonemobius socius Scudder (Orthoptera: Gryllidae) is examined. The distributions of Idh- 1 alleles appear to be related to environmental gradients, as allele frequencies showed significant relationships with mean annual temperature and precipitation. Specifically, the slowest mobility allele was more frequent at colder temperatures, while the converse occurred for the fastest mobility allele. 3.,An exploratory experiment was performed to examine fitness effects of possessing different Idh- 1 alleles at two temperatures to test the hypothesis that the geographic structure of this locus may reflect environmental adaptation. Results showed that a significant interaction between temperature and Idh- 1 genotype affected the number of eggs laid, with success of homozygous individuals matching environmental expectations. 4.,The above results show that (1) variation in the frequency of Idh- 1 alleles is significantly related to environmental gradients in the eastern U.S.A. and (2) alternative alleles of Idh- 1 appear to influence the egg-laying ability of individuals differently depending on environmental temperature. Together, these results suggest that natural selection is a plausible mechanism underlying the distribution of Idh- 1 alleles in this species, although more detailed studies are needed. [source]


Microgeographic population structure of brook charr: a comparison of microsatellite and mark-recapture data

JOURNAL OF FISH BIOLOGY, Issue 3 2003
B. K. Adams
Polymorphism at five microsatellite genetic markers (genotyped n = 496) and mark-recapture tagging data (tagged n = 9813) were used to define the population structure of brook charr, Salvelinus fontinalis from the Indian Bay watershed, Newfoundland, Canada. Despite the absence of physical barriers to migration among lakes, both genetic and tagging data suggest that brook charr in each lake represent reproductively isolated populations. Exact tests comparing allele frequencies, , (global value = 0·063), Rst (global value = 0·052), individual assignment tests, and Nei's genetic distance provided congruent estimates of population subdivision in agreement with the tagging data (only 2·2% of recaptures were lake-to-lake). The genetic structure of the brook charr populations corresponded with the geographic structure of the drainage basin on a qualitative level, although linear distance over water was not significantly correlated with the tagging data or the genetic distance measures. The agreement between the tagging and the genetic data suggest that microsatellite markers can be useful tools for defining real biological units. The results also suggest that brook charr exhibit microgeographic population structure at the watershed scale, and that this is the scale at which conservation and management of this salmonid might best be implemented. [source]


A phylogenetic framework for wing pattern evolution in the mimetic Mocker Swallowtail Papilio dardanus

MOLECULAR ECOLOGY, Issue 18 2009
REBECCA CLARK
Abstract The Batesian mimetic swallowtail butterfly Papilio dardanus exhibits numerous distinct wing colour morphs whose evolutionary origins require large phenotypic shifts. A phylogenetic framework to study the history of these morphs was established by DNA sequencing of representative subspecies from sub-Saharan Africa and Indian Ocean islands. Two mitochondrial genes and the nuclear internal transcribed spacer marker revealed deeply separated eastern and western African mainland lineages, plus one lineage each on Madagascar and Grande Comore. These markers showed very little polymorphism within lineages. In contrast, markers genetically linked to the mimicry locus H, including the transcription factor invected and two adjacent amplified fragment length polymorphisms-derived sequences, showed high nucleotide diversity but were not geographically structured. Variation in the unlinked wingless gene showed a similar pattern, rejecting the hypothesis that high level of variation in the H region is due to balancing selection exerted by the phenotypes. The separation from a common ancestor with Papilio phorcas estimated at 2.9 Ma coincides with the origin of a mimicry model, Danaus chrysippus. However, the model reached Africa only at the time of the internal splits of P. dardanus mtDNA groups, here estimated at 0.55,0.94 Ma. The nuclear genome shows less geographic structure and may not track recent population differentiation, suggesting that widespread mimicry morphs have arisen early in the evolution of the P. dardanus lineage, although after the male,female dimorphism which is ancestral. The current wide distribution of P. dardanus and population subdivision evident from mtDNA may have been achieved only with the spread of the models across Africa. [source]


Consistent geographic structure among multiple nuclear sequences and cpDNA polymorphisms of Cardamine nipponica Franch. et Savat. (Brassicaceae)

MOLECULAR ECOLOGY, Issue 13 2008
HAJIME IKEDA
Abstract Molecular phylogeography has inferred the history of differentiation between regions and/or among populations following the Pleistocene climatic oscillations, mostly based on the genetic structure of organelle DNA. However, such genetic structure only reflects the history of a single gene, and studies based on single-copy genes of nuclear DNA (nDNA) are required for phylogeography, although their efficiency remains unclear. To examine the utility of nDNA loci, the genetic structures of three genes from Cardamine nipponica, which is closely related to the model species Arabidopsis thaliana, were elucidated: the nDNA genes DET1, PHYA, PHYE, as well as chloroplast DNA (cpDNA). In 279 individuals collected from throughout the range of the species, strong genetic differentiation between northern and central Japan was found for all loci. This result suggested that populations in central Japan experienced a different history from those in northern Japan during the Pleistocene climatic oscillations. In addition, the evidence of refugia at the edges of the distribution, where the genetic structure was less influenced by colonization following range expansion, was shown for several loci. The specific genetic structure within the southernmost populations of northern Japan suggested that this region was also isolated during range expansion. Hence, the consistent history among loci and a more detailed history from several loci indicated that cpDNA can represent the history of vicariance and demonstrated the efficiency of single-copy nuclear genes in phylogeography. [source]


Phylogeography of the longhorn cactus beetle Moneilema appressum LeConte (Coleoptera: Cerambycidae): was the differentiation of the Madrean sky islands driven by Pleistocene climate changes?

MOLECULAR ECOLOGY, Issue 10 2005
CHRISTOPHER IRWIN SMITH
Abstract Although it has been suggested that Pleistocene climate changes drove population differentiation and speciation in many groups of organisms, population genetic evidence in support of this scenario has been ambiguous, and it has often been difficult to distinguish putative vicariance from simple isolation by distance. The sky island communities of the American Southwest present an ideal system in which to compare late Pleistocene range fragmentations documented by palaeoenvironmental studies with population genetic data from organisms within these communities. In order to elucidate the impact of Pleistocene climate fluctuations on these environments, biogeographic patterns in the flightless longhorn cactus beetle, Moneilema appressum were examined using mitochondrial DNA sequence data. Gene tree relationships between haplotypes were inferred using parsimony, maximum-likelihood, and Bayesian analysis. Nested clade analysis, Mantel tests, and coalescent modelling were employed to examine alternative biogeographic scenarios, and to test the hypothesis that Pleistocene climate changes drove population differentiation in this species. The program mdiv was used to estimate migration and divergence times between populations, and to measure the statistical support for isolation over ongoing migration. These analyses showed significant geographic structure in genetic relationships, and implicated topography as a key determinant of isolation. However, although the coalescent analyses suggested that a history of past habitat fragmentation underlies the observed geographic patterns, the nested clade analysis indicated that the pattern was consistent with isolation by distance. Estimated divergence times indicated that range fragmentation in M. appressum is considerably older than the end of the most recent glacial, but coincided with earlier interglacial warming events and with documented range expansions in other, desert-dwelling species of Moneilema. [source]


USING NETWORK ANALYSIS TO CHARACTERIZE FOREST STRUCTURE

NATURAL RESOURCE MODELING, Issue 2 2008
MICHAEL M. FULLER
Abstract Network analysis quantifies different structural properties of systems of interrelated parts using a single analytical framework. Many ecological phenomena have network-like properties, such as the trophic relationships of food webs, geographic structure of metapopulations, and species interactions in communities. Therefore, our ability to understand and manage such systems may benefit from the use of network-analysis techniques. But network analysis has not been applied extensively to ecological problems, and its suitability for ecological studies is uncertain. Here, we investigate the ability of network analysis to detect spatial patterns of species association in a tropical forest. We use three common graph-theoretic measures of network structure to quantify the effect of understory tree size on the spatial association of understory species with trees in the canopy: the node degree distribution (NDD), characteristic path length (CPL), and clustering coefficient (CC). We compute the NDD, CPL, and CC for each of seven size classes of understory trees. For significance testing, we compare the observed values to frequency distributions of each statistic computed from randomized data. We find that the ability of network analysis to distinguish observed patterns from those representing randomized data strongly depends on which aspects of structure are investigated. Analysis of NDD finds no significant difference between random and observed networks. However, analysis of CPL and CC detected nonrandom patterns in three and one of the seven size classes, respectively. Network analysis is a very flexible approach that holds promise for ecological studies, but more research is needed to better understand its advantages and limitations. [source]


A fine map for maternal lineage analysis by mitochondrial hypervariable region in 12 Chinese goat breeds

ANIMAL SCIENCE JOURNAL, Issue 4 2009
Yan-Ping WU
ABSTRACT As the fast pace of genomic research continues to identify mitochondrial lineages in animals, it has become apparent that many independent studies are needed to support a robust phylogenetic inference. The aim of this study was thus to further characterize the maternal lineage, proposed to originate in southwestern region of China, using a wider survey of diverse goat breeds in China. To this end, we sequenced the mitochondrial hypervariable region 1 (HVR1) of the mtDNA control region in 145 goats of 12 Chinese breeds. Phylogenetic analysis revealed that Chinese goats were classified into four distinct lineages (A, B, C and D) as previously reported. A Mantel test and the analysis of Analysis of Molecular Variance (ANOVA) indicated that there was not an obvious geographic structure among Chinese goat breeds. Population expansion analysis based on mismatch distribution and Fu's Fs statistic indicate that two expansion events in Chinese goats occurred respectively at about 11 and 29 mutational time units ago, revealing two star-like subclades in lineage B corresponding to two population expansion events. Moreover, lineage B sequences were presented only in the breeds of southwestern or surrounding regions of China. Multiple lines of evidence from this study and previous studies indicate that for Chinese goats mtDNA lineage B originated from the southwestern region of China. [source]


Genetic variability of Austropotamobius italicus in the Marches region: implications for conservation

AQUATIC CONSERVATION: MARINE AND FRESHWATER ECOSYSTEMS, Issue 3 2010
Rosaria Cataudella
Abstract 1.Ten populations of Austropotamobius italicus from the Marches region (Central Italy), two populations from the Appennines of Calabria and Basilicata (Southern Italy) and four populations from Friuli Venezia Giulia region were sampled to elucidate the geographical pattern of genetic variability in relation to recent and historical factors. 2.A total of nine COI haplotypes belonging to three separate lineages have been characterized. Both lineage A (Northern Marches region) and C (Friuli Venezia Giulia region) were represented by one haplotype and were related to the Istria 1 peninsula and SouthAlps/Western Balkans lineages respectively. The lineage B included seven haplotypes belonging to the Appenines lineage. 3.Two hypotheses on the origin of individuals belonging to the Istrian lineage in Marches are discussed: (i) a natural colonization from the Istria peninsula refugia by migrating westwards across the bridge between the Istria peninsula and Italy, (ii) an anthropogenic origin. Based on 16S rRNA sequences, the taxonomic status of lineage B and C, defined from COI mtDNA markers, belongs to A. i. meridionalis and that of lineage A belongs to A. i. carsicus. The existence of a complex geographic structure between Marches populations (,st=0.66) of A. i. meridionalis should be further considered in conservation management. Copyright © 2010 John Wiley & Sons, Ltd. [source]


Geographic variations of seasonality and coexistence in communities: The role of diversity and climate

AUSTRAL ECOLOGY, Issue 7 2009
ANDRÉS CANAVERO
Abstract One of the most conspicuous and widely analyzed patterns in ecology is the latitudinal gradient in species richness. Over the 200 years since its recognition, several hypotheses have accumulated in order to account for spatial variations in diversity. Geographic variations in seasonality have been repeatedly proposed as a determinant of community richness. However, the geographic structure of community seasonality has not yet been analyzed. In the present work we evaluated three hypotheses that account for variations in the temporal structuring of communities: first, environmental seasonality determines community seasonality; second, community richness determines its degree of structuring; and third, the presence of an increase in species segregation with latitude, reflected in a pattern of species negative co-occurrence. The hypotheses were evaluated using path analysis on 29 amphibian communities from South America, connecting latitude, environmental conditions, diversity, seasonality, and coexistence structure , nestedness and negative co-occurrence , within communities. Latitude positively affects community seasonality through an increase in temperature seasonality, but a weak negative direct effect suggests that other variables not considered in the model , such as the strength of biotic interactions , could also be involved. Both latitude and diversity (directly and indirectly) determine an increase in negative co-occurrence and nestedness. This suggests that groups of species that are mutually nested in time are internally segregated. Further, the strength of this structure is determined by community diversity and latitude. Temporal structuring of a community is associated with latitude and diversity, pointing to the existence of a systematic change in community organization far beyond, but probably interrelated, with the recognized latitudinal trend in richness. The available information and analysis supported the three hypotheses evaluated. [source]


The geographic structure of morphological variation in eight species of fiddler crabs (Ocypodidae: genus Uca) from the eastern United States and Mexico

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 1 2010
MELANIE J. HOPKINS
Species with larger geographic distributions are more likely to encounter a greater variety of environmental conditions and barriers to gene flow than geographically-restricted species. Thus, even closely-related species with similar life-history strategies might vary in degree and geographic structure of variation if they differ in geographic range size. In the present study, we investigated this using samples collected across the geographic ranges of eight species of fiddler crabs (Crustacea: Uca) from the Atlantic and Gulf coasts of North America. Morphological variation in the carapace was assessed using geometric morphometric analysis of 945 specimens. Although the eight Uca species exhibit different degrees of intraspecific variation, widespread species do not necessarily exhibit more intraspecific or geographic variation in carapace morphology. Instead, species with more intraspecific variation show stronger morphological divergence among populations. This morphological divergence is partly a result of allometric growth coupled with differences in maximum body size among populations. On average, 10% of total within-species variation is attributable to allometry. Possible drivers of the remaining morphological differences among populations include gene flow mediated by ocean currents and plastic responses to various environmental stimuli, with isolation-by-distance playing a less important role. The results obtained indicate that morphological divergence among populations can occur over shorter distances than expected based on dispersal potential. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100, 248,270. [source]


How did an annual plant react to Pleistocene glaciations?

BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 1 2009
Postglacial history of Rhinanthus angustifolius in Europe
The impact of climate fluctuations during the Pleistocene on the geographic structure of genetic variation in plant populations is well documented, but there is a lack of studies of annual species at the European scale. The present study aimed to infer the history of the widespread European annual Rhinanthus angustifolius C. C. Gmelin (Orobanchaceae). We explored variation in chloroplast DNA (cpDNA) sequences and amplified fragment length polymorphism (AFLP) in twenty-nine populations covering the entire distribution area of the species. Five AFLP groups were identified, suggesting at least two glacial refugial areas: one area in southwestern Europe and one large eastern area in the Balkan/Caucasus. Recolonization of previously glaciated areas mainly took place from the east of Europe. Despite the difference in life-history traits, the patterns found for the annual R. angustifolius show similarities with those of perennial species in terms of genetic diversity and geographic organization of genetic variation. Although organelle markers have typically been preferred in phylogeographic studies, the cpDNA variation in R. angustifolius did not show any clear geographic structure. The absence of geographic structure in the cpDNA variation may reflect persistence of ancestral polymorphisms or hybridization and introgression with closely-related species. © 2009 The Linnean Society of London, Biological Journal of the Linnean Society, 2009, 98, 1,13. [source]


Patterns in marine hydrozoan richness and biogeography around southern Africa: implications of life cycle strategy

JOURNAL OF BIOGEOGRAPHY, Issue 4 2010
Mark J. Gibbons
Abstract Aim, To examine patterns of marine hydrozoan richness around southern Africa and to test the hypothesis that patterns of biogeography become weaker with increasing dispersal ability. Location, The coastline of southern Africa from 21° S, 14° E to 28° S, 33° E, extending from the intertidal zone seawards a distance of 200 nautical miles. Methods, Published and unpublished information on the distribution of marine Hydrozoa was entered as presence/absence data onto a gridded coastline of the region. A similarity matrix between the species composition of grid squares was constructed using the Bray,Curtis index and visualized using non-metric multidimensional scaling ordinations. Separate analyses were conducted, and compared, on the three major life cycle groupings: holoplanktic, meroplanktic and benthic. Results, Over 450 species of marine Hydrozoa have been reported from the region, and species richness increases eastwards, in a manner at odds with the distribution of sampling effort. There was a significant correlation between the geographic structures of the resemblance matrices generated for the three life cycle groupings. In other words, all three groups showed similar patterns of biogeography around the region, and these were broadly similar to those reported by others. However, there were differences between them that reflect the resolution at which the data were examined. At a level of 40% similarity, there was no biogeographic structure to the holoplanktic fauna, the meroplanktic taxa were simply sub-divided into cool- and warm-temperate/subtropical elements, and in the case of benthic taxa, the cool-water fauna was further split into a southern Namaqua and a depauperate northern Namib component. Even at a resolution of 70% similarity, the holopelagic taxa could be separated only into cool-temperate and warm-temperate/subtropical faunas. Main conclusions, Holoplanktic taxa show comparatively less biogeographic structure than meroplanktic taxa, which in turn show less clearly defined biogeographic structure than benthic taxa. It is suggested that this is related to the interaction between oceanography and dispersive-stage duration. The role that the Agulhas Current plays in influencing the Benguela Current fauna is highlighted. This study has implications for conservation planning exercises based on protecting representative biotopes in different biogeographic regions. [source]