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39 results for “expansion patterns”
Data from: Were bed bugs the first urban pest insect? Genome-wide patterns of bed bug demography mirror global human expansion
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Data from: A complex pattern of post-divergence expansion, contraction, introgression and asynchronous responses to Pleistocene climate changes in two Dipelta sister species from western China
The well-known vicariance and dispersal models dominate in understanding the allopatric pattern for related species and presume the simultaneous occurrence of speciation and biogeographic events. However, the formation of allopatry may postdate the species divergence. We examined this hypothesis using DNA sequence data from 3 chloroplast fragments and 5 nuclear loci of Dipelta floribunda and D. yunnanensis, two shrub species with the circum Sichuan Basin distribution, combining the climatic niche modeling approach. The best-fit model supported by the approximate Bayesian computation (ABC) analysis indicated that, D. floribunda and D. yunnanensis diverged during the mid-Pleistocene period, consistent with the largest glacial period in the Qinghai-Tibet Plateau (QTP). The historically inter-specific gene flow was identified but seemed to have ceased after the last interglacial period (LIG), when the range of D. floribunda moved northward from the south of the Sichuan Basin. Further, populations of D. floribunda had expanded obviously in the north of the Sichuan Basin after the last glacial maximum (LGM). Relatively, the range of D. yunnanensis expanded before the LGM, reduced during the post-LGM especially in the north of the Sichuan Basin, reflecting the asynchronous responses of related species to the contemporary climate changes. Our results suggested that complex topography should be considered in understanding the distributional patterns even for closely related species and their demographic responses.
Data from: Coyote diet in North America: geographic and ecological patterns during range expansion
<p>This dataset was used to review and analyze coyote diets across North America in "Coyote diets in North America: geographic and ecological patterns during range expansion" by Jensen et al. in Mammal Review. We only include data from studies that reported data as percent frequency of occurrence and from multiple seasons. We ultimately used 93 of the included studies (294 seasonal records) in our analyses.</p>
Liolophura species discrimination with geographical distribution patterns and their divergence and expansion history on the northwestern Pacific coast
<p>Please refer to Choi et al. (2021): "Choi, E.H., Yeo, M.Y., Kim, G. <i>et al.</i> <i>Liolophura</i> species discrimination with geographical distribution patterns and their divergence and expansion history on the northwestern Pacific coast. <i>Sci Rep</i> <b>11, </b>17602 (2021).</p> <p>The chiton <em>Liolophura japonica</em> (Lischke, 1873) is widely distributed in intertidal coastal areas of the northwestern Pacific. Here we show species discrimination of <em>L. japonica</em> into two species and one subspecies based on <em>COI</em> and <em>16S rRNA</em>;<em> L. koreana</em>, sp. nov. was mainly distributed at ca. 33°24'–38°32' N, <em>L. japonica</em> at ca. 33°24'–35°53' N, and <em>L. j. sinensis</em>, ssp. nov. at ca. 27°02'–28°00' N. These species were morphologically distinguishable by black spots on the tegmentum and the shape of spicules on the perinotum. In addition, we have discussed their molecular divergence times (3.37 mya for<em> L. koreana </em>and<em> L. japonica</em>, around the mid Pliocene warm period; 1.84 mya for <em>L. japonica </em>and <em>L. j. sinensis</em>), demographic expansion events following the last interglacial age, called the Eemian (129–116 kya), and augmentation of <em>COI</em> haplotype diversity during the late-middle to late Pleistocene. Their latitudinal geographical distribution gradients may be helpful for monitoring the migration of marine 38 invertebrates north, fostered by global warming in the northwestern Pacific.</p>
Patterns of host plant use do not explain mushroom body expansion in Heliconiini butterflies
<p>The selective pressures leading to the elaboration of downstream, integrative processing centres, such as the mammalian neocortex or insect mushroom bodies, are often unclear. In <em>Heliconius</em> butterflies, the mushroom bodies are three to four times larger than their Heliconiini, and the largest known in Lepidoptera. Heliconiini lay almost exclusively on <em>Passiflora</em>, which exhibit a remarkable diversity of leaf shape, and it has been suggested that the mushroom body expansion of <em>Heliconius</em> may have been driven by the cognitive demands of recognising and learning the leaf shapes of local host plants. We test this hypothesis using two complementary methods: i) phylogenetic comparative analyses to test whether variation in mushroom body size is associated with the morphological diversity of host plants exploited across the Heliconiini; and ii) shape learning experiments using six Heliconiini species. We found that variation in the range of leaf morphologies used by Heliconiini was not associated with mushroom body volume. Similarly, we find interspecific differences in shape learning ability, but <em>Heliconius</em> are not overall better shape learners than other Heliconiini. Together these results suggest that the visual recognition and learning of host plants was not a main factor driving the diversity of mushroom body size in this tribe.</p>
Data from: Coyote diet in North America: geographic and ecological patterns during range expansion
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Data from: A complex pattern of post-divergence expansion, contraction, introgression and asynchronous responses to Pleistocene climate changes in two Dipelta sister species from western China
Open the record for dataset details and reuse information.
Liolophura species discrimination with geographical distribution patterns and their divergence and expansion history on the northwestern Pacific coast
Open the record for dataset details and reuse information.
Patterns of host plant use do not explain mushroom body expansion in Heliconiini butterflies
Open the record for dataset details and reuse information.
Data from: Thermal segregation drives patterns of alder and willow expansion in a montane ecosystem subject to climate warming
1.Tall-shrub expansion into low-statured communities, a hallmark of recent vegetative change across tundra ecosystems, involves three major genera: Alnus, Betula, and Salix. Which genus expands most into tundra landscapes will determine ecosystem properties. 2.We show that Alnus and Salix shrubs segregate thermal space (elevation x insolation) and colonize tundra landscapes differently in response to climate warming, thereby replacing different tundra types. 3.Vegetative change estimated from repeat photography should account for hill-slope. Methodologically, slope determines surface area estimated from orthophotos as projected pixel area times secant of pixel slope. Ecologically, the change in thermally-responsive vegetative area is sensitive to terrain steepness, scaling as the cosecant of hill-slope, so that studies should expect more shrub expansion in areas of shallow slopes than steep slopes. 4.Repeat aerial photography in Alaska's Chugach Mountains from 1972-2012 orthorectified on high-resolution lidar DEM indicated tall Salix was rare in 1972 and colonized warmer slopes by 2012. Tall Alnus colonized steeper, cooler slopes both by 2012 and by 1972. Salix and forest colonized similar thermal space. Colonization probability for both shrub genera was maximized at intermediate elevations. 5.Alnus colonization adjacent to dwarf-shrub tundra was twenty-times as likely as Salix colonization. Salix colonization adjacent to low-shrub/herbaceous tundra was three-times as likely as Alnus colonization. Replacement of dwarf-shrub tundra by Alnus and of low-shrub/herbaceous communities by Salix will affect herbivores and soil properties. 6.Good agreement between observations of plant functional type and multinomial predictions in a thermal space defined by elevation and insolation suggested that these two variables were sufficient for forecast modeling. Spatially explicit, climate-driven GLM multinomial and random forest classification models in available thermal space forecast surface areas of forest, Alnus, Salix, and tundra over a range of warming, modeled as upward shifted isotherms, including expected IPCC scenarios. Both modeling approaches indicated that shrubs may respond non-linearly to warming. 7.Synthesis The provision of taxon-specific coefficients for climate-driven, spatially-explicit models using high resolution digital elevation models is necessary for accurately forecasting vegetative change due to climate warming in montane and arctic regions.
Data from: Geography best explains global patterns of genetic diversity and post-glacial co-expansion in marine turtles
For many species, climate oscillations drove cycles of population contraction during cool glacial periods followed by expansion during interglacials. Some groups, however, show evidence of uniform and synchronous expansion while others display differences in the timing and extent of demographic change. We compared demographic histories inferred from genetic data across marine turtle species to identify responses to post-glacial warming shared across taxa and to examine drivers of past demographic change at the global scale. Using coalescent simulations and approximate Bayesian computation (ABC), we estimated demographic parameters, including the likelihood of past population expansion, from a mitochondrial dataset encompassing 23 previously identified lineages from all 7 marine turtle species. For lineages with a high posterior probability of expansion, we conducted a hierarchical ABC analysis to estimate the proportion of lineages expanding synchronously and the timing of synchronous expansion. We used Bayesian Model Averaging to identify variables associated with expansion and genetic diversity. Approximately 60% of extant marine turtle lineages showed evidence of expansion, with the rest mainly exhibiting patterns of genetic diversity most consistent with population stability. For lineages showing expansion, there was a strong signal of synchronous expansion after the Last Glacial Maximum. Expansion and genetic diversity were best explained by ocean basin and the degree of endemism for a given lineage. Geographic differences in sensitivity to climate change have implications for prioritizing conservation actions in marine turtles as well as for identifying areas of past demographic stability and potential resilience to future climate change for broadly distributed taxa.
Data from: Loci under selection during multiple range expansions of an invasive plant are mostly population-specific, but patterns are associated with climate
Identifying the genes underlying rapid evolutionary changes, describing their function and ascertaining the environmental pressures that determine fitness are the central elements needed for understanding of evolutionary processes and phenotypic changes that improve the fitness of populations. It has been hypothesized that rapid adaptive changes in new environments may contribute to the rapid spread and success of invasive plants and animals. As yet, studies of adaptation during invasion are scarce, as is knowledge of the genes underlying adaptation, especially in multiple replicated invasions. Here, we quantified how genotype frequencies change during invasions, resulting in rapid evolution of naturalized populations. We used six fully replicated common garden experiments in Brazil where Pinus taeda (loblolly pine) was introduced at the same time, in the same numbers, from the same seed sources, and has formed naturalized populations expanding outward from the plantations. We used a combination of nonparametric, population genetics and multivariate statistics to detect changes in genotype frequencies along each of the six naturalization gradients and their association with climate as well as shifts in allele frequencies compared to the source populations. Results show 25 genes with significant shifts in genotype frequencies. Six genes had shifts in more than one population. Climate explained 25% of the variation in the groups of genes under selection across all locations, but specific genes under strong selection during invasions did not show climate-related convergence. In conclusion, we detected rapid evolutionary changes during invasive range expansions, but the particular gene-level patterns of evolution may be population specific.
Data from: Long-term expansion of juniper populations in managed landscapes: patterns in space and time
1. Forest cover has increased world-wide over the last decade despite continuous forest fragmentation. However, a lack of long-term demographic data hinders our understanding of the spatial dynamics of colonization in remnant populations inhabiting recently protected areas or set-aside rural lands. 2. We investigated the population expansion of the Phoenician juniper (Juniperus phoenicea subsp. turbinata), which is an endozoochorous Mediterranean tree species inhabiting landscapes that have been managed for many centuries. By combining the photointerpretation of aerial photos that have been taken over the last 50 years with in situ sampling and spatial analyses of replicated plots, we estimated the population growth over the chronosequence; identified hotspots, coldspots and outliers of regeneration; and assessed the roles of key environmental factors in driving demographic expansion patterns, including elevation, initial density and distance to remnant forests. 3. Ecological factors leading to seed limitation, such as initial plant density, are expected to drive colonization patterns at the early stages. Factors mediating the competition for limiting resources, such as water availability, would prevail at later stages of expansion. We further expect that nucleated colonization patterns emerge driven by vertebrate seed dispersal. 4. The photointerpretation of aerial images in combination with in situ measurements has yielded reliable density data. Overall, our results show a marked demographic expansion during the first decade followed by a period of steady and heterogeneous population growth with signs of local population decline. We found evidence of nucleated establishment patterns as expected for an endozoochorous species. Hotspots and outliers of regeneration emerged throughout the study chronosequence, whereas coldspots of regeneration only appeared at advanced colonization stages. Factors influencing dispersal limitation had contrasting effects at different colonization stages, and the initial density influenced population growth at various spatial scales. 5. Synthesis. The photointerpretation of aerial images shows that the influence of dispersal limitation versus factors mediating competitive responses changes throughout colonization stages. Whereas dispersal limitation is the main factor influencing colonization at early stages, competition for local resources controls population growth at later stages. Therefore, long-term studies are required to capture the overall combined influence of key ecological factors in shaping long-term spatial demographic trends.
Data from: Patterns of genetic diversity reveal multiple introductions and recurrent founder effects during range expansion in invasive populations of Geranium carolinianum (Geraniaceae)
Genetic diversity, and thus the adaptive potential of invasive populations, is largely based on three factors: patterns of genetic diversity in the species' native range, the number and location of introductions, and the number of founding individuals per introduction. Specifically, reductions in genetic diversity ("founder effects") should be stronger for species with low within-population diversity in their native range and few introductions of few individuals to the invasive range. We test these predictions with Geranium carolinianum, a winter annual herb native to North America and invasive in China. We measure the extent of founder effects using allozymes and microsatellites, and ask whether this is consistent with its colonization history and patterns of diversity in the native range. In the native range, genetic diversity is higher and structure is lower than expected based on life-history traits. In China, our results provide evidence for multiple introductions near Nanjing, Jiangsu province, with subsequent range expansion to the west and south. Patterns of genetic diversity across China reveal weak founder effects that are driven largely by low- diversity populations at the expansion front, away from the introduction location. This suggests that reduced diversity in China has resulted from successive founder events during range expansion, and that the loss of genetic diversity in the Nanjing area was mitigated by multiple introductions from diverse source populations. This has implications for the future of G. carolinianum in China, as continued gene flow among populations should eventually increase genetic diversity within the more recently founded populations.
Data from: Phylogeographic pattern of range expansion provides evidence for cryptic species lineages in Silene nutans in Western Europe
As a result of recent or past evolutionary processes, a single species might consist of distinct Evolutionary Significant Units (ESUs), even corresponding to cryptic species. Determining the underlying mechanisms of range shifts and the processes at work in the build-up of divergent ESUs requires elucidating the factors that contribute to population genetic divergence across a species' range. We investigated the large-scale patterns of genetic structure in the perennial herbaceous plant species Silene nutans (Caryophyllaceae) in Western Europe. We sampled and genotyped 111 populations using 13 nuclear microsatellite loci and 6 plastid single-nucleotide polymorphisms. Broad-scale spatial population genetic structure was examined using Bayesian clustering, spatial multivariate analyses and measures of hierarchical genetic differentiation. The genotypic structure of S. nutans was typical of a predominantly allogamous mating system. We also identified plastid lineages with no intra-population polymorphism, mirroring two genetically differentiated nuclear lineages. No evidence of admixture was found. Spatial trends in genetic diversity further suggested independent leading-edge expansion associated with founding events and subsequent genetic erosion. Overall, our findings suggested speciation processes in S. nutans and highlighted striking patterns of distinct stepwise recolonisation of Western Europe shaped by Quaternary climate oscillations. Two main potential ESUs can be defined in Western Europe, corresponding to Eastern and Western nuclear-plastid lineages. In situ preservation of populations and genetic rescue implying ex situ conservation techniques should take the lineage identity into account. This is particularly true in Great Britain, northern France and Belgium, where S. nutans is rare and where distinct lineages co-occur in close contact.
Nesokia is sister to Bandicota and are nested in Rattus phylogenetically, making Rat- tus paraphyletic. Tarsomys, Limnomys, and Diplothrix are also phylogenetically in Rat- tus, and the clade is in need of focused re- vision at the generic level. Nesokia bunnui was originally described as a separate ge-nus, Erythronesokia, because it is morphologically very distinctive from N. indica. Type specimen was destroyed during the Iraq War, and a neotype was recently designated to replace it. Monotypic. Distribution. Tigris and Euphrates river valleys, SE Iraq. Descriptive notes. Head—body 230-260 mm, tail 205-270 mm, ear 18-21 mm, hindfoot 49-58 mm; weight 519 g. The Long-tailed Bandicoot Rat is larger than the Short-tailed Bandicoot Rat (N. indica). Pelage is soft and woolly, interspersed with harsher coarse hair and long black hairs near mid-back. Dorsum is fawn to ocherous red, washed with purple or chestnuton darker individuals. Hairs are basally slate-gray and distally rufous, occasionally with whitish or black tips. Muzzle is drab. Sides arefawn, with gray edge toward venter. Venteris whitish, extending onto cheeks where the same pattern from gray to fawn to dorsal pelage occurs. Feet are large and robust, being light brown and well-furred dorsally. Claws are amber on forefeet and dull brown on hindfeet; pollux is extremely small. Ears are moderately long and brownish, with no hair internally. Tail is ¢.82-104% of head-body length and deep brownish drab, interspersed with visible white hair. Skull is large and robust, similarly to the Short-tailed Bandicoot Rat. Habitat. Marsh and swamp land. Food and Feeding. No information. Breeding. No information. Activity patterns. The Long-tailed Bandicoot Rat is terrestrial, although it isfound in swampy and marshy areas and is probably amphibious. Movements, Home range and Social organization. No information. Status and Conservation. Classified as Endangered on The IUCN Red List. The Longtailed Bandicoot Rat is apparently rare and is known from very few specimens. Marsh and swamp habitats in which it is found were completely destroyed during the Iraq War by draining, war damage, and agricultural expansion. In recent years, flooding from Tigris and Euphrates rivers and high snow fall and melt haveresulted in partial restoration ofits native habitat, although restoration is not a complete. Populations are now probably highly fragmented. Bibliography. Al-Ansari et al. (2012), Al-Robaae & Felten (1990), Khajuria (1981), Krystufek et al. (2017), Musser & Carleton (2005), Richardson & Hussain (2006), Stuart (2008). in Muridae
Nesokia is sister to Bandicota and are nested in Rattus phylogenetically, making Rat- tus paraphyletic. Tarsomys, Limnomys, and Diplothrix are also phylogenetically in Rat- tus, and the clade is in need of focused re- vision at the generic level. Nesokia bunnui was originally described as a separate ge-nus, Erythronesokia, because it is morphologically very distinctive from N. indica. Type specimen was destroyed during the Iraq War, and a neotype was recently designated to replace it. Monotypic. Distribution. Tigris and Euphrates river valleys, SE Iraq. Descriptive notes. Head—body 230-260 mm, tail 205-270 mm, ear 18-21 mm, hindfoot 49-58 mm; weight 519 g. The Long-tailed Bandicoot Rat is larger than the Short-tailed Bandicoot Rat (N. indica). Pelage is soft and woolly, interspersed with harsher coarse hair and long black hairs near mid-back. Dorsum is fawn to ocherous red, washed with purple or chestnuton darker individuals. Hairs are basally slate-gray and distally rufous, occasionally with whitish or black tips. Muzzle is drab. Sides arefawn, with gray edge toward venter. Venteris whitish, extending onto cheeks where the same pattern from gray to fawn to dorsal pelage occurs. Feet are large and robust, being light brown and well-furred dorsally. Claws are amber on forefeet and dull brown on hindfeet; pollux is extremely small. Ears are moderately long and brownish, with no hair internally. Tail is ¢.82-104% of head-body length and deep brownish drab, interspersed with visible white hair. Skull is large and robust, similarly to the Short-tailed Bandicoot Rat. Habitat. Marsh and swamp land. Food and Feeding. No information. Breeding. No information. Activity patterns. The Long-tailed Bandicoot Rat is terrestrial, although it isfound in swampy and marshy areas and is probably amphibious. Movements, Home range and Social organization. No information. Status and Conservation. Classified as Endangered on The IUCN Red List. The Longtailed Bandicoot Rat is apparently rare and is known from very few specimens. Marsh and swamp habitats in which it is found were completely destroyed during the Iraq War by draining, war damage, and agricultural expansion. In recent years, flooding from Tigris and Euphrates rivers and high snow fall and melt haveresulted in partial restoration ofits native habitat, although restoration is not a complete. Populations are now probably highly fragmented. Bibliography. Al-Ansari et al. (2012), Al-Robaae & Felten (1990), Khajuria (1981), Krystufek et al. (2017), Musser & Carleton (2005), Richardson & Hussain (2006), Stuart (2008).
Expansion of non-native plant Flaveria bidentis (L.) Kuntze driven by range of factors leading to patchy distribution patterns
<p><span>Given the growing concern over the ecological impacts of non-native species, exploring these species' expansion edge and distribution patterns and their driving factors is important for developing suitable management measures. <em>Flaveria bidentis</em> (L.) Kuntze, a non-native plant that was introduced to China in the 1990s, has spread from southern Hebei Province, where it first took root, to the surrounding regions and has become one of the most notorious invasive weeds in northern China. Based on 15 years (2006-2021) of extensive field investigations, the spatial distribution of sampling and occurrence points were mapped in the recently expanded region of <em>F. bidentis</em>' population. Then, nearest neighbor analysis used to characterize the spatial pattern differences between samplings and occurrences. An exponential decay function was used to elucidate the driving factors contributing to the presence and absence of <em>F. bidentis</em>. Our results demonstrated an effective random sampling setup, a heterogeneous spatial distribution of <em>F. bidentis</em>, and a multi-regional independent aggregation distribution pattern (<em>p</em><0.01). There were significant spatial correlations between the aggregation areas of plant occurrence points and the locations of roads and construction sand distribution centers. These findings suggest that human activities involving major roads and construction sand distribution centers were driving factors contributing to this long-distance dispersal and spatially discontinuous distribution patterns.</span><span class="MsoCommentReference"><span> </span></span><span class="MsoCommentReference"><span>The presence of these patchy distribution patterns has important implications for ongoing efforts to manage populations of non-native species.</span></span></p>
Fig. 3 a in Phylogeographic patterns of genetic diversity in the common spadefoot toad, Pelobates fuscus (Anura: Pelobatidae), reveals evolutionary history, postglacial range expansion and secondary contact
Fig. 3 a Bayesian phylogenetic analysis based on a 571-bp fragment of the mitochondrial cyt b gene. Only haplotype sequences have been used. Spea bombifrons was used as outgroup. Asterisks denote Bayesian posterior probabilities values: *95–98 %; **99–100 %. b Haplotype network reconstruction of 29 haplotypes of Pelobates fuscus fuscus (W) and of 13 haplotypes of P. f. vespertinus (E), based on the analysis of a 571-bp fragment of the mitochondrial cytochrome b gene. Size of circles is proportional to the number of individuals sharing a given haplotype. The frequency of each haplotype has been computed based on published data (Crottini et al. 2007) and on new sequences
Fig. 1 in Phylogeographic patterns of genetic diversity in the common spadefoot toad, Pelobates fuscus (Anura: Pelobatidae), reveals evolutionary history, postglacial range expansion and secondary contact
Fig. 1 Geographic locations of the 59 analyzed populations of Pelobates. The limit of the geographic distribution of Pelobates fuscus is indicated with the solid line. The dashed line indicates the presumptive position of the contact zone between P. f. fuscus
Fig. 7 in Phylogeographic patterns of genetic diversity in the common spadefoot toad, Pelobates fuscus (Anura: Pelobatidae), reveals evolutionary history, postglacial range expansion and secondary contact
Fig. 7 Predictive potential niche models (black areas) of Pelobates f. fuscus (a and c) and P. f. vespertinus (b and d) for Last Glacial Maximum based on the MIROC (a and b) and CCSM (c and d) models. Models are above the average 10-percentile training threshold.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.