Single Colonization Event Research Articles

A prickly puzzle: Generic delimitations in theCarduus‐Cirsiumgroup (Compositae: Cardueae: Carduinae)

AbstractGeneric delimitations within the cosmopolitanCarduus‐Cirsiumgroup (i.e., “thistles”) have a long history of taxonomic confusion and debate. We present the most comprehensive molecular phylogeny of the group to date to test generic limits, reconstruct the evolution of pappus type, and elucidate the role of chromosomal evolution. We offer two solutions for the recognition of monophyletic genera: (1) consolidate all taxa into one large genus (CarduusorCirsium), or (2) recognize each major clade as a genus (Carduus,Cirsium,Eriolepis,Notobasis,Picnomon,Silybum, andTyrimnus). Under the second proposal, the cryptic genusEriolepisis segregated fromCirsium, and the AfricanCarduusare included withinCirsium. The best diagnosable morphological character to delimit the genera is pollen type, which is not practical in field‐based application. We caution that prior to implementing either solution, a thorough, comprehensive morphological analysis of all current members ofCirsiumsect.Epitrachys(= genusEriolepis) be completed. Future morphological studies may find additional achene or leaf surface characters that could be used for practical field identification of the segregate genera. The data show that the plumose pappus state is symplesiomorphic for the group, with one transition to barbellate pappus, likely followed by a reversal to its ancestral state as the group colonized Eurasia. The data are consistent with a North African origin in the region of the Mediterranean and a single colonization event to North America. An ancestral chromosome state ofn= 17 is hypothesized for the group, and a descending dysploidy series inCarduusis hypothesized to correspond with the aridification of the Mediterranean region. TheCarduus‐Cirsiumgroup highlights the difficulty of delimiting morphologically similar, cryptic genera.

A comprehensive molecular phylogeny of Afrotropical white-eyes (Aves: Zosteropidae) highlights prior underestimation of mainland diversity and complex colonisation history

White-eyes (Zosterops) are a hyper-diverse genus of passerine birds that have rapidly radiated across the Afrotropics and Southeast Asia. Despite their broad range, a disproportionately large number of species are currently recognised from islands compared to the mainland. Described species-level diversity of this ‘great speciator’ from continental Africa-Arabia is strikingly low, despite the vast size and environmental complexity of this region. However, efforts to identify natural groups using traditional approaches have been hindered by the remarkably uniform morphology and plumage of these birds. Here, we investigated the phylogenetic relationships and systematics of Afrotropical Zosterops, including the Gulf of Guinea and western Indian Ocean islands. We included exceptional sampling (~160 individuals) from all except one subspecies of the 55 taxa (32 species, plus 23 additional named sub-species) currently recognized throughout the region, in addition to a subset of extra-Afrotropical taxa, by exploiting blood and archival samples. Employing a multi-locus phylogenetic approach and applying quantitative species delimitation we tested: (1) if there has been a single colonisation event of the Afrotropical realm; (2) if constituent mainland and island birds are monophyletic; and (3) if mainland diversity has been underestimated. Our comprehensive regional phylogeny revealed a single recent colonisation of the Afrotropical realm c.1.30 Ma from Asia, but a subsequent complex colonisation history between constituent island and mainland lineages during their radiation across this vast area. Our findings suggest a significant previous underestimation of continental species diversity and, based on this, we propose a revised taxonomy. Our study highlights the need to densely sample species diversity across ranges, providing key findings for future conservation assessments and establishing a robust framework for evolutionary studies.

Low genetic divergence and variation in coastal dune populations of the widespread terrestrial orchidEpipactis helleborine

AbstractReconstructing the early history of species divergence and quantifying the level of standing genetic variation in diverging populations are central to our understanding of ecotype formation and ultimately speciation. In this study, we used single nucleotide polymorphisms to reconstruct the evolutionary history of species divergence in coastal dune populations of the widespread terrestrial orchid Epipactis helleborine and to investigate the level of standing genetic variation in 29 coastal dune populations in a fragmented dune landscape along the Belgian and French coast. Additionally, we used seed introduction experiments to assess the potential for gene flow into existing populations after long-distance seed dispersal and the ability to colonize vacant sites. Our results showed that coastal dune populations diverged only recently from inland populations, went through a significant bottleneck and were most probably the result of a single colonization event. Current levels of population genetic diversity are low and not related to population size or spatial isolation. The sampled dune populations also showed little genetic differentiation, and no apparent spatial genetic structure was observed. Seed introduction experiments showed that seeds of coastal dune populations germinated easily in both occupied and unoccupied sites in dune habitat, indicating that the availability of suitable mycorrhizal fungi is not limiting the distribution of coastal dune populations and that gene flow through seeds has probably contributed to the observed low levels of genetic differentiation. Overall, these results are consistent with a process of genetic divergence after a single, recent colonization event, followed by extensive gene flow among populations.

Freshwater biogeography in Wallacea: The case of sphaeriid bivalves in the Malili lake system (Sulawesi, Indonesia)

Ancient lakes are renowned as freshwater hotspots of biodiversity and endemism. However, some of these water bodies are poorly studied with the minute pill clams in the genus Pisidium (family Sphaeriidae) being particularly overlooked. The Malili lake system is located on Sulawesi, which is the largest and possibly biologically most diverse Indonesian island within the biodiversity hotspot region of Wallacea. This lake system consists of 5 interconnected lakes that harbour a unique freshwater fauna including 42 mostly endemic mollusc species described to date. The only bivalves recognized in this lake system have been in the widespread genus Corbicula. We present new insights into the sphaeriid biodiversity of the ancient Malili lakes and provide the first fossil-calibrated phylogeny for this family to discuss the biogeographical history of the Wallacean Pisidium fauna including the dating of speciation events. Both morphological and molecular data suggest that the Malili lake system is inhabited by at least three Pisidium species, two of which are potentially endemic to these lakes. This diversity is probably derived from a single colonization event from the Oriental region. The fossil-calibrated phylogeny further indicates that intra-island diversification occurred well after the island was fully formed. Our study improves understanding of the overall sphaeriid biodiversity in Indonesia as well as the endemic fauna of the ancient lakes.

The status of Clibanarius erythropus after a recent range expansion to Great Britain, with the highest latitude recording of a gravid individual

BackgroundIn 2016, the range of the hermit crab Clibanarius erythropus expanded to South West Britain for the second time. C. erythropus primarily lives in the Mediterranean and the Atlantic coast of Europe from the Bay of Biscay to Morocco. The species has now been recorded on both the north and south coast of the South West peninsula of the UK from Newtrain Bay, on the north coast of Cornwall, to Wembury, on the south coast of Devon. It is unknown if the crab’s reappearance in the UK has been caused by a one-off colonisation event or by a continued influx of larvae.ResultsThe population in the UK is made up of individual within a narrow size bracket, indicating a single colonisation event took place, and that the population is an ageing one. However, we also report the highest latitude recording of a gravid individual for the species.ConclusionA lack of gravid individuals was suggested to be why the species was unable to sustain its presence in the UK following a previous colonisation in 1960. This discovery hints that rising water temperatures may allow C. erythropus and other warm-water species to expand and sustain themselves in the UK. We also found crossover in shell utilisation between C. erythropus and the native hermit crab Pagurus bernhardus, suggesting that competition might occur between the two species.

Silent invasion: Sinanodonta woodiana successfully reproduces and possibly endangers native mussels in the north of its invasive range in Europe

AbstractThe explosive global spread of Sinadonta woodiana, a large‐bodied unionid mussel of East Asian origin, potentially affects the functioning of freshwater habitats and threatens native mussels. Molecular data indicate that its invasion in Europe started with a single colonization event, followed by in situ adaptation. This study traces one of the possible routes of such adaptation. It documents a population of S. woodiana with a known history of a two‐stage introduction: first, from a heated water source to a production fish pond in northern Poland, and subsequently from that pond to the study site. As the latest local transfer occurred more than 15 years before the study, the abundance of young S. woodiana in various age classes provides proof of ongoing in situ reproduction and resolves the question of the ability of S. woodiana to permanently colonize thermally unpolluted water bodies in areas with prolonged and cold winters. The study also shows that translocations of glochidia‐infested fish and/or adult mussels between water bodies in such areas result in the establishment of new self‐recruiting populations. Together, these findings show that further expansion of S. woodiana into colder regions and establishment of new populations in already invaded areas are to be expected. The relative abundance of S. woodiana and the native unionids: Anodonta anatina and A. cygnea was 40%, 18%, and 42%, respectively. S. woodiana contributed to 65% of the total mussel biomass. Individuals in the first three size classes, corresponding to the 2‐ to 4 year age classes, composed 50% of S. woodiana, 37% of A. anatina, and 26% of A. cygnea. The high proportion of young individuals in S. woodiana indicates population trajectories toward a gradually increasing dominance of this species and possibly reflects its negative impacts via interactions with host fish and competition for resources.

From limb to fin: an Eocene protocetid forelimb from Senegal sheds new light on the early locomotor evolution of cetaceans

AbstractCetaceans constitute a textbook example of the secondary adaptation of tetrapods to aquatic life. This major event in the evolutionary history of mammals is often linked in the literature to the limb‐to‐fin transition. Paradoxically, limb bones are scarce in the fossil record of early cetaceans, and the transition from a limb‐adapted morphology for an amphibious life in shallow water to a fin‐adapted morphology for a pelagic lifestyle remains poorly documented. Here, we describe new protocetid remains from the upper Lutetian of Senegal, including a nearly complete articulated forelimb. A cladistic analysis including 24 taxa and 137 morphological characters recovers the new African specimen close to Carolinacetus. It also confirms that cetacean dispersal to the New World was not the result of a single colonization event. A 3D model of the forelimb was reconstructed. Anatomical comparisons suggest that it is unlikely that the Senegalese forelimb was used as a rigid pectoral flipper for steering as in basilosaurids and modern cetaceans. Instead, we suggest that the hand was actively used during swimming. This challenges previous reconstructions of protocetids as mainly foot‐powered swimmers, and suggests that swimming specializations of early cetaceans were probably more diverse than previously considered.

A Bayesian model of acquisition and clearance of bacterial colonization incorporating within-host variation.

Bacterial populations that colonize a host can play important roles in host health, including serving as a reservoir that transmits to other hosts and from which invasive strains emerge, thus emphasizing the importance of understanding rates of acquisition and clearance of colonizing populations. Studies of colonization dynamics have been based on assessment of whether serial samples represent a single population or distinct colonization events. With the use of whole genome sequencing to determine genetic distance between isolates, a common solution to estimate acquisition and clearance rates has been to assume a fixed genetic distance threshold below which isolates are considered to represent the same strain. However, this approach is often inadequate to account for the diversity of the underlying within-host evolving population, the time intervals between consecutive measurements, and the uncertainty in the estimated acquisition and clearance rates. Here, we present a fully Bayesian model that provides probabilities of whether two strains should be considered the same, allowing us to determine bacterial clearance and acquisition from genomes sampled over time. Our method explicitly models the within-host variation using population genetic simulation, and the inference is done using a combination of Approximate Bayesian Computation (ABC) and Markov Chain Monte Carlo (MCMC). We validate the method with multiple carefully conducted simulations and demonstrate its use in practice by analyzing a collection of methicillin resistant Staphylococcus aureus (MRSA) isolates from a large recently completed longitudinal clinical study. An R-code implementation of the method is freely available at: https://github.com/mjarvenpaa/bacterial-colonization-model.

The evolution of abdominal microbiomes in fungus-growing ants.

The attine ants are a monophyletic lineage that switched to fungus farming ca. 55–60 MYA. They have become a model for the study of complex symbioses after additional fungal and bacterial symbionts were discovered, but their abdominal endosymbiotic bacteria remain largely unknown. Here, we present a comparative microbiome analysis of endosymbiotic bacteria spanning the entire phylogenetic tree. We show that, across 17 representative sympatric species from eight genera sampled in Panama, abdominal microbiomes are dominated by Mollicutes, α‐ and γ‐Proteobacteria, and Actinobacteria. Bacterial abundances increase from basal to crown branches in the phylogeny reflecting a shift towards putative specialized and abundant abdominal microbiota after the ants domesticated gongylidia‐bearing cultivars, but before the origin of industrial‐scale farming based on leaf‐cutting herbivory. This transition coincided with the ancestral single colonization event of Central/North America ca. 20 MYA, documented in a recent phylogenomic study showing that almost the entire crown group of the higher attine ants, including the leaf‐cutting ants, evolved there and not in South America. Several bacterial species are located in gut tissues or abdominal organs of the evolutionarily derived, but not the basal attine ants. The composition of abdominal microbiomes appears to be affected by the presence/absence of defensive antibiotic‐producing actinobacterial biofilms on the worker ants' cuticle, but the significance of this association remains unclear. The patterns of diversity, abundance and sensitivity of the abdominal microbiomes that we obtained explore novel territory in the comparative analysis of attine fungus farming symbioses and raise new questions for further in‐depth research.

In the footsteps of Wallace: population structure in the breadfruit fruit fly, Bactrocera umbrosa (F.) (Diptera: Tephritidae), suggests disjunction across the Indo‐Australian Archipelago

AbstractUnderstanding the interplay between plant host and insect herbivore diversification underpins many areas of pure and applied research. The tephritid fruit fly Bactrocera umbrosa is a primary pest of a small number of Artocarpus species throughout Southeast Asia and the West Pacific. Recent molecular evidence supports a pattern of eastward migration and species diversification in Artocarpus. Here, we aimed to test whether population structure in B. umbrosa was associated with historical biogeographical barriers such as Wallace's Line and discuss observed patterns in the context of Artocarpus diversification. We used an integrative approach to explore population structure within B. umbrosa based on morphological (wing shape and aedeagus length) and molecular (mitochondrial COI and COII) data. Overall, aedeagi and wing centroid sizes were generally larger and exhibited greater variation in the West Pacific than Southeast Asia. Molecular data agreed with this trend, and COI also showed a subtle but clear disjunction between regions associated with Weber/Lydekker's Lines. Taken together, the West Pacific was supported as the putative origin of B. umbrosa, whereas movement westward into Southeast Asia occurred more recently, likely via a single colonisation event followed by highly restricted gene flow. Population structure in B. umbrosa does not reflect an ancient history of tracking Artocarpus diversification eastward out of Southeast Asia.

Polyploidy and introgression in invasive giant knotweed (Fallopia sachalinensis) during the colonization of remote volcanic islands

Invasive giant knotweed (Fallopia sachalinensis) is native to northeastern Asia. In Korea, F. sachalinensis is confined to two volcanic islands, Ullung and Dok islands, where it occurs as dodecaploids (2n = 132). We investigated the molecular variation in 104 accessions from 94 populations of F. sachalinensis and its relatives throughout their native range to elucidate the origin of these island populations. All F. sachalinensis plants on Ullung and Dok islands were uniquely dodecaploid, whereas other populations were tetraploid (2n = 44). Among the 39 cpDNA haplotypes identified, the accessions from these islands shared two unique haplotypes, and were resolved as a well-supported monophyletic clade. However, this clade was sister to a clade comprising F. japonica accessions from southwestern Japan and separated from the clade comprising F. sachalinensis from other areas; this relationship is inconsistent with morphological evidence. The monophyly of the F. sachalinensis populations on Ullung and Dok islands suggests a single colonization event. The progenitor was likely from Japan, where it possibly captured F. japonica var. japonica cpDNA via introgression. The Ullung Island populations subsequently differentiated through polyploidization and mutations post-introduction. Our results also indicate that giant knotweed in Europe and North America likely originated from northern Japan and/or Sakhalin Island.

Modelling the invasion history of Sinanodonta woodiana in Europe: Tracking the routes of a sedentary aquatic invader with mobile parasitic larvae.

Understanding the invasive potential of species outside their native range is one of the most pressing questions in applied evolutionary and ecological research. Admixture of genotypes of invasive species from multiple sources has been implicated in successful invasions, by generating novel genetic combinations that facilitate rapid adaptation to new environments. Alternatively, adaptive evolution on standing genetic variation, exposed by phenotypic plasticity and selected by genetic accommodation, can facilitate invasion success. We investigated the population genetic structure of an Asian freshwater mussel with a parasitic dispersal stage, Sinanodonta woodiana, which has been present in Europe since 1979 but which has expanded rapidly in the last decade. Data from a mitochondrial marker and nuclear microsatellites have suggested that all European populations of S. woodiana originate from the River Yangtze basin in China. Only a single haplotype was detected in Europe, in contrast to substantial mitochondrial diversity in native Asian populations. Analysis of microsatellite markers indicated intensive gene flow and confirmed a lower genetic diversity of European populations compared to those from the Yangtze basin, though that difference was not large. Using an Approximate Bayesian Modelling approach, we identified two areas as the probable source of the spread of S. woodiana in Europe, which matched historical records for its establishment. Their populations originated from a single colonization event. Our data do not support alternative explanations for the rapid recent spread of S. woodiana; recent arrival of a novel (cold‐tolerant) genotype or continuous propagule pressure. Instead, in situ adaptation, facilitated by repeated admixture, appears to drive the ongoing expansion of S. woodiana. We discuss management consequences of our results.

Speciation in sympatry with ongoing secondary gene flow and a potential olfactory trigger in a radiation of Cameroon cichlids.

The process of sympatric speciation in nature remains a fundamental unsolved problem. Cameroon crater lake cichlid radiations were long regarded as one of the most compelling examples; however, recent work showed that their origins were more complex than a single colonization event followed by isolation. Here, we performed a detailed investigation of the speciation history of a radiation of Coptodon cichlids from Lake Ejagham, Cameroon, using whole-genome sequencing data. The existence of the Lake Ejagham Coptodon radiation is remarkable as this 0.5km2 lake offers limited scope for divergence across a shallow depth gradient, disruptive selection is currently weak, and the species are sexually monochromatic. We infer that Lake Ejagham was colonized by Coptodon cichlids soon after its formation 9,000years ago, yet speciation occurred only in the last 1,000-2,000years. We show that secondary gene flow from a nearby riverine species has been ongoing, into ancestral as well as extant lineages, and we identify and date river-to-lake admixture blocks. One block contains a cluster of olfactory receptor genes that introgressed near the time of the first speciation event and coincides with a higher overall rate of admixture. Olfactory signalling is a key component of mate choice and species recognition in cichlids. A functional role for this introgression event is consistent with previous findings that sexual isolation appears much stronger than ecological isolation in Ejagham Coptodon. We conclude that speciation in this radiation took place in sympatry, yet may have benefited from ongoing riverine gene flow.

High diversity, high insular endemism and recent origin in the lichen genus Sticta (lichenized Ascomycota, Peltigerales) in Madagascar and the Mascarenes

Lichen biodiversity and its generative evolutionary processes are practically unknown in the MIOI (Madagascar and Indian Ocean Islands) biodiversity hotspot. We sought to test the hypothesis that lichenized fungi in this region have undergone a rapid radiation, following a single colonization event, giving rise to narrow endemics, as is characteristic of other lineages of plants. We extensively sampled specimens of the lichen genus Sticta in the Mascarene archipelago (mainly Réunion) and in Madagascar, mainly in the northern range (Amber Mt and Marojejy Mt) and produced the fungal ITS barcode sequence for 148 thalli. We further produced a four-loci data matrix for 68 of them, representing the diversity and geographical distribution of ITS haplotypes. We reconstructed the phylogenetic relationships within this group, established species boundaries with morphological context, and estimated the date of the most recent common ancestor. Our inferences resolve a robust clade comprising 31 endemic species of Sticta that arose from the diversification following a single recent (c. 11 Mya) colonization event. All but three species have a very restricted range, endemic to either the Mascarene archipelago or a single massif in Madagascar. The first genus of lichens to be studied with molecular data in this region underwent a recent radiation, exhibits micro-endemism, and thus exemplifies the biodiversity characteristics found in other taxa in Madagascar and the Mascarenes.

Differentiation of delta and open marine deposits based on an integrated ichnological and sedimentological analysis of the Late Triassic Nayband Formation, Tabas Block, Central Iran

The palaeoenvironmental significance of trace fossil assemblages in the shallow marine deposits of the Late Triassic Nayband Formation of the Tabas Block, Central Iran has been assessed for the first time. The siliciclastic successions of the Nayband Formation, are highly bioturbated and allow relationships between changes in ichnoassemblages within a depositional system to be documented and placed in a palaeoenvironmental framework. The main purposes of this paper are: (1) to describe and illustrate the trace fossils assemblages of the Nayband Formation; (2) integration of ichnologic and sedimentologic data to evaluate different stress factors on the infaunal communities; and (3) to briefly discuss paleoenvironmental distribution of various trace fossil assemblages in order to differentiate between deltaic and non-deltaic shoreface successions. The Upper Triassic Nayband Formation has been studied and measured in one section, where the Nayband Formation is well accessible and continuously exposed. This section was logged and evaluated using physical sedimentology and ichnology in order to establish a basis for the interpretation of sedimentary processes (facies) and depositional systems. In this study, trace fossils (diversity, abundances, and ethologies) and the spatial arrangement of sedimentary structures are used to further refining the interpretation of environmental parameters such as hydrodynamic energy, water turbidity, substrate properties, food supply, temperature, oxygenation, salinity, and sedimentation rates. Based on facies characteristics and stratal geometries, the siliciclastic succession is divided into two facies associations, fluvial-dominated delta (FA), and open marine (FB). Twenty-eight ichnogenera have been identified in delta and open marine successions: The assemblage is dominated by Rhizocorallium, Thalassinoides, Ophiomorpha, Helminthopsis, Palaeophycus and Skolithos. Their distribution is clearly linked with lithofacies and depositional environments. High rates of fluvial discharge, high water turbidity, seasonally high rates of deposition and phytodetrital pulses in river-dominated deltas may cause marked variations in the temperature, oxygenation and salinity of the fluvial-dominated delta successions. All of these factors in combination lead to impoverishment in trace diversity and reduction in burrow size but to rapid colonization of the substrate by single-layer colonizers of opportunistic deposit feeders. Low ichnodiversity, low bioturbation intensities with highly bioturbated clusters shown by single colonization events by opportunistic, simple feeding strategies of trophic generalists and a paucity of suspension-feeding structures elements represent a “stressed”, non-archetypal Cruziana ichnofacies. The changes of behavioural complexity and the tiering profiles in the offshore-shoreface complex of the Nayband Formation when compared with the river-dominated delta successions represent the transition from epifaunal life habits with simple tiering structures to infaunal life habits with complex tiering pattern. The occurrence of diverse trace fossil suites attributable to the Zoophycos ichnofacies, the archetypal Cruziana ichnofacies and the Skolithos ichnofacies in wave-dominated shoreface-offshore complex point to stress-free environmental conditions in open waters due to persistent wave agitation, and hence, a wide colonization window.

Modelling the range expansion of the Tiger mosquito in a Mediterranean Island accounting for imperfect detection

BackgroundsAedes albopictus (Diptera; Culicidae) is a highly invasive mosquito species and a competent vector of several arboviral diseases that have spread rapidly throughout the world. Prevalence and patterns of dispersal of the mosquito are of central importance for an effective control of the species. We used site-occupancy models accounting for false negative detections to estimate the prevalence, the turnover, the movement pattern and the growth rate in the number of sites occupied by the mosquito in 17 localities throughout Mallorca Island.ResultsSite-occupancy probability increased from 0.35 in the 2012, year of first reported observation of the species, to 0.89 in 2015. Despite a steady increase in mosquito presence, the extinction probability was generally high indicating a high turnover in the occupied sites. We considered two site-dependent covariates, namely the distance from the point of first observation and the estimated yearly occupancy rate in the neighborhood, as predicted by diffusion models. Results suggested that mosquito distribution during the first year was consistent with what predicted by simple diffusion models, but was not consistent with the diffusion model in subsequent years when it was similar to those expected from leapfrog dispersal events.ConclusionsAssuming a single initial colonization event, the spread of Ae. albopictus in Mallorca followed two distinct phases, an early one consistent with diffusion movements and a second consistent with long distance, ‘leapfrog’, movements. The colonization of the island was fast, with ~90% of the sites estimated to be occupied 3 years after the colonization. The fast spread was likely to have occurred through vectors related to human mobility such as cars or other vehicles. Surveillance and management actions near the introduction point would only be effective during the early steps of the colonization.

How birds colonize cities: genetic evidence from a common waterbird, the Eurasian coot

Much effort has been devoted to identify ecological and life‐history traits which facilitate urban colonization by wild avian species, but surprisingly little is known about the population‐level mechanisms of urbanization processes. In general, two different patterns of urban colonization have been proposed: 1) the model of independent colonization predicts that birds colonize cities independently in different geographical regions; 2) the model of leapfrog colonization assumes a single colonization event, while additional urban populations are established from the initial urban populations. The aim of this paper was to determine the pattern of urban colonization in a common waterbird, the Eurasian coot Fulica atra. For this purpose, we analysed microsatellite variation in three pairs of urban and rural coot populations from central Poland. We found that a newly‐established urban population was genetically more similar to neighbouring rural populations than to long‐established urban populations, as indicated by the analysis of fixation index, genetic distance and Bayesian assignment of individuals to genetic clusters. These results are consistent with the model of independent colonization, where neighbouring rural populations are a source of individuals that colonize new urban areas. However, our analysis also showed significant differentiation between long‐established urban populations and adjacent rural populations, suggesting that genetic connectivity between two types of habitat decreases with increasing time since urbanization. Our study shows high complexity of urbanization processes in wild animal populations, as well as it underpins utility of molecular tools in studying population‐level mechanisms of urbanization.

A generalization of the taxon cycle

A generalization of the taxon cycle

Whole mitochondrial genomes illuminate ancient intercontinental dispersals of grey wolves (Canis lupus)

AbstractAimGrey wolves (Canis lupus) are widespread across the Holarctic. Here, we test the previously proposed hypothesis that extant North American wolves originate from multiple waves of colonization from Asia. We also test the hypothesis that land connections have been important in the evolutionary history of other isolated wolf populations in Japan.LocationHolarctic.MethodsWe analyse 105 previously published and newly obtained complete mitochondrial genomes from a geographically diverse sample of grey wolves and date critical branches in the phylogenetic tree. Phylogeographical hypotheses are tested in an approximate Bayesian computation approach.ResultsWe find that the mitogenomes of all living wolves in North America, including Mexican wolves, most likely derive from a single colonization event from Eurasia that expanded the grey wolf range into North America. This colonization occurred while a land bridge connected Eurasia and North America before the Cordillerian and Laurentide ice sheets fused in the Last Glacial Maximum,c. 23 ka, much more recent than predicted based on the fossil record. Pleistocene land bridges also facilitated the separate colonization of Hokkaido and the southern Japanese islands.Main conclusionsExtant wolf lineages in North America derive from wolves that migrated into North America coincident with the formation of the most recent land bridge with Eurasia. The maternal lineages from earlier Pleistocene American wolves are not represented in living American wolves, indicating that they left no descendants. The timing of colonization of North America, Hokkaido and the southern Japanese islands corresponds to the changes in land connectivity as a consequence of changing sea level.

Differences in ESBL Genes between E. coli, Klebsiella spp. and Enterobacter Cloacae Strains

Background: Resistance to beta-Lactam antibiotics in Enterobacteriaceae is increasing worldwide; however, information about the different beta-Lactamase genes in diverse regions is scarce. We aimed to identify beta-lactamse genes in presumably ESBL positive isolates of Enterobacteriaceae. Methods: A nonredundant collection of 757 strains of E. coli, Klebsiella pneumonia, Klebsiella oxytoca and Enterobacter cloacae resistant to third generation cephalosporins and ESBL positive by VITEK II analysis was analyzed by PCR for presence of beta-lactamase genes of the TEM, SHV, CTX-M and ampC families. Results: Distribution of patient age was bimodal, with peaks at 1 ESBL positive bacterial species, 71% may have been repeatedly colonized by different strains, while in 29%, plasmid transfer may have occurred after a single colonization event. Conclusions: The molecular epidemiology of beta-Lactamase genes is complex even if analyzed in a single institution. CTX-M enzymes dominate, and co-occurrence of ampC enzymes is rare. Plasmid transfer between species of Enterobacteriaceae seems to occur in vivo in some patients.