Role of individual dispersal in genetic resilience in fluctuating populations of the gray‐sided vole Myodes rufocanus

Population densities of the gray‐sided vole Myodes rufocanus fluctuate greatly within and across years in Japan. Here, to investigate the role of individual dispersal in maintaining population genetic diversity, we examined how genetic diversity varied during fluctuations in density by analyzing eight microsatellite loci in voles sampled three times per year for 5 years, using two fixed trapping grids (approximately 0.5 ha each). At each trapping session, all captured voles at each trapping grid were removed. The STRUCTURE program was used to analyze serially collected samples to examine how population crashes were related to temporal variability, based on local‐scale genetic compositions in each population. In total, 461 and 527 voles were captured at each trapping grid during this study. The number of voles captured during each trapping session (i.e., vole density) varied considerably at both grids. Although patterns in fluctuations were not synchronized between grids, the peak densities were similar. At both grids, the mean allele number recorded at each trapping session was strongly, positively, and nonlinearly correlated with density. STRUCTURE analyses revealed that the proportions of cluster compositions among individuals at each grid differed markedly before and after the crash phase, implying the long‐distance dispersal of voles from remote areas at periods of low density. The present results suggest that, in gray‐sided vole populations, genetic diversity varies with density largely at the local scale; in contrast, genetic variation in a metapopulation is well‐preserved at the regional scale due to the density‐dependent dispersal behaviors of individuals. By influencing the dispersal patterns of individuals, fluctuations in density affect metapopulation structure spatially and temporally, while the levels of genetic diversity are preserved in a metapopulation.     

MITOCHONDRIAL DNA VARIATION IN THE FIELD VOLE (MICROTUS AGRESTIS): REGIONAL POPULATION STRUCTURE AND COLONIZATION HISTORY

Restriction fragment length polymorphism analysis of mitochondrial DNA (mtDNA) was used to examine the genetic structure among field voles (Microtus agrestis) from southern and central Sweden. A total of 57 haplotypes was identified in 158 voles from 60 localities. Overall mtDNA diversity was high, but both haplotype and nucleotide diversity exhibited pronounced geographic heterogeneity. Phylogenetic analyses revealed a shallow tree with seven primary mtDNA lineages separated by sequence divergences ranging from 0.6% to 1.0%. The geographic structure of mtDNA diversity and lineage distribution was complex but strongly structured and deviated significantly from an equilibrium situation. The extensive mtDNA diversity observed and the recent biogeographic history of the region suggests that the shallow mtDNA structure in the field vole cannot be explained solely by stochastic lineage sorting in situ or isolation by distance. Instead, the data suggest that the genetic imprints of historical demographic conditions and vicariant geographic events have been preserved and to a large extent determine the contemporary geographic distribution of mtDNA variation. A plausible historical scenario involves differentiation of mtDNA lineages in local populations in glacial refugia, a moving postglacial population structure, and bottlenecks and expansions of mtDNA lineages during the postglacial recolonization of Sweden. By combining the mtDNA data with an analysis of Y-chromosome variation, a specific population unit was identified in southwestern Sweden. This population, defined by a unique mtDNA lineage and fixation of a Y-chromosome variant, probably originated in a population bottleneck in southern Sweden about 12,000 to 13,000 calendar years ago.     

HETEROZYGOSITY,AGGRESSION, AND POPULATION FLUCTUATIONS IN MEADOW VOLES (MICROTUS PENNSYLVANICUS)

We tested whether variation in heterozygosity could produce cyclic changes in population size in meadow voles (Microtus pennsylvanicus). For this to occur, three conditions must be met: (1) populations are more outbred (heterozygotic) at high than low population density, (2) heterozygotic voles are more aggressive than relatively inbred individuals, and (3) heterozygotic voles have lower reproductive fitness, though being superior at defending resources. We found no evidence that heterozygosity varied with population size or that reproductive success varied with heterozygosity. However, the former test was indirect and relatively weak. We directly measured aggression and heterozygosity of individual voles. Aggression was significantly related to heterozygosity: higher heterozygosity correlated with more aggression in males and less aggression in females. The proportion of variance in aggression that could be explained by heterozygosity was small. These results suggest that changes in population size of meadow voles could not be driven by systematic changes in heterozygosity with population size.     

The effect of familiarity on social interactions in meadow voles,Microtus pennsylvanicus: a laboratory and field study

The role of familiarity in affecting the outcome of social interactions among meadow voles was investigated in both a laboratory and a field experiment. In the laboratory, captive meadow voles, Microtus pennsylvanicus, were exposed to a conspecific's odour. The voles were then placed into two groups: familiar and unfamiliar. Familiar voles were individuals who underwent staged dyadic encounters with the conspecific to whose odours they had been exposed. Unfamiliar voles were individuals who underwent paired encounters with conspecifics to whose odours they had not been exposed. In the field experiment, familiar voles were neighbours that were trapped within each other's home ranges over two consecutive bi-weekly trapping sessions. Unfamiliar voles were individuals that were trapped on different trapping grids. The results of the laboratory and field studies were similar. Encounters between familiar females resulted in less agonistic behaviour and more amicable acts than encounters between unfamiliar females. In contrast, encounters between familiar males resulted in more agonistic behaviour than encounters between unfamiliar males. Familiarity did not affect the outcome of male-female interactions. These results are discussed in the framework of the social system of the meadow vole.     

Multi-annual density fluctuations and habitat size enhance genetic variability in two northern voles

In order to gain a better understanding of the consequences of population density cycles and landscape structure for the genetic composition in time and space of vole populations, we analyzed the multiannual genetic structure of the two numerically dominant, sympatric small rodent species of northernmost Fennoscandia. Red voles Myodes rutilus and grey-sided voles M. rufocanus were trapped in the subarctic birch forest along three fjords over five years. Along each fjord, there were four or five altitudinal transects each with five trapping stations. Spring and fall population densities were estimated from mark–recapture data. Grey-sided voles exhibited higher amplitude density fluctuations than red voles. Polymorphism at eight or nine microsatellite loci, determined in 1228 voles, was used to estimate local genetic diversity and differentiation among samples. Genetic diversity was higher in grey-sided voles than in red voles. Spring densities had no effect on local genetic diversity or on differentiation. The amplitude of density fluctuations and the extent of favorable habitat (sub-arctic birch forest) surrounding each site had a positive effect on genetic diversity, and the amplitude of density fluctuations had a negative effect on differentiation in red voles, for which fluctuating populations were compared with more stable populations. The harmonic mean of densities, reflecting average population sizes, had a negative effect on genetic diversity in red voles, but a positive effect in grey-sided voles, for which only fluctuating populations were compared. No other effects were significant for grey-sided voles. A temporal assignment test showed that the spatial structure was more stable in time for populations with more stable population dynamics. Altogether our results suggest that high amplitude density fluctuations lead to more gene flow and higher genetic diversity in vole populations.     

Seasonal Changes in Reproductive Tolerance, Spacing, and Social Organization in Meadow Voles: A Microtine Model

Current theory and supporting data regarding population regulationand cycling in microtine rodents needs to be reviewed in lightof a new, season-sensitive model of social behavior for meadowvoles, Microtus pennsylvanicus. The finding of a clear socialimperative among meadow voles during most of the fall, winterand spring conflicts with the prediction of high levels of socialintolerance in the higher density populations commonly existinglate in the year. The general rarity of adult dispersal, exceptduring periods of declining densityin winter and early spring,and the contact-seeking nature of this dispersal,are generallycontradictory to predictions based on "intrinsic’ theories.Finally,published data on meadow vole reproduction, recruitmentand dispersal, and hence demography, are probably biased asa result of effects produced by the spread of rodent pheromonesby investigators, prolonged entrapment of individual voles,and inappropriate behavioral measures in the field.     

Effects of Prebaiting on Small Mammal Trapping Success in a Morrow's Honeysuckle-Dominated Area

Abstract: Researchers have obtained mixed results in studies that use prebaiting to enhance small mammal trapping success. In 2004–2005 we tested the effects of prebaiting on small mammal trapping success in an exotic and invasive shrub community, Morrow's honeysuckle (Lonicera morrowii), using 4 80 × 120-m live trapping grids at Fort Necessity National Battlefield in Fayette County, Pennsylvania, USA. We randomly assigned traps to 1 of 3 trapping methods: we prebaited one-third of the traps 2 nights (n = 3,508 trap-nights), one-third one night (n = 3,492 trap-nights), and one-third had no prebaiting (n = 3,509 trap-nights). We compared small mammal richness, diversity, and relative abundance (no. captures/100 trap-nights) of white-footed mice (Peromyscus leucopus; n = 462 captures), meadow voles (Microtus pennsylvanicus; n = 89 captures), meadow jumping mice (Zapus hudsonius; n = 221 captures), masked shrews (Sorex cinereus; n = 87 captures), and shorttail shrews (Blarina brevicauda; n = 78 captures) among prebaited traps and non-prebaited traps. On the first day of trapping, as well as all 4 days combined, richness, diversity, and relative abundance for all species were similar among traps that we had prebaited for 2 nights, one night, and zero nights (P = 0.856). Moreover, total number of captures was similar among prebaiting treatments (P = 0.197). These results suggest that prebaiting does not enhance trapping success for small mammals in a landscape dominated by a dense, exotic shrub. We recommend that managers do not employ prebaiting in areas with similar small mammal species composition in an attempt to increase trapping success, as we did not record a difference in trapping success in prebaited traps compared to non-prebaited traps.     

Can population growth rates vary with the spatial scale at which they are measured?

1.  The ratio of successive population censuses is often assumed to reflect population growth rates. We identify three simple potential sources of bias in the estimation of population growth rates that relate to either the total number of censused individuals or the spatial areas over which censuses are conducted.
2.  The commonly used method of adding a constant to time series data to avoid problems caused by division by zero can lead to underestimation of growth rates at low densities in increasing populations.
3.  Variances associated with density estimates can lead to positive bias in estimation of growth rates when populations are distributed in ephemeral patches. The spatial variance and spatio-temporal covariance in bank vole census data suggest that this bias could be severe when small trapping grids are used. Use of logged estimators of growth rate avoids this problem.
4.  Using census data from non-randomly placed trapping grids that are smaller than twice the maximum range of natal dispersal to estimate population growth rates can lead to negatively biased estimates, particularly at low population densities.
5.  These three sources of bias are evaluated as explanations for scale-dependent changes in the estimates of growth rates identified in populations of snowshoe hare ( Lepus americanus ), bank voles ( Clethrionomys glareolus ) and lemmings ( Lemmus lemmus ).     

Evaluating summary statistics used to test for incomplete lineage sorting: mito‐nuclear discordance in the reef sponge Callyspongia vaginalis

Conflicting patterns of population differentiation between the mitochondrial and nuclear genomes (mito‐nuclear discordance) have become increasingly evident as multilocus data sets have become easier to generate. Incomplete lineage sorting (ILS) of nucDNA is often implicated as the cause of such discordance, stemming from the large effective population size of nucDNA relative to mtDNA. However, selection, sex‐biased dispersal and historical demography can also lead to mito‐nuclear discordance. Here, we compare patterns of genetic diversity and subdivision for six nuclear protein‐coding gene regions to those for mtDNA in a common Caribbean coral reef sponge, Callyspongia vaginalis, along the Florida reef tract. We also evaluated a suite of summary statistics to determine which are effective metrics for comparing empirical and simulated data when testing drivers of mito‐nuclear discordance in a statistical framework. While earlier work revealed three divergent and geographically subdivided mtDNACOI haplotypes separated by 2.4% sequence divergence, nuclear alleles were admixed with respect to mitochondrial clade and geography. Bayesian analysis showed that substitution rates for the nuclear loci were up to 7 times faster than for mitochondrial COI. Coalescent simulations and neutrality tests suggested that mito‐nuclear discordance in C. vaginalis is not the result of ILS in the nucDNA or selection on the mtDNA but is more likely caused by changes in population size. Sperm‐mediated gene flow may also influence patterns of population subdivision in the nucDNA.     

Population structure and genetic diversity of metamorphic and paedomorphic populations of the tiger salamander,Ambystoma tigrinum

Genetic relationships, population subdivision and genetic diversity were estimated from mtDNA and allozyme data for two subspecies of tiger salamander, one of which is obligately metamorphic and the other polymorphic for paedomorphosis (larval reproduction). Far greater genetic differentiation exists between subspecies than within subspecies, suggesting that the subspecies have evolved in allopatry. Values of F_st calculated from both mtDNA and allozymes were greater than 0.400 for each subspecies. Significant population subdivision was detected even on a microgeographic scale. This extensive population subdivision indicates that populations can respond to extremely localized selection pressures. In the case of paedomorphosis, populations in permanent water should evolve paedomorphosis as long as the appropriate genes exist. For both mtDNA and allozymes, comparisons of population structure within the polymorphic subspecies and between polymorphic and metamorphic subspecies reveal no discernible effects of paedomorphosis. However, a comparison of paedomorphic and metamorphic populations of the polymorphic subspecies showed significantly higher mtDNA diversity in paedomorphic populations. The discrepancy between the allozyme and mtDNA results may be due to the lower effective population size of mtDNA compared to autosomal genes.     

Population structure and genetic variation in the endangered Giant Kangaroo Rat (<Emphasis Type="Italic">Dipodomys ingens</Emphasis>)

Populations of the endangered giant kangaroo rat, Dipodomys ingens (Heteromyidae), have suffered increasing fragmentation and isolation over the recent past, and the distribution of this unique rodent has become restricted to 3% of its historical range. Such changes in population structure can significantly affect effective population size and dispersal, and ultimately increase the risk of extinction for endangered species. To assess the fine-scale population structure, gene flow, and genetic diversity of remnant populations of Dipodomys ingens, we examined variation at six microsatellite DNA loci in 95 animals from six populations. Genetic subdivision was significant for both the northern and southern part of the kangaroo rat’s range although there was considerable gene flow among southern populations. While regional gene diversity was relatively high for this endangered species, hierarchical F-statistics of northern populations in Fresno and San Benito counties suggested non-random mating and genetic drift within subpopulations. We conclude that effective dispersal, and therefore genetic distances between populations, is better predicted by ecological conditions and topography of the environment than linear geographic distance between populations. Our results are consistent with and complimentary to previous findings based on mtDNA variation of giant kangaroo rats. We suggest that management plans for this endangered rodent focus on protection of suitable habitat, maintenance of connectivity, and enhancement of effective dispersal between populations either through suitable dispersal corridors or translocations.     

The effects and limits of territoriality on population regulation in grey red-backed voles,Clethrionomys rufocanus bedfordiae

The effects of breeding territoriality on the stability of grey red-backed vole (Clethrionomys rufocanus bedfordiae) populations were investigated on a control grid and a grid on which the voles were fed, in an outdoor enclosure in Hokkaido, Japan. Vole populations were monitored by live trapping from 1984 to 1986: (1) Population density was 2–7 times greater on the experimental grid to which food was added than on the control grid. Reproductive output was more closely associated with the difference in density between grids than survival or dispersal (immigration and emigration) rates. (2) The number of adult females and pregnancy rate of the experimental population were significantly greater than those of the control one. The difference in the number of adult females between the populations was greater than that in pregnancy rate. (3) The proportion of successful litters and the number of weanlings per litter were not significantly different between the control and experimental population. (4) Adult females held territories on both the control and experimental grid; they were spaced out more than would be expected from random occupation. The territories overlapped more on the experimental grid than on the control grid. (5) Mean territory size of adult females on the experimental grid was about half of that on the control grid. The territory size was correlated negatively with population density. (6) The proportion of trap sites that were used by adult females was significantly greater on the experimental grid than on the control grid. This suggests that adult females on the experimental grid used the area more extensively. This factor, in association with territory size and overlapping of territory, was also important in causing the difference in the number of adult females between the grids. (7) These results call into question the hypothesis that territoriality stabilizes the density in populations of Clethrionomys.     

Migration without interbreeding: Evolutionary history of a highly selfing Mediterranean grass inferred from whole genomes

Wild plant populations show extensive genetic subdivision and are far from the ideal of panmixia which permeates population genetic theory. Understanding the spatial and temporal scale of population structure is therefore fundamental for empirical population genetics – and of interest in itself, as it yields insights into the history and biology of a species. In this study we extend the genomic resources for the wild Mediterranean grass Brachypodium distachyon to investigate the scale of population structure and its underlying history at whole-genome resolution. A total of 86 accessions were sampled at local and regional scales in Italy and France, which closes a conspicuous gap in the collection for this model organism. The analysis of 196 accessions, spanning the Mediterranean from Spain to Iraq, suggests that the interplay of high selfing and seed dispersal rates has shaped genetic structure in B. distachyon. At the continental scale, the evolution in B. distachyon is characterized by the independent expansion of three lineages during the Upper Pleistocene. Today, these lineages may occur on the same meadow yet do not interbreed. At the regional scale, dispersal and selfing interact and maintain high genotypic diversity, thus challenging the textbook notion that selfing in finite populations implies reduced diversity. Our study extends the population genomic resources for B. distachyon and suggests that an important use of this wild plant model is to investigate how selfing and dispersal, two processes typically studied separately, interact in colonizing plant species.     

Colonization history of north European field voles (Microtus agrestis) revealed by mitochondrial DNA

The genetic structure of field vole (Microtus agrestis) populations from northern Europe was examined by restriction fragment length polymorphisms of mitochondrial DNA (mtDNA) in 150 individuals from 67 localities. A total of 83 haplotypes was observed, most of which were rare and highly localized geographically. Overall nucleotide diversity was high (134%), but showed a tendency to decrease with higher latitude. Two major mtDNA lineages differing by 2% in nucleotide sequence were identified. A southern mtDNA lineage was observed in field voles from Britain, Denmark and southern and central Sweden, whereas voles from Finland and northern Sweden belonged to a northern lineage. The strict phylogeographic pattern suggests that the present population generic structure in field voles reflects glacial history: the two groups are derived from different glacial refugia, and recolonized Fennoscandia from two directions. A 150–200-km-wide secondary contact zone between the two mtDNA groups was found in northern Sweden. Distinct phylogeographic substructuring was observed within both major mtDNA groups.     

Sexual differences in habitat use by small mammals: evolutionary strategy or reproductive constraint?

Summary This study examines the hypothesis that intersexual differences in habitat use by small mammals is an adaptive strategy. Specifically, I evaluate the occurrence of sexual differences in habitat by Peromyscus and Microtus, and test possible adaptive mechanisms which may lead to such differences.White-footed mice and meadow voles were live-trapped and microhabitat quantified in four habitats. Sexual differences in microhabitat use were found in three of 12 comparisons. These differences may be related to density dependent resource subdivision and habitat heterogencity, but neither of these can account completely for the observed patterns. Sexual differences in habitat do not appear to be an evolutionary strategy maximizing reproductive effort by females, or reducing predation. These sexual differences may reduce intraspecific resource overlap, or may simply reflect reproductive constraints limiting female habitat use to suitable nesting areas.     

Regulation of root vole population dynamics by food supply and predation: a two-factor experiment

This paper reports the effects of food supply, predation and the interaction between them on the population dynamics of root voles, Microtus oeconomus , by adopting factorial experiments in field enclosures. This two-factor experiment proved the general hypothesis that food supply and predation had independent and additive effects on population dynamics of root voles. The experimental results proved the following predictions: (1) predation reduced population density and recruitment significantly; (2) food supply increased population density; (3) predation and food supply influenced spacing behavior of root voles separately and additively: Exposure to predation reduced long movements of root voles between trapping sessions; additional food supply reduced aggression level and home range size of root voles. Less movement of individuals that exposed to predators possibly reduced their opportunity of obtaining food and lessened population survival rate, which led population density to decrease. Smaller home range and lower aggression level could make higher population density tolerable. The interactive effect of predation and food on home range size was highly significant (P=0.0082<0.01). The interactive effect of food and predation on dispersal rate was significant (P<0.01). From the experimental results, we conclude that the external factors (predation, food supply) were more effective than internal factors (spacing behavior) in determining population density of root voles – under the most favorable external conditions (−P, +F treatment), the mean density and mean recruitment of root vole population was the highest; under the most unfavorable external conditions (+P, −F treatment), the mean density and mean recruitment of root vole population was the lowest.     

DIFFERENTIATION OF MITOCHONDRIAL DNA POLYMORPHISMS IN POPULATIONS OF FIVE JAPANESE ABIES SPECIES

Mitochondrial DNA polymorphism of 40 populations of five Abies species was investigated using PCR-amplified coxI and coxIII gene probes. Using four combinations of probe and restriction enzyme, we detected three major haplotypes and 15 total haplotypes. We also found varied levels of gene diversity for the different species: 0.741, 0.604, 0.039, 0.000, and 0.292 for A. firma, A. homolepis, A. veitchii, A. mariesii, and A. sachalinensis, respectively. The marginal and southern populations of A. firma and A. homolepis have unique haplotypes, especially the Kyushu, Shikoku, and Kii Peninsula populations, which inhabit areas coinciding with probable refugia of the last glacial period and possess high levels of mtDNA genetic diversity. The haplotypes in some populations suggested mtDNA capture also occurred between species through introgression/hybridization. The strong mtDNA population differentiation in Abies is most likely due to the maternal inheritance of mitochondria and restricted seed dispersal. A phenetic tree based on the genetic similarity of the mtDNA suggests that some species are polyphyletic. Based on mtDNA variation, the five Abies species could be divided roughly into three groups: (1) A. firma and A. homolepis, (2) A. veitchii and A. sachalinensis, and (3) A. mariesii. However, we found that all these Abies species, except A. mariesii, are genetically very closely related according to an analysis of their cpDNA sequences. This showed that the chloroplast rbcL gene differed by only one base substitutions among the four species. We believe that the mtDNA variation and cpDNA similarity clearly reflect relationships among, and the dissemination processes affecting these Abies species since the last glacial period.     

Is space management of female meadow voles (Microtus pennsylvanicus) related to nutritive quality of plants?

Summary It is thought by many (see Ims 1987 for review; Desy and Batzli 1989) that high quality food regulate population processes, territoriality and mating systems among small herbivores like meadow voles (Microtus pennsylvanicus). We thought that comparisons of nutritive components from selected plants eaten by sexually active and inactive voles, as well as between territorial and non territorial sexually active females would bring some light into these theoretical considerations. Sexually active females did have a higher diet quality over inactive ones and over active and inactive males. Nutritive components of selected species from territorial reproductive females did not vary significantly from those of the non territorial females the year of higher crowding conditions but they varied significantly the following year when population density of voles was much lower. This decline in food quality coincided with a switch in food selection. Since there were only eight plant species involved in such processes, we think that crowding condition and availability of high quality food are two factors involved concurrently in space management and territoriality among voles.     

Adult philopatry and dispersal in the field vol Microtus agrestis

Summary Using mark-recapture data, we related the movements of adult field voles to population density, sex ratio and population growth. Dispersal movements (defined as distances larger than 1 home range diameter) were few in both sexes; 4 out of 197 (2.0%) in males and 8 of 316 (2.5%) in females. The distance moved between sequential trapping periods was similar for males and females; the mean being 10.2 m and 9.0 m respectively. Both males and females moved larger distances during the breeding season than during the nonbreeding period. The distance moved between sequential trapping periods showed a strong negative relation to density, i.e. both sexes moved shorter distances at higher densities, but there were no differences between periods of increasing and declining population densities. These results contradict the dispersal predictions of all major hypotheses proposed to explain population fluctuations in small mammals. The dispersal patterns fit a geometric distribution, suggesting that competition is the primary factor determining the dispersal characteristics of this population.     

Comparative population structure of three snook species (Teleostei: Centropomidae) from the eastern central Pacific

Three snook species, Centropomus viridis, Centropomus medius, and Centropomus robalito, from the eastern central Pacific, representing three of the four proposed phyletic lineages in the genus, were analyzed for genetic variability by means of allozyme and RAPD to evaluate the divergence between populations at different levels of dispersal ability and to evaluate the importance of barriers to dispersal in the population subdivision and genetic diversity. Levels of genetic diversity among species estimated by allozymes were similar and consistent with the observed levels of differentiation in marine fish species. Mean heterozygosity ranged from 0.089 for C. viridis to 0.10 for C. robalito. Genetic diversity for the snook species studied was slightly higher than the mean estimation reported in allozymes for 106 marine fish (0.055) and for anadromous fish species (0.043 to 0.057). Multilocus allele frequency homogeneity tests and population-subdivision estimates for both allozyme and RAPD markers revealed the existence of population structure in C. viridis and C. medius, in coincidence with geographic separation of samples, whereas no divergence was detected in C. robalito. This finding may be attributed to the greater population size of C. robalito, which originated by a recent population range expansion, and hence the potential for dispersal is mediated by larval drift. Fluctuations in population size and population range expansion are used to explain discrepancies between levels of genetic diversity and population structure in the studied species. Supplementary material to this paper is available in electronic format at