Increase In Gene Flow Research Articles

How Important Is Variation in Extrinsic Reproductive Isolation to the Process of Speciation?

The strength of reproductive isolation (RI) between two or more lineages during the process of speciation can vary by the ecological conditions. However, most speciation research has been limited to studying how ecologically dependent RI varies among a handful of broadly categorized environments. Very few studies consider the variability of RI and its effects on speciation at finer scales-that is, within each environment due to spatial or temporal environmental heterogeneity. Such variation in RI across time and/or space may inhibit speciation through leaky reproductive barriers or promote speciation by facilitating reinforcement. To investigate this overlooked aspect of speciation research, we conducted a literature review of existing studies of variation in RI in the field and then conducted individual-based simulations to examine how variation in hybrid fitness across time and space affects the degree of gene flow. Our simulations indicate that the presence of variation in hybrid fitness across space and time often leads to an increase in gene flow compared to scenarios where hybrid fitness remains static. This observation can be attributed to the convex relationship between the degree of gene flow and the strength of selection on hybrids. Our simulations also show that the effect of variation in RI on facilitating gene flow is most pronounced when RI, on average, is relatively low. This finding suggests that it could serve as an important mechanism to explain why the completion of speciation is often challenging. While direct empirical evidence documenting variation in extrinsic RI is limited, we contend that it is a prevalent yet underexplored phenomenon. We support this argument by proposing common scenarios in which RI is likely to exhibit variability and thus influence the process of speciation.

Spatial variation in population genomic responses to over a century of anthropogenic change within a tidal marsh songbird.

Combating the current biodiversity crisis requires the accurate documentation of population responses to human-induced ecological change. However, our ability to pinpoint population responses to human activities is often limited to the analysis of populations studied well after the fact. Museum collections preserve a record of population responses to anthropogenic change that can provide critical baseline data on patterns of genetic diversity, connectivity, and population structure prior to the onset of human perturbation. Here, we leverage a spatially replicated time series of specimens to document population genomic responses to the destruction of nearly 90% of coastal habitats occupied by the Savannah sparrow (Passerculus sandwichensis) in California. We sequenced 219 sparrows collected from 1889 to 2017 across the state of California using an exome capture approach. Spatial-temporal analyses of genetic diversity found that the amount of habitat lost was not predictive of genetic diversity loss. Sparrow populations from southern California historically exhibited lower levels of genetic diversity and experienced the most significant temporal declines in genetic diversity. Despite experiencing the greatest levels of habitat loss, we found that genetic diversity in the San Francisco Bay area remained relatively high. This was potentially related to an observed increase in gene flow into the Bay Area from other populations. While gene flow may have minimized genetic diversity declines, we also found that immigration from inland freshwater-adapted populations into tidal marsh populations led to the erosion of divergence at loci associated with tidal marsh adaptation. Shifting patterns of gene flow through time in response to habitat loss may thus contribute to negative fitness consequences and outbreeding depression. Together, our results underscore the importance of tracing the genomic trajectories of multiple populations over time to address issues of fundamental conservation concern.

​Elucidation of Genetic Divergence among Cattle Breeds of Tamil Nadu in Mitochondrial Genome

Background: The present study was carried out for genetic characterization and assessment of evolutionary status of native cattle breeds of Tamil Nadu, India. Methods: Complete mitochondrial genome sequence of 15 pooled samples belonging to five cattle breeds of Tamil Nadu was carried out for the first time using Illumina platform. These mitogenomes were utilized in the present investigation to study the mitochondrial diversity. using suitable statistical tools. Result: The sequences encompassed 16,338 to 16,340 nucleotides with 273 variants. Low degree of genetic divergence and polymorphism was observed in the population. Higher rate of migrants (11.77) between populations caused increase in gene flow. FST value of -0.04435 revealed low level of genetic differentiation between cattle breeds of Tamil Nadu. A significant negative Tajima’s D (P less than 0.05) for all the Bos indicus cattle indicates operation of purifying selection and population expansion among the genetic groups under study. Maximum likelihood reconstruction using complete mitochondrial sequences of the present study combined with previously reported sequences of Nellore cattle and eight Bos taurus cattle breeds illustrated close genetic relationship among the Bos indicus cattle under study with a clear demarcation from the Bos taurus cattle indicating higher genetic divergence between the two lineages. This finding was also supported by multi-dimensional scaling. Analysis of molecular variance revealed no differentiation between cattle breeds of Tamil Nadu.

ALTERAÇÕES NA MICROBIOTA GASTROINTESTINAL DE CRIANÇAS COM TRANSTORNO DO ESPECTRO AUTISTA: UMA REVISÃO SISTEMÁTICA

Researchs about the causes of Autistic Spectrum Disorder (ASD) has led several scientists to relate many others systems to the patient's brain, linking changes in the gastrointestinal microbiota (GIM) to typical behaviors of people with ASD, suggesting that the brain-intestine axis is an important piece in this 'puzzle'. This work aimed to investigate the microbiota gastrointestinal in children with ASD. Such research was carried out on scientific work platforms, resulting in 293 works, which, after the selection, totaled 28 works analyzed. Almost all of them showed changes in the intestinal microbiota of children with ASD, the reduction of their diversity being the main alteration of these individuals in relation to the control group. The bacterial family Lachnospiraceae, the bacterial gender Lactobacillus, Clostridium, Feacalibacterium, and Bacteroides stood out in these studies; and the fungal genus Candida. Among the symptoms, constipation was quite frequent in children with ASD and some groups of microorganisms were positively or negatively associated with changes in sleep, speech development and behavioral aspects. We conclude that there are several alterations of GIM in children with autism when compared to children with typical neurodevelopment, being also affected by anatomical and metabolic issues as causes or consequences of ASD. There is a need for further studies, especially in the Brazilian population, and more specifically in the states, in view of the great heterogeneity of our people and their culture, the great dietary variations of the last decades, as well as the increase in gene flow among world populations.

Early divergence and differential population histories of the Indo-Pacific humpback dolphin in the Pacific and Indian Oceans.

The currently recognized Indo-Pacific humpback dolphin occurs in estuaries and surrounding shallow waters from the South China Sea to the Asian coast of the Indian Ocean. However, a recent study suggested that the humpback dolphin from the Bay of Bengal may represent a distinct phylogenetic species. In this study, we sequenced 915-bp mtDNA segments from five geographic populations in both Chinese and Thai waters; together with previously published sequences, these data revealed that the ancestral Indo-Pacific humpback dolphin might have split during the transition from the Oligocene to Miocene (23.45 Mya, 95% HPD: 16.65-26.55 Mya), and then dispersed along the Pacific and Indian Ocean coasts of Asia. Genetic differentiation was detected between most of the examined populations, except for only a few pairwise populations in the northern South China Sea. Genetic differentiation/distance between the humpback dolphins from the northern and southern South China Sea met the sub-species threshold value proposed for marine mammals, whereas that between the humpback dolphins in the Pacific and the Indian Ocean was above the species threshold. Bayesian inference of historic gene flow indicated low but constant northward gene flow along the Indian Ocean coast; however, there was a recent abrupt increase in gene flow in the Pacific region, likely due to the shortening coastline at the low stand of sea level. Our results revealed that the current taxonomic classification of Indo-Pacific humpback dolphins may not reflect their phylogeography.

Social learning by mate‐choice copying increases dispersal and reduces local adaptation

Abstract In heterogeneous environments, dispersal may be hampered not only by direct costs, but also because immigrants may be locally maladapted. While maladaptation affects both sexes, this cost may be modulated in females if they express mate preferences that are either adaptive or maladaptive in the new local population. Dispersal costs under local adaptation may be mitigated if it is possible to switch to expressing traits of locally adapted residents. In a sexual selection context, immigrant females may learn to mate with locally favoured males. Mate‐choice copying is a type of social learning, where individuals, usually females, update their mating preferences after observing others mate. If it allows immigrant females to switch from maladapted to locally adapted preferences, their dispersal costs are mitigated as mate choice helps them create locally adapted offspring. To study if copying can promote the evolution of dispersal, we created an individual‐based model to simulate the coevolution of four traits: copying, dispersal, a trait relevant for local adaptation, and female preference. We contrast two scenarios with copying—either unconditional or conditional such that only dispersers copy—with a control scenario that lacks any copying. We show copying to lead to higher dispersal, especially if copying is conditionally expressed. This leads to an increase in gene flow between patches and, consequently, a decrease in local adaptation and trait‐preference correlations. While our study is phrased with female preference as the learned trait, one may generally expect social learning to mitigate dispersal costs, with consequent feedback effects on the spatial dynamics of adaptation. A free Plain Language Summary can be found within the Supporting Information of this article.

Evolution and disappearance of sympatric Coregonus albula in a changing environment-A case study of the only remaining population pair in Sweden.

During the past 50 years, Fennoscandian populations of spring‐spawning Baltic cisco (Coregonus albula), sympatric to common autumn‐spawners, have declined or disappeared; for example, three out of four known spring‐spawning populations in Sweden are regarded as extinct. Over the same period, the climate has changed and populations have been subject to other anthropogenic stressors. We compared historic (1960s) and recent (1990–2000s) morphological data from the still‐existent sympatric cisco populations in Lake Fegen, Sweden. Phenotypic changes were found for spring‐spawners making them more similar to the sympatric autumn‐spawners that had remained virtually unchanged. Based on results for other salmoniform fishes, a phenotypically plastic response to increased temperature during early development appears unlikely. The recent material was also analyzed with microsatellite markers; long‐term effective population size in spring‐spawners was estimated to be about 20 times lower than autumn‐spawners, with signs of long‐term gene flow in both directions and a recent genetic bottleneck in spring‐spawners. We suggest the change toward a less distinct phenotype in spring‐spawners to reflect a recent increase in gene flow from autumn‐spawners. Time since divergence was estimated to only c. 1,900 years (95% CI: 400–5,900), but still the Fegen populations represent the most morphologically and genetically distinct sympatric populations studied. Consequently, we hypothesize that less distinct population pairs can be even younger and that spring‐spawning may have repeatedly evolved and disappeared in several lakes since the end of the last glaciation, concurrent with changed environmental conditions.

Post-Disturbance Genetic Changes: The Impact of the 2010 Mega-Earthquake and Tsunami on Chilean Sandy Beach Fauna

Earthquake/tsunamis can have profound impacts on species and their genetic patterns. It is expected that the magnitude of this impact might depend on the species and the time since the disturbance occurs, nevertheless these assumptions remain mostly unexplored. Here we studied the genetic responses of the crustacean species Emerita analoga, Excirolana hirsuticauda, and Orchestoidea tuberculata to the 27F mega-earthquake/tsunami that occurred in Chile in February 2010. mtDNA sequence analyses revealed a lower haplotype diversity for E. analoga and E. hirsuticauda in impacted areas one month after the 27F, and the opposite for O. tuberculata. Three years after the 27F we observed a recovery in the genetic diversity of E. analoga and E. hirsuticauda and decrease in the genetic diversity in O. tuberculata in 2/3 of sampled areas. Emerita analoga displayed decrease of genetic differentiation and increase in gene flow explained by long-range population expansion. The other two species revealed slight increase in the number of genetic groups, little change in gene flow and no signal of population expansion associated to adult survival, rapid colonization, and capacity to burrow in the sand. Our results reveal that species response to a same disturbance event could be extremely diverse and depending on life-history traits and the magnitude of the effect.

Genetic diversity and spatial structure of the Rufous-throated Antbird (Gymnopithys rufigula), an Amazonian obligate army-ant follower.

Amazonian understory antbirds are thought to be relatively sedentary and to have limited dispersal ability; they avoid crossing forest gaps, and even narrow roads through a forest may limit their territories. However, most evidence for sedentariness in antbirds comes from field observations and plot‐based recapture of adult individuals, which do not provide evidence for lack of genetic dispersal, as this often occurs through juveniles. In this study, we used microsatellite markers and mitochondrial control‐region sequences to investigate contemporary and infer historical patterns of genetic diversity and structure of the Rufous‐throated Antbird (Gymnopithys rufigula) within and between two large reserves in central Amazonia. Analyses based on microsatellites suggested two genetically distinct populations and asymmetrical gene flow between them. Within a population, we found a lack of genetic spatial autocorrelation, suggesting that genotypes are randomly distributed and that G. rufigula may disperse longer distances than expected for antbirds. Analyses based on mitochondrial sequences did not recover two clear genetic clusters corresponding to the two reserves and indicated the whole population of the Rufous‐throated Antbird in the region has been expanding over the last 50,000 years. Historical migration rates were low and symmetrical between the two reserves, but we found evidence for a recent unilateral increase in gene flow. Recent differentiation between individuals of the two reserves and a unilateral increase in gene flow suggest that recent urban expansion and habitat loss may be driving changes and threatening populations of Rufous‐throated Antbird in central Amazonia. As ecological traits and behavioral characteristics affect patterns of gene flow, comparative studies of other species with different behavior and ecological requirements will be necessary to better understand patterns of genetic dispersal and effects of urban expansion on Amazonian understory antbirds.

Spatial genetic structure of Lissotriton helveticus L. following the restoration of a forest ponds network

Preserving amphibian genetic diversity through ecological restoration and conservation actions is a major challenge since their populations are declining worldwide. We studied the genetic diversity and spatial genetic structure of the palmate newt (Lissotriton helveticus) 2 years after the restoration of a pond network in northwestern France with the aim of reconstructing fine-scale genetic structure and patterns of colonization. We sampled newts from 29 forest ponds including both restored and non-degraded reference ponds, and genotyped 391 individuals at 12 microsatellite loci. We used two Bayesian clustering methods to spatially delineate genetic clusters, and we also detected potential recent migrants within the network. All ponds showed low levels of observed heterozygosity (Ho = 0.534) and a mean F IS of 0.251, possibly indicating a Wahlund or bottleneck effect. Pairwise F ST suggested limited evidence of genetic differentiation among ponds. Within the pond network, we identified 3 to 4 genetic clusters. Combined with the detection of migrants, the results suggest an increase in gene flow within the restored pond network and that a high number of migrants came from the reference ponds. Our findings indicate an unexpected high dispersal ability for this small-bodied species. Overall, the absence of population structure represents a positive beginning for the restoration project. It also emphasizes the importance of spatial design in restoring a pond network and that such genetic data and methods should be used to monitor amphibians in restored habitats.

Greater temperature sensitivity of plant phenology at colder sites: implications for convergence across northern latitudes.

Warmer temperatures are accelerating the phenology of organisms around the world. Temperature sensitivity of phenology might be greater in colder, higher latitude sites than in warmer regions, in part because small changes in temperature constitute greater relative changes in thermal balance at colder sites. To test this hypothesis, we examined up to 20years of phenology data for 47 tundra plant species at 18 high-latitude sites along a climatic gradient. Across all species, the timing of leaf emergence and flowering was more sensitive to a given increase in summer temperature at colder than warmer high-latitude locations. A similar pattern was seen over time for the flowering phenology of a widespread species, Cassiope tetragona. These are among the first results highlighting differential phenological responses of plants across a climatic gradient and suggest the possibility of convergence in flowering times and therefore an increase in gene flow across latitudes as the climate warms.

Emergence of long-term balanced polymorphism under cyclic selection of spatially variable magnitude.

A fundamental question in evolutionary biology is what promotes genetic variation at nonneutral loci, a major precursor to adaptation in changing environments. In particular, balanced polymorphism under realistic evolutionary models of temporally varying environments in finite natural populations remains to be demonstrated. Here, we propose a novel mechanism of balancing selection under temporally varying fitnesses. Using forward-in-time computer simulations and mathematical analysis, we show that cyclic selection that spatially varies in magnitude, such as along an environmental gradient, can lead to elevated levels of nonneutral genetic polymorphism in finite populations. Balanced polymorphism is more likely with an increase in gene flow, magnitude and period of fitness oscillations, and spatial heterogeneity. This polymorphism-promoting effect is robust to small systematic fitness differences between competing alleles or to random environmental perturbation. Furthermore, we demonstrate analytically that protected polymorphism arises as spatially heterogeneous cyclic fitness oscillations generate a type of storage effect that leads to negative frequency dependent selection. Our findings imply that spatially variable cyclic environments can promote elevated levels of nonneutral genetic variation in natural populations.

Analysis of population genetic structure and gene flow in an annual plant before and after a rapid evolutionary response to drought.

The impact of environmental change on population structure is not well understood. This study aimed to examine the effect of a climate change event on gene flow over space and time in two populations of Brassica rapa that evolved more synchronous flowering times over 5 years of drought in southern California. Using plants grown from seeds collected before and after the drought, we estimated genetic parameters within and between populations and across generations. We expected that with greater temporal opportunity to cross-pollinate, due to reduced phenological isolation, these populations would exhibit an increase in gene flow following the drought. We found low but significant FST, but no change in FST or Nm across the drought, in contrast to predictions. Bayesian analysis of these data indicates minor differentiation between the two populations but no noticeable change in structure before and after the shift in flowering times. However, we found high and significant levels of FIS, indicating that inbreeding likely occurred in these populations despite self-incompatibility in B. rapa. In this system, we did not find an impact of climate change on gene flow or population structuring. The contribution of gene flow to adaptive evolution may vary by system, however, and is thus an important parameter to consider in further studies of natural responses to environmental change.

Use of genetic markers to determine change in population structure of deer ticks in Wisconsin (570.2)

During the early 2000’s, tick infection rates in the endemic Northwest and nonendemic Central areas of WI were 36% and 4%, respectively, for Borrelia burgdorferi, the Lyme disease pathogen. In 2004, Borrelia populations and deer ticks populations were both found distinct among Northwest WI, Central WI, and Northeast WI, with very little gene flow among them. However, in 2013, Borrelia abundance has increased with 44% infection rate in Central WI. Possible cause for increased prevalence may be due to increased tick abundance and increased gene flow from high to low endemic regions in the state. The use of 16S mtDNA sequences was used to assess the current population structure of deer ticks in Northern Wisconsin. In 2013, tick 16S haplotypes were identified from Northwest WI, Central WI, and Northeast WI and the distribution of haplotypes among the study sites were determined. Several unique haplotypes found only in Northwest WI from 1999 are now found in Central WI. Phi statistical estimates may reveal ticks as being one population between the Northeast and Central WI, due to an increase in gene flow. This may be the possible cause of increased incidences of tick‐borne disease in Wisconsin. The study may also be informative for medical professionals in Wisconsin.Grant Funding Source: Supported by UWSP College of Letters and Science

Diversity and genetic connectivity among populations of a threatened tree (Dalbergia nigra) in a recently fragmented landscape of the Brazilian Atlantic Forest

In this study we evaluated the influence of recent landscape fragmentation on the dynamics of remnant fragments from the Brazilian Atlantic Forest. This biome is one of the richest in the world and has been extensively deforested and fragmented. We sampled five populations of the threatened Dalbergia nigra, a tree endemic to the Brazilian Atlantic Forest, two located in a large reserve of continuous forest and three in fragments of different sizes and levels of disturbance. In order to assess historical changes, considering the longevity of the analyzed species, 119 adults and 116 saplings were genotyped for six microsatellite loci. Lower levels of genetic diversity were found in the most impacted fragments when compared to the most preserved population located inside the reserve, and there was significant genetic structure among the populations studied (pairwise F(ST) = 0.031-0.152; pairwise D(EST) = 0.039-0.301). However, genetic structure among saplings (F ST) = 0.056; D(EST) = 0.231) was significantly lower than among adults (F(ST) = 0.088; D(EST) = 0.275). Estimates of contemporary gene flow based on assignment tests corroborated this result, suggesting that fragmentation led to an increase in gene flow. This connectivity among remnant fragments could mitigate the loss of genetic diversity through a metapopulation dynamic, but the high rate of habitat loss and the unknown long-term genetic effects add uncertainty. These results, taken together with the presence of private alleles in disturbed populations, highlight the importance of preserving the extant fragments.

Biocultural Histories in La Florida: A Bioarchaeological Perspective

Biocultural Histories in La Florida: A Bioarchaeological Perspective