Spatial genetic structure of lowbush blueberry, Vaccinium angustifolium, in four fields in Maine

Botany ◽  
2009 ◽  
Vol 87 (10) ◽  
pp. 932-946 ◽  
Author(s):  
Daniel J. Bell ◽  
Lisa J. Rowland ◽  
Dapeng Zhang ◽  
Frank A. Drummond
Keyword(s):  
Genetic Structure ◽  
Genetic Similarity ◽  
Seedling Recruitment ◽  
Expressed Sequence Tag ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Principal Component ◽  
Physical Distance ◽  
Vaccinium Angustifolium ◽  
Lowbush Blueberry

Expressed sequence tag – polymerase chain reaction (EST-PCR) molecular markers were used to infer spatial genetic structure of four lowbush blueberry ( Vaccinium angustifolium Ait.) fields in Maine. Genetic structure was quantified at three spatial scales: (1) within apparent clones (intrapatch), (2) among clones within a field, and (3) among fields separated by as much as 65 km. Of five “clones” or putative individuals examined in the intrapatch study, two showed complete genetic homogeneity within the patch, while three showed some band differences at their edges compared with their interiors. These differences at the edges, however, matched adjacent clones (so-called “intruders”), from which it was concluded that lowbush blueberry exhibits a fairly tight, phalanx clonal architecture with no evidence of invasive seedling establishment within clones. No significant correlation between genetic and physical distance was found among clones within fields via several statistical approaches. Significant among-field genetic differentiation was found via AMOVA (ΦPT = 8.4%; p ≤ 0.01) based upon transect samples across four fields ranging from 12.5 to 65 km apart. Principal component analysis and spatial autocorrelation (SA) corroborated these findings. Significant positive SA was found at the within-field distance class of <350 m, but SA decreased to an insignificant value by the first interfield distance of 12.5 km. A special form of SA analysis was employed to detect “hotspots” of genetic similarity between pairs of adjacent clones in two fields. Results indicated that 5 of 23 pairs of clones (21.7%) were genetically similar to each other, while the majority of pairs (18 of 23; 78.3%) showed random, decreasing patterns of genetic similarity. Results are discussed in terms of clonal dynamics including architecture, seedling recruitment, and inferred pollen or seed dispersal distances.

scholarly journals Genomic variation in the American pika: signatures of geographic isolation and implications for conservation

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Kelly B. Klingler ◽  
Joshua P. Jahner ◽  
Thomas L. Parchman ◽  
Chris Ray ◽  
Mary M. Peacock
Keyword(s):  
Genetic Variation ◽  
Genetic Structure ◽  
Sierra Nevada ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Thermal Sensitivity ◽  
Genomic Variation ◽  
Genome Wide ◽  
A Genome ◽  
American Pika

Abstract Background Distributional responses by alpine taxa to repeated, glacial-interglacial cycles throughout the last two million years have significantly influenced the spatial genetic structure of populations. These effects have been exacerbated for the American pika (Ochotona princeps), a small alpine lagomorph constrained by thermal sensitivity and a limited dispersal capacity. As a species of conservation concern, long-term lack of gene flow has important consequences for landscape genetic structure and levels of diversity within populations. Here, we use reduced representation sequencing (ddRADseq) to provide a genome-wide perspective on patterns of genetic variation across pika populations representing distinct subspecies. To investigate how landscape and environmental features shape genetic variation, we collected genetic samples from distinct geographic regions as well as across finer spatial scales in two geographically proximate mountain ranges of eastern Nevada. Results Our genome-wide analyses corroborate range-wide, mitochondrial subspecific designations and reveal pronounced fine-scale population structure between the Ruby Mountains and East Humboldt Range of eastern Nevada. Populations in Nevada were characterized by low genetic diversity (π = 0.0006–0.0009; θW = 0.0005–0.0007) relative to populations in California (π = 0.0014–0.0019; θW = 0.0011–0.0017) and the Rocky Mountains (π = 0.0025–0.0027; θW = 0.0021–0.0024), indicating substantial genetic drift in these isolated populations. Tajima’s D was positive for all sites (D = 0.240–0.811), consistent with recent contraction in population sizes range-wide. Conclusions Substantial influences of geography, elevation and climate variables on genetic differentiation were also detected and may interact with the regional effects of anthropogenic climate change to force the loss of unique genetic lineages through continued population extirpations in the Great Basin and Sierra Nevada.

Effects of seed dispersal, adult tree and seedling density on the spatial genetic structure of regeneration at fine temporal and spatial scales

2010 ◽  
Vol 7 (1) ◽  
pp. 37-48 ◽  
Author(s):  
Fabrice Sagnard ◽  
Sylvie Oddou-Muratorio ◽  
Christian Pichot ◽  
Giovanni G. Vendramin ◽  
Bruno Fady
Keyword(s):  
Genetic Structure ◽  
Seed Dispersal ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Seedling Density ◽  
Adult Tree ◽  
Temporal And Spatial

scholarly journals The Influence of a Seedling Recruitment Strategy and a Clonal Architecture on a Spatial Genetic Structure of a Salvia brachyodon (Lamiaceae) Population

Plants ◽  
2020 ◽  
Vol 9 (7) ◽  
pp. 828
Author(s):  
Ivan Radosavljević ◽  
Oleg Antonić ◽  
Dario Hruševar ◽  
Josip Križan ◽  
Zlatko Satovic ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Seedling Recruitment ◽  
Spatial Genetic Structure ◽  
Population Level ◽  
Significant Negative Correlation ◽  
Recruitment Strategy ◽  
Future Research ◽  
Clonal Architecture ◽  
Surrounding Areas ◽  
Spatial Genetic Analysis

By performing a high-resolution spatial-genetic analysis of a partially clonal Salvia brachyodon population, we elucidated its clonal architecture and seedling recruitment strategy. The sampling of the entire population was based on a 1 × 1 m grid and each sampled individual was genotyped. Population-genetic statistics were combined with geospatial analyses. On the population level, the presence of both sexual and clonal reproduction and repeated seedling recruitment as the prevailing strategy of new genets establishment were confirmed. On the patch level, a phalanx clonal architecture was detected. A significant negative correlation between patches’ sizes and genotypic richness was observed as young plants were not identified within existing patches of large genets but almost exclusively in surrounding areas. The erosion of the genetic variability of older patches is likely caused by the inter-genet competition and resulting selection or by a random die-off of individual genets accompanied by the absence of new seedlings establishment. This study contributes to our understanding of how clonal architecture and seedling recruitment strategies can shape the spatial-genetic structure of a partially clonal population and lays the foundation for the future research of the influence of the population’s clonal organization on its sexual reproduction.

scholarly journals Isolation by resistance across a complex coral reef seascape

2015 ◽  
Vol 282 (1812) ◽  
pp. 20151217 ◽  
Author(s):  
Luke Thomas ◽  
W. Jason Kennington ◽  
Michael Stat ◽  
Shaun P. Wilkinson ◽  
Johnathan T. Kool ◽  
...  
Keyword(s):  
Gene Flow ◽  
Genetic Structure ◽  
Genetic Divergence ◽  
Larval Dispersal ◽  
Population Genetic ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Genetic Data ◽  
Genetic Structure Of Populations ◽  
Seascape Genetics

A detailed understanding of the genetic structure of populations and an accurate interpretation of processes driving contemporary patterns of gene flow are fundamental to successful spatial conservation management. The field of seascape genetics seeks to incorporate environmental variables and processes into analyses of population genetic data to improve our understanding of forces driving genetic divergence in the marine environment. Information about barriers to gene flow (such as ocean currents) is used to define a resistance surface to predict the spatial genetic structure of populations and explain deviations from the widely applied isolation-by-distance model. The majority of seascape approaches to date have been applied to linear coastal systems or at large spatial scales (more than 250 km), with very few applied to complex systems at regional spatial scales (less than 100 km). Here, we apply a seascape genetics approach to a peripheral population of the broadcast-spawning coral Acropora spicifera across the Houtman Abrolhos Islands, a high-latitude complex coral reef system off the central coast of Western Australia. We coupled population genetic data from a panel of microsatellite DNA markers with a biophysical dispersal model to test whether oceanographic processes could explain patterns of genetic divergence. We identified significant variation in allele frequencies over distances of less than 10 km, with significant differentiation occurring between adjacent sites but not between the most geographically distant ones. Recruitment probabilities between sites based on simulated larval dispersal were projected into a measure of resistance to connectivity that was significantly correlated with patterns of genetic divergence, demonstrating that patterns of spatial genetic structure are a function of restrictions to gene flow imposed by oceanographic currents. This study advances our understanding of the role of larval dispersal on the fine-scale genetic structure of coral populations across a complex island system and applies a methodological framework that can be tailored to suit a variety of marine organisms with a range of life-history characteristics.

scholarly journals Genomic variation in the American pika: signatures of geographic isolation and implications for conservation

2020 ◽  
Author(s):  
Kelly Brie Klingler ◽  
Joshua P Jahner ◽  
Thomas L Parchman ◽  
Chris Ray ◽  
Mary Peacock
Keyword(s):  
Genetic Variation ◽  
Genetic Structure ◽  
Sierra Nevada ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Thermal Sensitivity ◽  
Genomic Variation ◽  
Genome Wide ◽  
A Genome ◽  
American Pika

Abstract Background: Distributional responses by alpine taxa to repeated, glacial-interglacial cycles throughout the last two million years have significantly influenced the spatial genetic structure of populations. These effects have been exacerbated for the American pika (Ochotona princeps), a small alpine lagomorph constrained by thermal sensitivity and a limited dispersal capacity. As a species of conservation concern, long-term lack of gene flow has important consequences for landscape genetic structure and levels of diversity within populations. Here, we use reduced representation sequencing (ddRADseq) to provide a genome-wide perspective on patterns of genetic variation across pika populations representing distinct subspecies. To investigate how landscape and environmental features shape genetic variation, we collected genetic samples from distinct geographic regions as well as across finer spatial scales in two geographically proximate mountain ranges of eastern Nevada. Results: Our genome-wide analyses corroborate range-wide, mitochondrial subspecific designations and reveal pronounced fine-scale population structure between the Ruby Mountains and East Humboldt Range of eastern Nevada. Populations in Nevada were characterized by low genetic diversity (𝜋=0.0006–0.0009; 𝜃W=0.0005–0.0007) relative to populations in California (𝜋=0.0014–0.0019; 𝜃W=0.0011–0.0017) and the Rocky Mountains (𝜋=0.0025–0.0027; 𝜃W=0.0021–0.0024), indicating substantial genetic drift in these isolated populations. Tajima’s D was positive for all sites (D=0.240-0.811), consistent with recent contraction in population sizes range-wide. Conclusions: Substantial influences of geography, elevation and climate variables on genetic differentiation were also detected and may interact with the regional effects of anthropogenic climate change to force the loss of unique genetic lineages through continued population extirpations in the Great Basin and Sierra Nevada.

Analysis of the spatial genetic structure of Passiflora incarnata in recently disturbed sites

2005 ◽  
Vol 83 (4) ◽  
pp. 420-426 ◽  
Author(s):  
Rebecca T Tague ◽  
Stephanie A Foré
Keyword(s):  
Genetic Variation ◽  
Genetic Structure ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Multilocus Genotype ◽  
Long Distance ◽  
Short Life Span ◽  
Successional Species ◽  
Passiflora Incarnata ◽  
Coefficient Of Coancestry

In early successional species, short life span and frequent spatial relocation may affect the distribution of genetic variation but the pattern may be altered by reproductive patterns. Passiflora incarnata L. (Passifloraceae), an early successional vine found throughout the southeastern United States, reproduces sexually and asexually through clonal sprouts. We examined the genetic structure of P. incarnata in recently disturbed habitats at three spatial scales: within a patch, among patches separated by 250 m, and between sites separated by 10 km. Genetic variation may be clumped at the scale of neighboring plants if stem resprouting is significant. In each patch, eleven arbitrarily selected plants and their four nearest neighbors were mapped and leaf samples were collected for genetic analysis. The multilocus genotype of each individual for seven polymorphic allozymes was determined. Potential clones were determined by estimating the probability of a second occurrence of each genotype and a multilocus coefficient of coancestry. Data indicated P. incarnata was reproducing primarily sexually. Most of the genetic variation was within a patch with little variation among patches. These data suggest that the genetic structure of this colonizing species was determined by founder effects interacting with long distance pollen movement.Key words: allozymes, passionflower, spatial, genetic structure, early colonizer, Passiflora incarnata.

scholarly journals Fall-bearing Year Herbicides and Spring-nonbearing Year Foramsulfuron Applications for Hair Fescue Management in Lowbush Blueberry

2020 ◽  
Vol 30 (6) ◽  
pp. 670-676
Author(s):  
Scott Neil White ◽  
Linshan Zhang
Keyword(s):  
Seed Production ◽  
Seedling Recruitment ◽  
Block Design ◽  
Perennial Grass ◽  
Interactive Effects ◽  
Production Cycle ◽  
Seedling Density ◽  
Vaccinium Angustifolium ◽  
Lowbush Blueberry ◽  
Randomized Complete Block Design

Hair fescue (Festuca filiformis) is a tuft-forming perennial grass that reduces yields in lowbush blueberry (Vaccinium angustifolium) fields. Nonbearing year foramsulfuron applications suppress hair fescue, but there is interest in increasing suppression through foramsulfuron use in conjunction with fall-applied herbicides. The objective of this research was to determine the main and interactive effects of fall-bearing year herbicide applications and spring-nonbearing year foramsulfuron applications on hair fescue. The experiment was a 5 × 2 factorial arrangement of fall-bearing year herbicide (none, terbacil, pronamide, glufosinate, dichlobenil) and spring-nonbearing year foramsulfuron application (0, 35 g·ha−1) arranged in a randomized complete block design at lowbush blueberry fields in Portapique and Stewiacke, Nova Scotia, Canada. Spring-nonbearing year foramsulfuron applications did not reduce total tuft density or consistently reduce flowering tuft density, flowering tuft inflorescence number, or flowering tuft seed production. Fall-bearing year pronamide applications reduced hair fescue density for the 2-year production cycle, although additional bearing year density reductions occurred when pronamide was followed by spring-nonbearing year foramsulfuron applications at Stewiacke. Fall-bearing year dichlobenil applications reduced total and flowering tuft density at each site, although reductions in flowering tuft inflorescence number and seed production were most consistent when followed by spring-nonbearing year foramsulfuron applications at Stewiacke. Suppression extended into the bearing year at each site, and dichlobenil should be examined further for hair fescue control. Fall-bearing year glufosinate applications reduced hair fescue total tuft density at each site and flowering tuft density and flowering tuft seed production at Stewiacke. Fall-bearing year glufosinate applications followed by spring-nonbearing year foramsulfuron applications also reduced nonbearing year flowering tuft inflorescence number and bearing year hair fescue seedling density at Stewiacke, indicating that this treatment may reduce hair fescue seedling recruitment at some sites. Fall-bearing year terbacil applications did not suppress hair fescue and are not recommended for hair fescue management in lowbush blueberry.

scholarly journals Landscape-Level and Fine-Scale Genetic Structure of the Neotropical TreeProtium spruceanum(Burseraceae)

2010 ◽  
Vol 2010 ◽  
pp. 1-8 ◽  
Author(s):  
Fábio de Almeida Vieira ◽  
Cristiane Gouvêa Fajardo ◽  
Anderson Marcos de Souza ◽  
Dulcinéia de Carvalho
Keyword(s):  
Genetic Structure ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Conservation Strategies ◽  
Forest Fragments ◽  
Fine Scale ◽  
Conservation Units ◽  
Significant Genetic Structure ◽  
Protium Spruceanum ◽  
Allozyme Loci

Knowledge of genetic structure at different scales and correlation with the current landscape is fundamental for evaluating the importance of evolutionary processes and identifying conservation units. Here, we used allozyme loci to examine the spatial genetic structure (SGS) of 230 individuals ofProtium spruceanum, a native canopy-emergent in five fragments of Brazilian Atlantic forest (1 to 11.8 ha), and four ecological corridors (460 to 1 000 m length). Wright's statistic and Mantel tests revealed little evidence of significant genetic structure at the landscape-scale (; , ). At fine-scale SGS, low levels of relatedness within fragments and corridors (, ) were observed. Differences in the levels and distribution of the SGS at both spatial scales are discussed in relation to biological and conservation strategies of corridors and forest fragments.

scholarly journals Patterns of Fine-Scale Spatial Genetic Structure and Pollen Dispersal in Giant Sequoia (Sequoiadendron giganteum)

Forests ◽  
2021 ◽  
Vol 12 (1) ◽  
pp. 61
Author(s):  
Rainbow DeSilva ◽  
Richard S. Dodd
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Spatial Genetic Structure ◽  
Spatial Scales ◽  
Pollen Dispersal ◽  
Detailed Examination ◽  
Background Information ◽  
Long Distance ◽  
Giant Sequoia ◽  
Sequoiadendron Giganteum

Research Highlights: Patterns of dispersal shape the distribution and temporal development of genetic diversity both within and among populations. In an era of unprecedented environmental change, the maintenance of extant genetic diversity is crucial to population persistence. Background and Objectives: We investigate patterns of pollen dispersal and spatial genetic structure within populations of giant sequoia (Sequoiadendron giganteum). Materials and Methods: The leaf genotypes of established trees from twelve populations were used to estimate the extent of spatial genetic structure within populations, as measured by the Sp statistic. We utilized progeny arrays from five populations to estimate mating parameters, the diversity of the pollen pool, and characteristics of pollen dispersal. Results: Our research indicates that giant sequoia is predominantly outcrossing, but exhibits moderate levels of bi-parental inbreeding (0.155). The diversity of the pollen pool is low, with an average of 7.5 pollen donors per mother tree. As revealed by the Sp-statistic, we find significant genetic structure in ten of twelve populations examined, which indicates the clustering of related individuals at fine spatial scales. Estimates of pollen and gene dispersal indicate predominantly local dispersal, with the majority of pollen dispersal <253 m, and with some populations showing fat-tailed dispersal curves, suggesting potential for long-distance dispersal. Conclusions: The research presented here represent the first detailed examination of the reproductive ecology of giant sequoia, which will provide necessary background information for the conservation of genetic resources in this species. We suggest that restoration planting can mitigate potential diversity loss from many giant sequoia populations.

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