scholarly journals Habitat fragmentation influences genetic diversity and differentiation: Fine‐scale population structure of Cercis canadensis (eastern redbud)

2020 ◽  
Vol 10 (8) ◽  
pp. 3655-3670 ◽  
Author(s):  
Meher A. Ony ◽  
Marcin Nowicki ◽  
Sarah L. Boggess ◽  
William E. Klingeman ◽  
John M. Zobel ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Habitat Fragmentation ◽  
Fine Scale ◽  
Cercis Canadensis ◽  
Scale Population ◽  
Eastern Redbud

Genome-Wide Single Nucleotide Polymorphisms are Robust in Resolving Fine-Scale Population Genetic Structure of the Small Brown Planthopper, Laodelphax striatellus (Fallén) (Hemiptera: Delphacidae)

2019 ◽  
Vol 112 (5) ◽  
pp. 2362-2368
Author(s):  
Yan Liu ◽  
Lei Chen ◽  
Xing-Zhi Duan ◽  
Dian-Shu Zhao ◽  
Jing-Tao Sun ◽  
...  
Keyword(s):  
Population Structure ◽  
Discriminant Analysis ◽  
Genetic Structure ◽  
Population Genetic ◽  
Brown Planthopper ◽  
Fine Scale ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Small Brown Planthopper ◽  
Scale Population

Abstract Deciphering genetic structure and inferring migration routes of insects with high migratory ability have been challenging, due to weak genetic differentiation and limited resolution offered by traditional genotyping methods. Here, we tested the ability of double digest restriction-site associated DNA sequencing (ddRADseq)-based single nucleotide polymorphisms (SNPs) in revealing the population structure relative to 13 microsatellite markers by using four small brown planthopper populations as subjects. Using ddRADseq, we identified 230,000 RAD loci and 5,535 SNP sites, which were present in at least 80% of individuals across the four populations with a minimum sequencing depth of 10. Our results show that this large SNP panel is more powerful than traditional microsatellite markers in revealing fine-scale population structure among the small brown planthopper populations. In contrast to the mixed population structure suggested by microsatellites, discriminant analysis of principal components (DAPC) of the SNP dataset clearly separated the individuals into four geographic populations. Our results also suggest the DAPC analysis is more powerful than the principal component analysis (PCA) in resolving population genetic structure of high migratory taxa, probably due to the advantages of DAPC in using more genetic variation and the discriminant analysis function. Together, these results point to ddRADseq being a promising approach for population genetic and migration studies of small brown planthopper.

Genetic clustering methods reveal bull trout (Salvelinus confluentus) fine-scale population structure as a spatially nested hierarchy

2009 ◽  
Vol 11 (4) ◽  
pp. 1421-1433 ◽  
Author(s):  
Will G. Warnock ◽  
Joseph B. Rasmussen ◽  
Eric B. Taylor
Keyword(s):  
Population Structure ◽  
Bull Trout ◽  
Fine Scale ◽  
Clustering Methods ◽  
Salvelinus Confluentus ◽  
Scale Population ◽  
Nested Hierarchy ◽  
Genetic Clustering

scholarly journals Correction: Fine-Scale Population Structure of Blue Whale Wintering Aggregations in the Gulf of California

PLoS ONE ◽  
2013 ◽  
Vol 8 (6) ◽  
Author(s):  
Paula Costa-Urrutia ◽  
Simona Sanvito ◽  
Nelva Victoria-Cota ◽  
Luis Enríquez-Paredes ◽  
Diane Gendron
Keyword(s):  
Population Structure ◽  
Gulf Of California ◽  
Fine Scale ◽  
Blue Whale ◽  
Scale Population

scholarly journals Fine-scale population structure of Malays in Peninsular Malaysia and Singapore and implications for association studies

2015 ◽  
Vol 9 (1) ◽  
Author(s):  
Boon-Peng Hoh ◽  
Lian Deng ◽  
Mat Jusoh Julia-Ashazila ◽  
Zakaria Zuraihan ◽  
Ma’amor Nur-Hasnah ◽  
...  
Keyword(s):  
Population Structure ◽  
Association Studies ◽  
Peninsular Malaysia ◽  
Fine Scale ◽  
Scale Population

scholarly journals Fine-Scale Population Genetic Structure and Within-Tree Distribution of Mating Types of Venturia effusa, Cause of Pecan Scab in the United States

2018 ◽  
Vol 108 (11) ◽  
pp. 1326-1336 ◽  
Author(s):  
Clive H. Bock ◽  
Carolyn A. Young ◽  
Katherine L. Stevenson ◽  
Nikki D. Charlton
Keyword(s):  
United States ◽  
Genetic Diversity ◽  
Asexual Reproduction ◽  
Population Genetic ◽  
Spatial Scales ◽  
The United States ◽  
Source Population ◽  
Mating Types ◽  
Fine Scale ◽  
Scale Population

Scab (caused by Venturia effusa) is the major disease of pecan in the southeastern United States. There is no information available on the fine-scale population genetic diversity or the occurrence of clonal types at small spatial scales that provides insight into inoculum sources and dispersal mechanisms, and potential opportunity for sexual reproduction. To investigate fine-scale genetic diversity, four trees of cultivar Wichita (populations) were sampled hierarchically: within each tree canopy, four approximately evenly spaced terminals (subpopulations) were selected and up to six leaflets (sub-subpopulations) were sampled from different compound leaves on each terminal. All lesions (n = 1 to 8) on each leaflet were sampled. The isolates were screened against a panel of 29 informative microsatellite markers and the resulting multilocus genotypes (MLG) subject to analysis. Mating type was also determined for each isolate. Of 335 isolates, there were 165 MLG (clonal fraction 49.3%). Nei’s unbiased measure of genetic diversity for the clone-corrected data were moderate to high (0.507). An analysis of molecular variance demonstrated differentiation (P = 0.001) between populations on leaflets within individual terminals and between terminals within trees in the tree canopies, with 93.8% of variance explained among isolates within leaflet populations. Other analyses (minimum-spanning network, Bayesian, and discriminant analysis of principal components) all indicated little affinity of isolate for source population. Of the 335 isolates, most unique MLG were found at the stratum of the individual leaflets (n = 242), with similar total numbers of unique MLG observed at the strata of the terminal (n = 170), tree (n = 166), and orchard (n = 165). Thus, the vast majority of shared clones existed on individual leaflets on a terminal at the scale of 10s of centimeters or less, indicating a notable component of short-distance dispersal. There was significant linkage disequilibrium (P < 0.001), and an analysis of Psex showed that where there were multiple encounters of an MLG, they were most probably the result of asexual reproduction (P < 0.05) but there was no evidence that asexual reproduction was involved in single or first encounters of an MLG (P > 0.05). Overall, the MAT1-1-1 and MAT1-2-1 idiomorphs were at equilibrium (73:92) and in most populations, subpopulations, and sub-subpopulations. Both mating types were frequently observed on the same leaflet. The results provide novel information on the characteristics of populations of V. effusa at fine spatial scales, and provide insights into the dispersal of the organism within and between trees. The proximity of both mating idiomorphs on single leaflets is further evidence of opportunity for development of the sexual stage in the field.

Environmentally associated chromosomal structural variation influences fine‐scale population structure of atlantic salmon ( Salmo salar )

2021 ◽  
Author(s):  
K. Beth Watson ◽  
Sarah J. Lehnert ◽  
Paul Bentzen ◽  
Tony Kess ◽  
Antony Einfeldt ◽  
...  
Keyword(s):  
Population Structure ◽  
Atlantic Salmon ◽  
Salmo Salar ◽  
Structural Variation ◽  
Fine Scale ◽  
Atlantic Salmon Salmo Salar ◽  
Scale Population

Genome-wide SNPs reveal complex fine scale population structure in the California market squid fishery (Doryteuthis opalescens)

2020 ◽  
Author(s):  
Samantha H. Cheng ◽  
Mark Gold ◽  
Nichole Rodriguez ◽  
Paul H. Barber
Keyword(s):  
Population Structure ◽  
Fine Scale ◽  
Genome Wide ◽  
Doryteuthis Opalescens ◽  
Scale Population

scholarly journals Landscape genetics reveal broad and fine‐scale population structure due to landscape features and climate history in the northern leopard frog ( Rana pipiens ) in North Dakota

2019 ◽  
Vol 9 (3) ◽  
pp. 1041-1060 ◽  
Author(s):  
Justin M. Waraniak ◽  
Justin D. L. Fisher ◽  
Kevin Purcell ◽  
David M. Mushet ◽  
Craig A. Stockwell
Keyword(s):  
Population Structure ◽  
North Dakota ◽  
Landscape Genetics ◽  
Rana Pipiens ◽  
Leopard Frog ◽  
Fine Scale ◽  
Climate History ◽  
Northern Leopard Frog ◽  
Landscape Features ◽  
Scale Population
Sign in / Sign up

Export Citation Format

Share Document