scholarly journals Bayesian Cluster Characterization and Classification for Direct Numerically Simulated Turbulence Features

2021 ◽  
Author(s):  
Nicholas V. Scott ◽  
Jack McCarthy ◽  
Robert A. Handler
Keyword(s):  
Bayesian Cluster

scholarly journals Rediscovery of Red Wolf Ghost Alleles in a Canid Population Along the American Gulf Coast

Genes ◽  
2018 ◽  
Vol 9 (12) ◽  
pp. 618 ◽  
Author(s):  
Elizabeth Heppenheimer ◽  
Kristin Brzeski ◽  
Ron Wooten ◽  
William Waddell ◽  
Linda Rutledge ◽  
...  
Keyword(s):  
North Carolina ◽  
Gulf Coast ◽  
Nucleotide Polymorphisms ◽  
Conservation Action ◽  
Single Nucleotide ◽  
Red Wolf ◽  
Reintroduced Population ◽  
Coastal Louisiana ◽  
Red Wolves ◽  
Bayesian Cluster

Rediscovering species once thought to be extinct or on the edge of extinction is rare. Red wolves have been extinct along the American Gulf Coast since 1980, with their last populations found in coastal Louisiana and Texas. We report the rediscovery of red wolf ghost alleles in a canid population on Galveston Island, Texas. We analyzed over 7000 single nucleotide polymorphisms (SNPs) in 60 canid representatives from all legally recognized North American Canis species and two phenotypically ambiguous canids from Galveston Island. We found notably high Bayesian cluster assignments of the Galveston canids to captive red wolves with extensive sharing of red wolf private alleles. Today, the only known extant wild red wolves persist in a reintroduced population in North Carolina, which is dwindling amongst political and taxonomic controversy. Our rediscovery of red wolf ancestry after almost 40 years introduces both positive opportunities for additional conservation action and difficult policy challenges.

scholarly journals Bayesian cluster detection via adjacency modelling

2016 ◽  
Vol 16 ◽  
pp. 11-20 ◽  
Author(s):  
Craig Anderson ◽  
Duncan Lee ◽  
Nema Dean
Keyword(s):  
Cluster Detection ◽  
Bayesian Cluster

Quantile regression and Bayesian cluster detection to identify radon prone areas

2016 ◽  
Vol 164 ◽  
pp. 354-364 ◽  
Author(s):  
Annalina Sarra ◽  
Lara Fontanella ◽  
Pasquale Valentini ◽  
Sergio Palermi
Keyword(s):  
Quantile Regression ◽  
Cluster Detection ◽  
Bayesian Cluster

scholarly journals Genetic Structure of Colletotrichum gloeosporioides sensu lato Isolates Infecting Papaya Inferred by Multilocus ISSR Markers

2013 ◽  
Vol 103 (2) ◽  
pp. 182-189 ◽  
Author(s):  
Sephra N. Rampersad
Keyword(s):  
Cluster Analysis ◽  
Genetic Differentiation ◽  
Colletotrichum Gloeosporioides ◽  
Gene Diversity ◽  
Polymorphic Loci ◽  
Bayesian Cluster Analysis ◽  
The Mean ◽  
Bayesian Cluster ◽  
Group 1 ◽  
Issr Primers

Colletotrichum gloeosporioides sensu lato is widely distributed throughout temperate and tropical regions and causes anthracnose disease in numerous plant species. Development of effective disease management strategies is dependent on, among other factors, an understanding of pathogen genetic diversity and population stratification at the intraspecific level. For 132 isolates of C. gloeosporioides sensu lato collected from papaya in Trinidad, inter-simple-sequence repeat-polymerase chain reaction (ISSR-PCR) generated 121 polymorphic loci from five ISSR primers selected from an initial screen of 22 ISSR primers. The mean percentage of polymorphic loci was 99.18%. Bayesian cluster analysis inferred three genetic subpopulations, where group 1 consisted exclusively of isolates collected in the southern part of Trinidad whereas groups 2 and 3, although genetically distinct, were mixtures of isolates collected from both the northern and southern parts of Trinidad. Principal coordinates analysis and unweighted pair-group method with arithmetic mean phylogeny were concordant with Bayesian cluster analysis and supported subdivision into the three subpopulations. Overall, the total mean gene diversity was 0.279, the mean within-population gene diversity was 0.2161, and genetic differentiation for the Trinidad population was 0.225. Regionally, northern isolates had a lower gene diversity compared with southern isolates. Nei's gene diversity was highest for group 1 (h = 0.231), followed by group 2 (h = 0.215) and group 3 (h = 0.202). Genotypic diversity was at or near maximum for all three subpopulations after clone correction. Pairwise estimates of differentiation indicated high and significant genetic differentiation among the inferred subpopulations (Weir's θ of 0.212 to 0.325). Pairwise comparisons among subpopulations suggested restricted gene flow between groups 1 and 2 and groups 1 and 3 but not between groups 2 and 3. The null hypothesis of random mating was rejected for all three inferred subpopulations. These results suggest that pathogen biology and epidemiology as well as certain evolutionary factors may play an important role in population substructuring of C. gloeosporioides sensu lato isolates infecting papaya in Trinidad.

Bayesian cluster analysis

Biometrika ◽  
1978 ◽  
Vol 65 (1) ◽  
pp. 31-38 ◽  
Author(s):  
D. A. BINDER
Keyword(s):  
Cluster Analysis ◽  
Bayesian Cluster Analysis ◽  
Bayesian Cluster

Myanmar mango landraces reveal genetic uniqueness over common cultivars from Florida, India, and Southeast Asia

Genome ◽  
2010 ◽  
Vol 53 (4) ◽  
pp. 321-330 ◽  
Author(s):  
R. Hirano ◽  
Than Htun Oo ◽  
K. N. Watanabe
Keyword(s):  
Genetic Differentiation ◽  
Southeast Asia ◽  
Genetic Background ◽  
Mangifera Indica ◽  
Neighbor Joining ◽  
Large Area ◽  
Principal Coordinates ◽  
Low Degree ◽  
Bayesian Cluster ◽  
Private Alleles

Mango ( Mangifera indica ) is believed to have evolved in a large area spanning northeastern India, Bangladesh, and northwestern Myanmar. We compared the genetic structure of mango accessions from Myanmar with that of mango accessions from Florida, India, and Southeast Asia with 11 SSR markers. The Myanmar accessions exhibited considerable genetic diversity (unbiased heterozygosity, UHe = 0.698) and a high number of private alleles. Despite the low degree of genetic differentiation among accessions (global Fst, θ = 0.123), Myanmar’s accessions were distinguishable from mango accessions from Florida, India, and Southeast Asia in a principal coordinates plot. Genetic differentiation of the Myanmar accessions from other groups was also observed in a Bayesian cluster analysis. No population structure among Myanmar accessions was revealed by a neighbor-joining tree. Our results revealed a broad genetic background and genetic distinctiveness of mango in Myanmar. We discuss the implications for diversification mechanisms based on the embryo type characteristics and provide recommendations for conservation efforts.

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