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Pairwise homoplasy index phi

WebOct 1, 2024 · The predominantely star-like shape with little reticulation is in principle consistent with a clonally reproducing population. However, the high effective population size, the rapid decay in linkage disequilibrium and the pairwise homoplasy index (Phi; P<0.0001) show strong signatures of recombination WebJan 25, 2024 · Indeed, the pairwise homoplasy index (PHI) test for recombination was highly significant (p value <0.001) when we performed split-decomposition network analysis using Split tree (Huson 1998). This indicates conflicting phylogenetic signals that are possibly attributed to recombination among viral genomes.

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WebPHI test and other tests of recombination. The PhiPack software package implements a few tests for recombination and can produce refined incompatibility matrices as well. … WebOct 6, 2024 · A pairwise homoplasy index (PHI) test revealed no significant recombination event between Cytospora phitsanulokensis and the closely related taxa, C. acaciae, C. italica and C. magnoliae . There was also no significant recombination among Cytospora chiangmaiensis, C. shoreae, C. thailandica, C. diopuiensis and C. xinglongensis . crowds gatchaman https://edgeexecutivecoaching.com

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WebJun 14, 2024 · Intra and inter-continental migration was predicted between Europe and South America, likely associated with the movement of contaminated germplasm. Low clonality and evidence of genetic recombination were detected from the analysis of linkage disequilibrium and the pairwise homoplasy index (PHI) test for clonality. WebOct 22, 2014 · START was also used to determine that the GC content in the MLST genes was comparable to that of the whole-genome GC content. To detect recombination within the Y. enterocolitica MLST data, SplitsTree 4.2 was used to compute the pairwise homoplasy index (PHI). WebFeb 28, 2024 · Twelve representative strains of Periconia byssoides, P. celtidis, P. pseudobyssoides and P. salina were implied in a pairwise homoplasy index (PHI) test for … crowds gif

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Pairwise homoplasy index phi

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WebApr 1, 2006 · The term “pairwise homoplasy index” refers to the fact that the refined incompatibility score can be interpreted as the minimum number of convergent or recurrent mutations (homoplasies) necessarily present on any tree describing the history of any two … WebAug 19, 2024 · Pairwise homoplasy index (PHI) test The concept of Genealogical Concordance Phylogenetic Species Recognition (GCPSR) was used to analyze …

Pairwise homoplasy index phi

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WebApr 29, 2024 · Indeed, four, highly significant (pairwise homoplasy index test, P < 0.00001) signals of recombination have been revealed at coordinates closely corresponding to the … WebMay 25, 2024 · Our pairwise homoplasy index tests suggest that, among continental datasets, European and North American sequences have shown evidence for the presence of recombination events (P-value = 0.001 and 0.007 respectively); while African, Oceanic, South American, and Asian datasets have shown no recombination events.

WebFeb 5, 2016 · Using the alignment of the concatenated genes of each of the five clusters in the second data set as input, we also ran the Pairwise Homoplasy Index (PHI) test for recombination implemented in ... WebThe PHI recombination test of all the SuHV-1 strains showed (Table 1) statistically significant recombination within the dataset (p = <0.001). ... View in full-text Context 7

WebOct 26, 2016 · Pairwise homoplasy index (PHI) test Figure 4 The results of pairwise homoplasy index (PHI) test of closely related species using both LogDet transformation and splits decomposition. WebMar 18, 2000 · Pairwise homoplasy index (Phi) test for global recombination embedded in Splitstree also assesses the probability that recombination occurs by comparing observed …

WebDec 28, 2012 · Genetic diversity was largely due to recombination, as demonstrated by a pairwise homoplasy index (PHI=5.35×10(-9)) significantly different from zero (p<0.05). The evolution of standardized association index (I(A)(S)) (all isolates: 0.6088, p<0.05; single representative of STs: 0.4567, p<0.05; and clusters of STs: 0.084, p>0.05), showed an …

WebDownload scientific diagram The results of pairwise homoplasy index (PHI) test of closely related species using both LogDet transformation and splits decomposition. PHI test … crowds go to see wakanda foreverWebJul 7, 2024 · A pairwise homoplasy index (PHI) test was performed in SplitsTree (version 4.1.4.4) using the Kimura’s two parameter (K2P) models for low genetic distance datasets. LogDet transformation were applied for the average of nucleotide frequencies and splits decomposition graph options ... crowds for queenWebJun 16, 2024 · Morphological descriptions, illustrations, and comparisons are provided for a more comprehensive assessment. Genealogical Concordance Phylogenetic Species Recognition (GCPSR) with a pairwise homoplasy index (PHI) test was used to evaluate the conclusions of the phylogenetic analyses. crowdshared creditWebNov 22, 2024 · Bruen et al. define the pairwise homoplasy index (PHI) in terms of a pairwise incompatibility score of each site and its downstream sites in a global alignment, and then … building a garden wall on a slopeWebThe concatenated three loci tree was used to infer the occurrence of sexual recombination within each pestalotioid genus through the pairwise homoplasy index (PHI) test … crowds hairdressers monkseatonWebMay 10, 2024 · Low clonality and evidence of genetic recombination were detected from the analysis of linkage disequilibrium and the pairwise homoplasy index (PHI) test for … crowds for trumpbuilding a garden wall with breeze blocks