The pairwise homoplasy index
Webb15 sep. 2024 · A more extreme problem of interpretation of pairwise homoplasies arises in some methods for analyzing electrophoretic data. Suppose that each of three terminal … WebbThe offspring displayed clear evidence of recombination on a genetic level as shown in the variations observed between banding patterns in the amplified fragment length polymorphism. Also a net-like and reticulated NeighborNet was observed and the pairwise homoplasy index test for recombination supported the presence of recombination (P = 0
The pairwise homoplasy index
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WebbTwo other measures of homoplasy may be calculated: the retention index (RI) and the rescaled consistency index (RC). The retention index is calculated as the ratio ( g – s )/( … Webbpairwise homoplasy index; PDA potato dextrose agar; SSU small subunit ribosomal RNA gene; YMA yeast malt agar. Table 3. Data used for phylogenetic analysis in this study and their corresponding GenBank accession numbers. Type species are denoted by T. Sequences derived in this study are shown in bold.
Webb24 feb. 2024 · Given the multiple parallel paths and the significant pairwise homoplasy index (PHI) p ≤ 0.0001, recombination likely contributed to the emergence of STs in clades II and III, which appear to ... Webb19 aug. 2024 · Pairwise homoplasy index (PHI) test The concept of Genealogical Concordance Phylogenetic Species Recognition (GCPSR) was used to analyze …
Webb14 juni 2024 · Intra and inter-continental migration was predicted between Europe and South America, likely associated with the movement of contaminated germplasm. Low … Webb28 sep. 2011 · Statistical significance of the proportion of variance associated with the fixation index, F ST was determined through permutation tests against a null distribution generated from the data in GenAlEx. The number of migrants (N m) between each population pair was calculated from genetic distances through the equation N m = (1 − F …
Webb11 juli 2024 · A pairwise homoplasy index test using a 6-gene dataset (ACT, CAL, GAPDH, GS, ITS, and TUB2) was performed to determine the recombination level between C. ledongense and the closely related...
Webb9 maj 2024 · pairwise homoplasy index RAD-Seq restriction site-associated DNA sequencing pairwise homoplasy index SNPs single-nucleotide polymorphisms WGS whole-genome sequencing. Copyright The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. philips bt1210 trimmer reviewWebbConsistency Index (CI) minimum number of changes divided by the number required on the tree. CI=1 if there is no homoplasy negatively correlated with the number of species sampled. Retention Index (RI) RI = MaxSteps ObsSteps ... Convert the raw data (sequences) to a pairwise distances Try to nd a tree that explains these distances. trusty bmwWebb14 feb. 2024 · Morphological studies and multilocus phylogenetic analyses with the concatenated sequences of the internal transcribed spacer, glyceraldehyde-3-phosphate dehydrogenase, chitin synthase, actin, beta-tubulin, calmodulin, and the intergenic region between Apn2 and Mat1-2-1, as well as a pairwise homoplasy index, test placed the … trustybyte.comWebb25 juni 2024 · Pairwise Homoplasy Index Test and Phylogenetic Network Analysis The concatenated five loci tree was used to infer the occurrence of sexual recombination … trusty blueWebb9 maj 2024 · Tests utilized to detect recombination (Pairwise Homoplasy Index, Maximum χ 2 and the Neighbor Similarity Score) returned p-values of p = 0.000, indicating high levels of homoplasy, potentially explained by recombination. philips bt1215 trimmer combWebb9 okt. 2024 · A pairwise homoplasy index (PHI or Φw) below 0.05 provide evidence for the presence of significant recombination within a dataset. According to the GCPSR analysis, our dataset showed PHI of 1.0, indicating no significant genetic recombination between C. vitis and its sister taxa, C. diplodiella and C. diplodiopsis ( Fig. 3 ). philips bt1230/15Webb19 aug. 2024 · Pairwise homoplasy index (PHI) test of Fusarium rosicola and closely related F. breve using both LogDet transformation and splits decomposition. PHI test … philips bt1230 cordless trimmer