The pairwise homoplasy index

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August undefined, 2024

WebbDistance matrices are used in phylogeny as non-parametric distance methods and were originally applied to phenetic data using a matrix of pairwise distances. These distances are then reconciled to produce a tree (a phylogram, with informative branch lengths).The distance matrix can come from a number of different sources, including measured … Webb2013; Chan et al. 2013). Index Fungorum (www.indexfungorum.org) has listed 126 names under this genus. In China, taxonomic research on Amauroderma began with Teng, who recorded 10 species (Teng 1936, 1939, 1963). Later Zhao et al. (1979, 1983, 1984) and Zhao & Zhang (1986, 1987a,b, 2000) reported 20 species, nine of which were new.

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Webb22 okt. 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). Webb26 okt. 2016 · The results of pairwise homoplasy index (PHI) test of closely related species using both LogDet transformation and splits decomposition. PHI test results (Φw) <0.05 indicate significant... how many children does jim boeheim have

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WebbPathogenicity tests and the pairwise homoplasy index test suggest that C. jiangxiense and C. kahawae subsp. kahawae are two independent species. This study represents the first report of C. alienum and C. cliviae occurring on Camellia sinensis. 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 … Webb5 feb. 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 ... high school in spiderman homecoming

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Webb19 aug. 2024 · Pairwise homoplasy index (PHI) test The concept of Genealogical Concordance Phylogenetic Species Recognition (GCPSR) was used to analyze … Webb4 dec. 2008 · Pairwise Homoplasy Test of Recombination. ... [Tajima 1989] is significantly negative in G. morhua), we also calculated the pairwise homoplasy index, a simple but robust estimator of compatibility among sites (Bruen et al. 2006). In none of these tests was any evidence of recombination detected. how many children does jim nantz haveWebbPathogenicity tests and the pairwise homoplasy index test suggest that C. jiangxiense and C. kahawae subsp. kahawae are two independent species. This study represents the first report of C. alienum and C. cliviae occurring on Camellia sinensis. high school in springs

"WebbPage topic: "Genetic Diversity, Heteroplasmy, and Recombination in Mitochondrial Genomes of Daphnia pulex, Daphnia pulicaria, and Daphnia obtusa - Oxford Academic". Created by: Leroy Patterson. Language: english. " - The pairwise homoplasy index

The pairwise homoplasy index

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Webb29 maj 2014 · Pairwise homoplasy index (PHI) = 3.646 −11, indicating the presence of recombination across all collections. Discussion. No apparent phylogenetic basis for observed morphological variation in F. manipularis.

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WebbThe pairwise homoplasy index (PHI) is a model test based on the fact that multiple gene phylogenies will be concordant between species and discordant due to recombination and mutations within a species. The data were analyzed by the pairwise homoplasy index (PHI) test . The test was performed in SplitsTree4 [55,56] as described by Quaedvlieg Webb16 aug. 2016 · The Pairwise Homoplasy Index (PHY) test implemented in SplitsTree v. 4.13.1 and the pairwise linkage disequilibrium (D) available in the software DnaSP v. 5.10 were also used to detect the presence of recombination. …

Webb1 apr. 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 … Webb18 feb. 2024 · Meanwhile, the pairwise homoplasy index (PHI) [ 40] statistic provided highly significant evidence for recombination within M. luteus species ( p = 0.00). Fig. 4 Recombination in M. luteus. a Phylogenetic network inferred with the concatenation of single-copy core genes. Lines between splits show where recombination has occurred.

Webb14 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 … Webb9 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 ).

WebbGlobal genome pairwise sequence alignments were prepared with mVista LAGAN [45] and multi-reticulate analyses performed using SplitsTree4 [46] with an uncorrected P characters transformation model, excluding all gap sites. The multi-reticulate networks indicate recombination events. A recombination pairwise homoplasy index ...

Webb20 jan. 2016 · They have a homoplasy degree of 0 in all figures. Additional tests for recombination were also performed, namely the estimation of the pairwise homoplasy index (Bruen, Philippe, and Bryant 2006) and the triplet test implemented in 3Seq (Boni, Posada, and Feldman 2007). 2.4 LD decay high school in st johns countyWebb28 feb. 2024 · Results of the pairwise homoplasy index (PHI) test indicated significant recombination between P. byssoides and P. celtidis. Therefore, P. celtidis has been synonymized under P. byssoides. In addition, we re-illustrated and studied the type specimen of the sexual genus Bambusistroma. how many children does joanna page haveWebb24 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 ... high school in springWebbIn this tale as old as time, learn how the unbreakable bond of INDEX and MATCH can overcome such VLOOKUP problems . . . even when looking up to the left of a lookup value column! how many children does jim baker haveWebb30 jan. 2015 · The pairwise homoplasy index (PHI) was implemented in SplitsTree to test for significant recombination among the isolates. ClonalFrame v1.1 was used to estimate the relative contribution of recombination and mutation in generating polymorphisms among the 45 Bartonella STs. how many children does joan baez haveWebbMolecular Evolutionary Analysis of Potato Virus Y Infecting Potato Based on the VPg Gene. 杂志Frontiers in Microbiology，IF：5.640/Q1. 摘要：马铃薯Y病毒（PVY）是一种重要的植物病原体，感染茄科作物，对全球马铃薯和烟草生产造成重大损失。PVY的植物病理学和分子生物学的某些方面已得到深入研究，但对该病毒的进化动力学 ... how many children does jimmy buffett haveWebbMorphological studies and multi-locus phylogenetic analyses with the concatenated sequences of internal transcribed spacer (ITS), glyceraldehyde-3-phosphate dehydrogenase (GAPDH), chitin synthase (CHS-1), actin (ACT), beta-tubulin (TUB2), calmodulin (CAL), and the intergenic region between Apn2 and Mat1-2-1 (ApMat) as well … high school in sri lanka