The pairwise homoplasy index

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August undefined, 2024

Webb11 mars 2024 · 采用两个重组方法分析，先应用SplitsTree 构建系统发育网络并计算成对同质性指数（pairwise homoplasy index, PHI查)，随后应用RDP软件包中的7种方 … Webb1 juni 2024 · Recombination within FOSC was tested using the pairwise homoplasy index and divergence ages were estimated by molecular dating. We called SNPs from assembled genomes using a k-mer approach and tested for significant linkage disequilibrium as an indication of PCE.

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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 … 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 flower shop oelwein iowa

Homoplasy - an overview ScienceDirect Topics

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. Webb7 juli 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 … Webb3 sep. 2013 · Results of the Pairwise Homoplasy Index (PHI) test (Table J in Supplementary Tables S1) showed that no recombination occurred within each locus across all Asian populations, however two recombination events were observed among concatenated sequences of isolates from East and South/Southeast Asia. green bay packers 2022 schedule pdf

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Webb1 jan. 2005 · Recombination tests based on the pairwise homoplasy index (PHI, Bruen, et al. 2006), Max χ 2 (Maynard Smith and Smith 1992), and … 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. green bay packers 2022 scWebb4 apr. 2024 · Pairwise values of both indices were low or moderately high, ranging from 0 to 0.163 (F ST). Many comparisons were statistically significant even after correction for multiple testing, mainly those involving Lev and Nor. Low and not significant values for comparisons, especially involving Sardinian samples, highlighted the lack of significant … flower shop ocean city md

"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). " - The pairwise homoplasy index

The pairwise homoplasy index

Contributions of ancestral inter-species recombination to the

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... WebbPairwise homoplasty index (PHI) statistic test p-values for recombination in the varicelloviruses Source publication +7 Phylogenetic and recombination analysis of the …

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Webb28 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. Webb11 mars 2014 · The dataset was evaluated for the presence of recombination using the pairwise homoplasy index (PHI) test (Bruen et al. 2006) implemented by SplitsTree, where the minimum number of homoplasies required to describe the genealogical history between sites was calculated.

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 ...

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 ... Webb14 juni 2024 · Intra and inter-continental migration was predicted between Europe and South America, likely associated with the movement of contaminated germplasm. Low …

WebbMorphological 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 …

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 … flower shop odessa txWebb26 okt. 2016 · Pairwise homoplasy index (PHI) test. C. camelliae). No significant recombination events were observed between C. wuxiense and phylogenetically related … flower shop of farmingdaleWebb11 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... green bay packers 2022 training camp scheduleWebbThe Consistency Index is nothing else than the Minimum number of steps given your dataset divided by the actual number on your tree (observed steps) (so CI=1 means you … green bay packers 2022 yearbookWebb23 juni 2015 · The pairwise homoplasy index (PHI) and split decomposition tree obtained with Splitstree four software were also indicators of recombination events. Phylogenetic analysis. The e-BURST V3 software was used to analyze the relation among STs and to divide them into groups clonal complexes (CC). green bay packers 2022 training campWebb17 dec. 2024 · Recombination within FOSC was tested using the pairwise homoplasy index and divergence ages were estimated by molecular dating. We called SNPs from … green bay packers 2022 schedule resultsWebbpairwise 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. green bay packers 2022 wiki