Microsatellite data also revealed complete mixing of localities based on clustering analyses of genotypes which was further supported by limited evidence of genetic differentiation from FST statistics.
It was proposed in 1999 that the single genus of Chlamydia should be reassigned into two genera, Chlamydia and Chlamydophila, based on clustering analyses of the 16S rRNA and 23S rRNA genes [1], which has not been widely accepted by the chlamydial research community.
Final repertoire estimates are based on cluster analyses of all available V1R I and V1R IX data (e.g. Young et al. [ 18], Yoder et al. [ 29], and this study).
To compare detected and historic sequences, phylogenetic trees were created based on cluster analyses and global alignment similarities of 396 nucleotide fragments of the N-gene encoding region (position in the genome nucleotide 46 441, numbered according to the CVS strain, GenBank accession no. D42112).
Consistent with the analytic approach proposed for this study, estimates of the power associated with the clusters within the three Global Network sites for the HBB study were generated based on cluster-level analyses of the 2010 data from the MNH Registry for these three sites.
Further analyses were based on clustering with k = 3 and without recombination.
Based on cluster and factor analyses of mammal fossils and spore/pollen in the cave sediments, the weathering index, and trace element content, Zhou et al. (2000) proposed a synthetic vicarious climatic index that indicates that the cave sediments with a thickness of 40 m may be correlated with stages 11 19 of δ18O curve of the deep sea.
Using our EST analysis pipeline, we estimate that the present dataset of 4436 ESTs is derived from 2258 genes based on cluster and comparative genomic analyses of the ESTs.
As further support for their importance in the chlamydial outer membrane, several studies showed disease-correlated serum reactions for Pmp proteins [ 58, 61, 62], and there are indications for tissue tropism-related differences in the Pmp proteins based on sequence clustering analyses [ 17, 18].
As seen in Table 3, the analysis reached convergence only for Clusters 1 and 2. Additionally, substitution rates obtained in the full analysis were compared to rates obtained in independent analyses based on cluster strains (Table 1).
Since all the patients were part of previously identified clusters, tMRCA results were compared between the Bayesian analysis of the complete set of 307 sequences and separate analyses based on cluster sequences.
