Figure 1.
MEGAN comparison of the taxonomic profiles of (A) cDNA transcript-tags from 454 sequencing five individual lymph node samples and two lymph node sample pools and (B) genomic DNA-tags from four individual lymph node samples.
Depicted are assignments with bit score cutoffs ≥50. Circle sizes are scaled logarithmically. Not assigned: sequencing-tags matching to sequences in the NCBI database that are not assigned to taxa; no hits: sequencing-tags not matching to any sequences in the NCBI database.
Figure 2.
MEGAN comparison of taxonomic profiles of MD 257 cDNA transcript-tags analyzed against the protein database (red) and the ribosomal database (blue), and of V6 amplicon 16S rRNA-tags analyzed against the ribosomal database (green).
Bit score cutoff for the protein database comparison was set at 50, and confidence cutoffs for the ribosomal database comparisons were set at 80%.
Figure 3.
Maximum likelihood trees showing the phylogenetic affiliation of sequences obtained from 454 sequencing with GenBank homologous sequences.
(A) 16S rRNA Helicobacter, (B) rpo-β Helicobacter, (C) 16S rRNA Acinetobacter, (D) rpo-β Acinetobacter. Bootstrap support for each node is indicated.
Figure 4.
Maximum likelihood tree inferred from the partial nucleotide sequence data of env gene showing the phylogenetic placement of mule deer (MD) retrovirus.
The two MD PCR sequences reported in the present study are in bold. GenBank accession numbers of reference viruses are mentioned. Bootstrap support for each node is indicated.