Phylogenetic Analysis of Bartonella Strains

A neighbor-joining tree based on the concatenated MLST alleles alone was constructed using the Clustal W program within the Lasergene 11 package of DNASTAR (version 8). An additional phylogeny was constructed, in which known Bartonella species and Bartonella strains isolated from bats in Old World were included in addition to representative strains from straw-colored fruit bats (E1—E5, Ew), and Brucella abortus was included as an outgroup, This phylogeny was inferred using sequences of ftsZ, gltA, nuoG, ribC, rpoB, ssrA, and 16S rRNA; ITS sequences were not included due to the large number of gaps among the strains that could not be resolved. Sequences from each locus were aligned using Clustal X v2.1, trimmed to equal lengths, and concatenated. The best model of nucleotide substitution was determined using MEGA. Based on this model, a maximum-likelihood tree was generated in MEGA with 1000 bootstrap replicates. Due to missing genes among the strains as well as some alignment gaps, we used the pairwise deletion option when inferring the tree.

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Bai Y., Hayman D.T., McKee C.D, & Kosoy M.Y. (2015). Classification of Bartonella Strains Associated with Straw-Colored Fruit Bats (Eidolon helvum) across Africa Using a Multi-locus Sequence Typing Platform. PLoS Neglected Tropical Diseases, 9(1), e0003478.

Publication 2015

16s rrna Alleles Bartonella Bats Brucella abortus Deletion Fruit Genes Nucleotide Ssra Strains Tree

Corresponding Organization :

Other organizations : Centers for Disease Control and Prevention, Massey University

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Variable analysis

independent variables

Concatenated MLST alleles
Sequences of ftsZ, gltA, nuoG, ribC, rpoB, ssrA, and 16S rRNA

dependent variables

Neighbor-joining tree
Maximum-likelihood tree

control variables

Brucella abortus included as an outgroup

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