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A variety of  Chlamydia  species belonging to the  Chlamydiaceae  family have been reported in birds. Until recently,  C. psittaci  was considered to be the most common avian species, although found in both birds and mammals, while  C. abortus  has only been found in mammals. Recently, a new group of avian  C. abortus  strains with worldwide distribution in various wild bird families has been described. In this study, whole genome sequencing (WGS) of three of these strains (15-70d24, 15-49d3 and 15-58d44, representing genotypes G1, G2 and 1V, respectively) that were isolated from wild birds were analysed. Genome assemblies based on both short-read Illumina and long-read Nanopore data indicate that these avian  C. abortus  strains show features characteristic of both  C. abortus  and  C. psittaci  species, although phylogenetic analyses demonstrate a closer relationship with classical  C. abortus  strains. Currently, species classification established by the ICSP Subcommittee on the taxonomy of Chlamydiae, determines that these avian  C. abortus  strains 15-70d24, 15-49d3 and 15-58d44 should be classified as  C. abortus . However, the authors of this study conclude that the current taxonomic definition of  C. abortus  is outdated and should be amended to include two subgroups, mammalian and avian, the latter of which would include all isolates so far referred to as atypical  C. psittaci  or  C. psittaci / C. abortus  intermediates.

pathogens

Whole Genome Sequencing and Comparative Genome Analyses of Chlamydia abortus Strains of Avian Origin Suggests That Chlamydia abortus Species Should Be Expanded to Include Avian and Mammalian Subgroups