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. 2013 Nov 27;8(11):e81439. doi: 10.1371/journal.pone.0081439

Table 2. List of bacteria unambiguously identified at the species level in ticks, including the number of NGS reads for each species, the corresponding list of identified genes allowing taxonomic affiliation (with% identity) to one specific bacteria, and the closest bacterial species to the unambiguously identified species (with% identity).

Unambiguously identified bacterial species (read number) Gene hit (Accession number) -% id Closest species -% id
Anaplasma phagocytophilum (5234) 16S RNA (JN990105) - 100% A. ovis - 99%
23S RNA (AF416766) - 100% A. marginale - 96%
Bartonella henselae (33) dnaB (BH0270) - 100% B. tribocorum - 94%
dnaJ (BH00660) - 100% B. quintana - 91%
trkA (BH05860) - 100% B. quintana - 93%
Phage related protein (BH09270) - 100% B. grahamii - 84%
Hypothetical protein (BH022330) - 99% B. tribocorum - 85%
Transketolase - (BH15090) - 99% B. quintana - 87%
Bartonella grahamii (39) Phage tail protein encoding gene (ACS5068.1) - 90% None
Adhesin (ACS50528.1) - 75% None
Borrelia afzelii (1057) Hypothetical protein (CP000395) B. garinii - 96%
Borrelia garinii (723) Hypothetical protein (CP001205) - 100% B. afzelii - 98%
Hypothetical protein(CP003151) -100% B. afzelii - 98%
Borrelia burgdorferi s.s. (475) 23S RNA (BORG23S) - 100% B. garinii - 99%
Borrelia miyamotoi (2499) 16S RNA (JF951385) - 100% Other Borrelia sp. <98%
Candidatus “Neoehrlichia mikurensis” (2010) 16S RNA (JQ359061) - 100% A. phagocytophilum <97%
Ehrlichia canis* (660) PhoT family ABC transporter (CP000107) - 75% None
23SrRNA - 96% E. chaffensis - 96%
Rickettsia canadensis (16) MraW (CP000409) - 96% R. felis - 93%
TraD (CP000409) - 97% R. amblyommii - 85%
16S RNA methyltransferase: (CP003304) - 97% R. montanensis - 88%
Rickettsia felis (180) Plasmid pRF (GQ329881) - 98% R. australis - 91%
Unknown protein (CP000053) - 95% R. australis - 90%
AmpC (CP000053.1) - 99% R. amblyoma - 97%
Sca13 (CP000053) - 96% R. slovaca - 91%
Rickettsia helvetica (2411) Sca1 (AY355363) - 100% R. felis - 91%
ompB (JN036412.1) - 100% R. asiatica - 94%
groEL (DQ442911) - 99% R. canadensis - 97%
sca4 (FJ358501.1) - 100% R. tamurae - 94%