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. 2011 May 24;6(5):e19813. doi: 10.1371/journal.pone.0019813

Table 1. Nucleotide variations in rRNA molecules of C. abortus strains compared with related taxa and respective nucleotide frequency data within the domain Bacteria.

Organisms Base or base pair in
16S rRNA 16S-23S IS 23S rRNA (domain I)
80:89a 247:277 45:396 681:709 79 152:174 [181–182] 273:364 547
Chlamydophila abortus B577T VR-656 (D85709, U68445) G:U G:C U:G A:U C G:U U A:U C
C. abortus LLG (EF486856) A:U G:C U:G G:U U A:U C G:U C
C. abortus POS (EF486857) A:U G:C U:G G:U U A:U C G:U C
C. abortus FAS (EF486853) G:U G:U U:A A:U C G:U U A:U C
C. abortus FAG (EF486854) G:U G:U U:A A:U C G:U U A:U U
C. abortus VPG (EF486855) G:U G:U U:A A:U C G:U U A:U U
C. abortus S26/3 (CR848038) G:U G:U U:A A:U C G:U U A:U C
C. abortus EBA (U76710) G:U G:U U:A A:U C G:U U A:U C
C. abortus EAE (Z49871), A22 (U68444) G:U G:U U:A A:U C G:U U A:U C
C. abortus OEA (Z49872), OSP (U68446) G:U G:U U:A A:U C G:U U A:U C
Chlamydophila psittaci 6BCT VR-125 (U68447)b G:U G:C U:G A/g:U C A:U C A:U A/c
Chlamydophila caviae GPICT VR-813 (AE015925)b A:U G:C U:G A:U C A:U C A:U C
Chlamydophila felis FP BakerT VR-120 (D85701, U68457)b G:U G:C U:G A:U C A:U C A:U C
Chlamydophila pecorum E58T VR-628 (D88317, U68433) b G:U G:C U:G A:U C A:U A A:U C
Chlamydophila pneumoniae TW-183T VR-2282 (L06108, U76711)b G/a:U G:C U:G A:U C A:U C A:U C
C. pneumoniae N16 (U68426) G:U G:C U:G A:U C A:U C A:U C
C. pneumoniae LPCoLN (FJ236984) G:U G:C U:G A:U na na na na na
Chlamydia trachomatis A/Har-13T VR-571B (D89067, U68438)b U:G/A G:C U:G A:U U G:C C A/g:U A
C. trachomatis L2/434/BU VR-902B (U68443, U68443) b U:A G:C U:G A:U U G:C C A:U A
Chlamydia muridarum MoPnT VR-123 (D85718, U68436) b U:G G:C U:G A:U C G:C C G:U A
Chlamydia suis S45T VR-1474 (U73110)b U:A G:C U:G A:U C G:C C A:U A
Parachlamydiaceae sp. Bn9T VR-1476 (Y07556, AF193069, Y07555)b − G:C U:G A:U C U:A/C:G U/C G:C/A:U U/A
Waddliaceae sp. WSU 86/1044T VR-1470 (AF042496)b G:U G:C U:G C/A:U C U:A G G:U/G:C A
Simkaniaceae sp. ZT VR-1471 (U68460)b A:U/− G:C U:G A:U A C:G/U:A U/− G/A:U U
E. coli (J016950) A:U G:C G:C A:U A:U − G:C A
Domain Bacteria
Base pair frequencies based on 16S & 23S rRNA modelsc G:C 32.5 C:G 18.9 U:A 18.1 A:U 12.1 G:U 5.2 U:G 1.2 Gap 9.7 G:C 99.2 C:G ---- U:A ---- A:U 0.1 G:U 0.4 U:G ---- Gap ---- G:C 27.0 C:G 5.3 U:A 37.2 A:U 0.8 G:U 0.2 U:G 25.2 Gap ---- G:C 10.5 C:G 16.7 U:A 40.6 A:U 31.2 G:U 0.1 U:G ---- Gap ---- G:C 12.6 C:G 37.0 U:A 10.4 A:U 27.0 G:U 6.3 U:G 0.4 Gap 1.5 G:C 28.2 C:G 19.5 U:A 21.7 A:U 7.2 G:U 4.7 U:G ---- Gap 15.6
Single base frequencies based on 16S & 23S rRNA modelsc A 14.05 G 37.93 C 19.75 U 19.75 A 0.00 G 0.10 C 99.27 U 0.59 A 37.42 G 30.29 C 31.05 U 1.20 A 31.51 G 10.63 C 17.00 U 40.77 A 27.78 G 19.63 C 37.78 U 13.70 A 8.63 G 33.81 C 21.58 U 21.94 A 53.76 G 9.32 C 16.13 U 20.79
a

Nucleotide positions of the 16S rRNA and 23S domain I rRNA are given according to E. coli J01695 secondary structure numbering system [35]; position of 16S-23S Intergenic Spacer based on primary structure is given according to the C. abortus type strain B577T sequence (U68445). Positions of the single nucleotide variations (SNVs) are indicated in boldface. The [181–182] position represents “insertion” position.

b

More than two or three accession numbers for each species or family including the type strain (T), were analyzed (the majority of analyzed strains and their accession numbers are given in the Figures S2, S3 and S4); lower-case letters denote residues found only in one of the examined strains; “na”, not available data; “−”, nucleotide gap in rRNA sequence comparison.