Brückner et al.,
Fig. 1b
1
2
3
12
4
c
b
11
5
a
10
6
9
7
8
Brückner et al., Fig. 1B
Fig. 1. Circular representation of Streptococcus pneumoniae genome comparisons. A.
S. pneumoniae R6 versus TIGR. B. S. pneumoniae TIGR versus R6. The outer two
circles show the predicted coding regions according to the NCBI accession number
NC_003098 (R6) and NC_003028 (TIGR). The third circle in red shows the result of
blast hits with a minimum length of 1000 bp; white areas represent genomic regions
present in one strain only (closed circles). The forth circle indicates the GC content,
and innermost circle represents the GC skew. The dots mark regions of high diversity
between the two strains; the numbers refer to the clusters outlined in tables 1 and 3.
The arrows marked a, b and c indicate regions of unusual GC content and GC skew.
Diagrams were created with the programme ARTEMIS. Standard parameters were
used (window size: 1000 bp, window step: 100 bp).
1
2
6
c
a
5
4
3
Brückner et al., Fig. 1A
Brückner et al.,
Fig. 1a
spr0102 - argG
110,000
109,691
112,000
114,000
116,000
118,000
114,000
115,279
120,000
114,000
116,975
122,000
118,000
SP0117 - pspA
124,000
126,000
126,908
spr0121 - pspA
Brückner et al., Fig. 2
Fig. 2. The R6 cluster 1 region. The numbers refer to the borders of sequence divergence between S. pneumoniae
TIGR and R6 strains. The arrows depict the orientation of the genes as annotated. Regions with >98% sequence
identities are connected by lines. The regions of homology are indicated by different shades of gray.
Brückner et al.,
1
1*
Fig. 4
2
2*
3
4
3*
4*
5*
6*
5
7*
6
8*
7
8
9*
9
10*
11*
10
11
Brückner et al., Fig. 4
12
12*
13*
Fig. 4. Gene clusters of S. pneumoniae TIGR detectable on oligonucleotide microarrays in hybridization with genomic
DNA of genetically distinct S. pneumoniae strains. The genes are arranged according to the annotated genome with
the replication start on top. Low hybridization signals are indicated by black lines, and only those genes that differ by
an intensity ratio smaller than –4 in at least one of the strains shown are marked by black lines. Clusters that are not
contained in the R6 strain are marked by arrows on the left side (1-12); other clusters noticeable in other strains are
marked on the right (1* - 13*). The strains used for hybridization are described in detail in (Hakenbeck et al. 2001):
strain 4 (serotype 4 from Papua), the pair R6/D39, serotype 22 ATCC 49619, serotype 23F D219 from Germany;
serotype 23F F1 (France); three representatives of the Hungarian seroytpe 19A multiresistant clone (Hu-11, Hu-15,
Hu-9); the two serotype 3 strains 1711 (Switzerland) and 4241 (France); serotype 23F from Finland; four
representatives of the multiresistant Spanish 23F clone 17 (South Africa), 2349, 456 and the 19F capsular variant 496
from Spain; and the multiresistant serotype 6B from Spain.
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