Table 5.
Genes present or absent in all L5 genomes compared to H37Rv. The genes are ordered in the table along with their flanking genes, as in the genome. The RD regions are those reported by Gordon et al. [13]
|
Gene name |
Present in |
Size |
Co-ordinates in H37Rv |
Co-ordinates in PcbL5Ben |
Functional category |
Present in L5 Illumina-sequenced genomes % (n=202) |
Belongs to RD# (no. total of genes forming the RD) |
|---|---|---|---|---|---|---|---|
|
PcbL5Ben_2128 (Rv1976c) |
|
2218844–2219251 |
2244287–2244565 |
Conserved hypothetical protein |
100 (202) |
RD7 |
|
|
PcbL5Ben_2129 |
L5 |
648 bp |
– |
2244695–2245342 |
PE/PPE |
100 (202) |
|
|
PcbL5Ben-2130 |
L5 |
600 bp |
– |
2246122–2246721 |
Hypothetical protein |
100 (202) |
|
|
Rv1977 |
H37Rv, L6, M. bovis |
1047 bp |
2219754–2220800 |
– |
Conserved hypothetical protein |
0 (0) |
RD7 (14 genes) |
|
Rv1978 |
H37Rv, L6, M. bovis |
849 bp |
2220908–2221756 |
– |
Conserved hypothetical protein |
1 (2) |
RD2 |
|
Rv1979c |
H37Rv, L6, M. bovis |
1446 bp |
2221719–2223164 |
– |
Cell wall and cell processes |
0 (0) |
RD2 (10 genes) |
|
PcbL5Ben_2131 (Rv1980 (mpt64)) |
|
2223343–2224029 |
2246867–2247553 |
Cell wall and cell processes |
100 (202) |
RD2 |
|
|
………//……… |
|
|
|
||||
|
PcbL5Ben_2149 (Rv1992 (ctpG)) |
|
2234991–2237306 |
2258516–2259319 |
Cell wall and cell processes |
100 (202) |
|
|
|
Rv1993c |
H37Rv, L6, M. bovis |
273 bp |
2237303–2237575 |
– |
Conserved hypothetical protein |
0 (0) |
|
|
Rv1994c (ctmR) |
H37Rv, L6, M. bovis |
357 bp |
2237628–2237984 |
– |
Regulatory proteins |
0.5 (1) |
|
|
Rv1995 |
H37Rv, L6, M. bovis |
729 bp |
2238141–2238908 |
– |
Conserved hypothetical protein |
0 (0) |
|
|
PcbL5Ben_2150 (Rv1996) |
|
2239004–2239957 |
2259333–2260169 |
Virulence, detoxification, adaptation |
100 (202) |
|
|
|
………//……… |
|
|
|
||||
|
PcbL5Ben_2180 (Rv2023A) |
|
2268268–2268726 |
2289843–2290475 |
Conserved hypothetical protein |
100 (202) |
|
|
|
PcbL5Ben-2181 |
L5, L6, M. bovis |
237 bp |
– |
2290472–2290708 |
Hypothetical protein |
100 (202) |
|
|
PcbL5Ben-2182 (Mb2048c, RvD1) |
L5, L6, M. bovis |
897 bp |
– |
2290915–2291811 |
Unknown function |
100 (202) |
|
|
PcbL5Ben_2183 (Rv2024c) |
|
2268693–2270240 |
2291995–2296815 |
Conserved hypothetical protein |
100 (202) |
|
|
|
………//……… |
|
|
|
||||
|
PcbL5Ben_2231, PcbL5Ben_2232 (Rv2072 (cobL)) |
|
2328974–2330146 |
2355547–2356422, 2356373–2356561 |
Intermediary metabolism and respiration |
100 (202) |
RD9 (4 genes, including Rv2072 truncated) |
|
|
Rv2073c |
H37Rv |
750 bp |
2330214–2330963 |
– |
Intermediary metabolism and respiration |
0 (0) |
RD9 |
|
Rv2074 |
H37Rv |
408 bp |
2330993–2331406 |
Intermediary metabolism and respiration |
0 (0) |
RD9 |
|
|
PcbL5Ben_2233 (Rv2075c) |
|
2331416–2332879 |
2356636–2357388 |
Cell wall and cell processes |
100 (202) |
RD9 (4 genes, including Rv2075c truncated) |