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Table 3 M. avium paratuberculosis PE and PPE genes*

From: Evolution and expansion of the Mycobacterium tuberculosis PE and PPE multigene families and their association with the duplication of the ESAT-6 (esx) gene cluster regions

PE genes
TIGR gene number Primary gene number M. tuberculosis orthologue gene number
NT03MA0124 MAP0122 Rv1386
NT03MA1039 MAP1003c Rv1040c (included in the same sequence as Rv1039c – see below)
NT03MA0159 MAP0157 Rv3893c
NT03MA0465 MAP0441 Rv3622c
Not annotated (NT03MA1570.1) - Rv1788
NT03MA1572 MAP1507 Rv1791
NT03MA1580 MAP1514 Region 5
NT03MA2703 MAP2576c Probably Rv1195, but have been rearranged
NT03MA3983 MAP3781 Rv0285
NT03MA4378 MAP4144 Absent in M. tuberculosis – situated between Rv0685 and Rv0686 – most homologous to PE Rv3595c
PPE genes
TIGR gene number Primary gene number M. tuberculosis orthologue gene number
NT03MA0125 MAP0123 Rv1387
NT03MA0160 MAP0158 Rv3892c
NT03MA0467 MAP0442 Rv3621c
NT03MA0998 MAP0966c Absent in M. tuberculosis – Situated between Rv1006 and Rv1007 next to a transposase – most homologous to the PPE Rv1789
NT03MA1039 MAP1003c Rv1039c (also includes Rv1040c in the same sequence)
NT03MA1194 MAP1144c Absent in M. tuberculosis – Situated between Rv1417 and Rv1420-most homologous to the PPE Rv0280
NT03MA1201 MAP1152 Absent in M. tuberculosis – Situated between Rv1423 and Rv1425 next to a transposase – most homologous to the PPE Rv1808 and Rv1801
NT03MA1202 MAP1153 Absent in M. tuberculosis – Situated between Rv1423 and Rv1425-most homologous to the PPE Rv1809
NT03MA1204 MAP1155 Absent in M. tuberculosis – Situated between Rv1423 and Rv1425-most homologous to the PPE Rv1807
NT03MA1570 MAP1505 Rv1787
NT03MA1571 MAP1506 Rv1789
NT03MA1581 MAP1515 Region 5 – most homologous to Rv1807
NT03MA1582 MAP1516 Region 5 – most homologous to Rv1807
NT03MA1585 MAP1518 Region 5 – most homologous to Rv1808
NT03MA1586 MAP1519 Region 5 – most homologous to Rv1809 and Rv1802
NT03MA1589 MAP1521 Region 5 – most homologous to Rv1808 and Rv1801
NT03MA1590 MAP1522 Region 5 – most homologous to Rv1809
NT03MA1746 MAP1675 Absent in M. tuberculosis – Situated between large number of M. avium genes absent from M. tuberculosis – most homologous to PPE Rv3621c
NT03MA1809 MAP1734 Absent in M. tuberculosis – Situated between large number of M. avium genes absent from M. tuberculosis – most homologous to PPE Rv2123
NT03MA1810 - Absent in M. tuberculosis – Situated between large number of M. avium genes absent from M. tuberculosis – most homologous to PPE Rv0280
NT03MA1895 MAP1813c Absent in M. tuberculosis – Situated between Rv2066 and Rv2069 – most homologous to PPE Rv0256c
NT03MA2236 MAP2136c Situated between Rv2348 and Rv2357c, in other words in the position of PPE Rv2352, Rv2353 or Rv2356, but does not contain MPTR tail and shows most homology to PPE Rv1789
NT03MA2702 MAP2575c Probably Rv1196, but have been rearranged
NT03MA2725 MAP2595 Absent in M. tuberculosis – Situated between Rv1186c and Rv1185c – most homologous to PPE Rv0256c
NT03MA2730 MAP2600 Absent in M. tuberculosis – Situated between Rv1185c and Rv1181 – most homologous to PPE Rv1807
NT03MA2731 MAP2601 Absent in M. tuberculosis – Situated between Rv1185c and Rv1181 – most homologous to PPE Rv1808
NT03MA3070 MAP2927 Absent in M. tuberculosis – Situated between Rv2856 and Rv2857c – most homologous to PPE Rv2892c
NT03MA3359 MAP3184 Rv3135
NT03MA3360 MAP3185 Rv3136
NT03MA3611 MAP3419c Absent in M. tuberculosis – Situated between Rv3298c and Rv3300c – most homologous to PPE Rv1789
NT03MA3612 MAP3420c Absent in M. tuberculosis – Situated between Rv3298c and Rv3300c – most homologous to PPE Rv1809
NT03MA3690 MAP3490 Absent in M. tuberculosis – Situated between Rv3396c and Rv3400 – most homologous to PPE Rv0280
NT03MA3934 MAP3725 Rv0280
NT03MA3944 MAP3737 Absent in M. tuberculosis – Situated between large number of M. avium genes absent from M. tuberculosis – most homologous to PPE Rv0256c
NT03MA3967 MAP3765 Absent in M. tuberculosis – Situated between large number of M. avium genes absent from M. tuberculosis – most homologous to PPE Rv0280
NT03MA3984 MAP3782 Rv0286
NT03MA4150 MAP3939c Rv0442c – Situated between Rv0441c and Rv0443, in other words in the position of PPE Rv0442c, but does not contain MPTR tail although it shows most homology to PPE Rv0442c
  1. *The genes NT03MA3679 and NT03MA4076 was annotated as PE_PGRS family proteins in the TIGR annotation, but they are in fact not. NT03MA3679 is an orthologue of Rv3390 (lpqD), while NT03MA4076 is a gene which is absent in M. tuberculosis (situated between Rv0358 and Rv0357c). Although it is slightly homologous to the PE_PGRS Rv0754, this homology is only to bp 280 – 520 of the 584 bp PE_PGRS sequence (this region of homology is also highly homologous to lpqD and consists of a biphosphatase and phosphoglycerate mutase signature). It also does not contain the conserved PE N-terminus and is thus highly unlikely to be a PE_PGRS member.