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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.
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BMC Ecology and Evolution

ISSN: 2730-7182

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