Table 4 Genes specific to L. reuteri pig clades IV and V
From: The pan-genome of Lactobacillus reuteri strains originating from the pig gastrointestinal tract
Locus tag | Gene product or putative function | Encoded protein (aa) | COG | pfam |
|---|---|---|---|---|
A. Clade IV-specific genes (strain ATCC 53608 nomenclature) | ||||
 LRATCC53608_0113 | TetR family transcriptional regulator | 197 | - | 00440 |
 LRATCC53608_0114 | Conserved hypothetical protein with DHS-like NAD/FAD-binding domain | 226 | - | - |
 LRATCC53608_0115 | NAD-dependent protein deacetylase; SIR2 family | 324 | 0846 | - |
 LRATCC53608_0124 | NAD-dependent epimerase/dehydratase; NmrA-like family | 208 | 2910 | 13460 |
 LRATCC53608_0212 | Secreted LPXTG cell wall anchor protein with X5 MucBP domains; putative mucus-binding adhesin | 1166 | - | 06458 00746 |
 LRATCC53608_0604 | Lysophospholipase; esterase-lipase superfamily; possible pseudogene with LRATCC53608_0605 | 197 | 2267 | 12697 |
 LRATCC53608_0605 | Lysophospholipase; esterase-lipase superfamily; possible pseudogene with LRATCC53608_0604 | 82 | - | 12146 |
 LRATCC53608_0617 | B3/4 domain-containing protein; tRNA synthetase (Phe); tRNA ligase | 237 | 3382 | 03483 |
 LRATCC53608_1334 | Mid-1-related chloride channel protein with LPXTG cell wall anchor; possible truncated pseudogene lacking a secretion signal | 122 | - | 00746 |
 LRATCC53608_1865 | Phage integrase; possible truncated pseudogene | 189 | - | 00589 |
B. Clade V-specific genes (strain 20-2 nomenclature) | ||||
 LR202_00053 | Helix-turn-helix protein; putative transcriptional regulator | 64 | - | 12728 |
 LR202_00355 | Blue copper oxidase CueO precursor; cell cycle control, ion transport, cell surface biogenesis | 512 | 2132 | 07731 07732 |
 LR202_00455 | Poly(glycerol-phosphate) α-glucosyltransferase (EC 2.4.1.52); cell wall biosynthesis; DUF1975 | 499 | 0438 | 00534 09318 |
 LR202_00456 | Poly(glycerol-phosphate) α-glucosyltransferase (EC 2.4.1.52); teichoic acid synthesis; DUF1975 | 518 | - | 09318 00534 |
 LR202_00788 | Hypothetical protein | 142 | - | - |
 LR202_00789 | NADPH:quinone reductase/Zn-dependent oxidoreductase | 325 | 0604 | 08240 00107 |
 LR202_00791 | Acetylornithine deacetylase (EC 3.5.1.16)/lysine biosynthesis; zinc peptidase M20 | 380 | 0624 | 01546 07687 |
 LR202_00792 | Mobile element protein; transposase | 423 | 3464 | 14690 01610 |
 LR202_00802 | Reticulocyte binding protein; type II restriction modification DNA methylase Eco57I | 312 | - | 07669 |
 LR202_00803 | TaqI-like C-terminal specificity domain; type II restriction m6A DNA methyltransferase | 174 | - | 12950 |
 LR202_00923 | TetR family transcriptional regulator | 227 | - | 00440 14278 |
 LR202_00927 | Hypothetical protein | 172 | - | - |
 LR202_00992 | Pyruvate carboxyl transferase (EC 6.4.1.1); ATP-binding domain | 210 | - | 02786 00289 |
 LR202_01101 | Phage integrase/recombinase | 379 | 4974 | 00589 |
 LR202_01102 | Phage-associated #P4-type DNA primase | 478 | - | - |
 LR202_01104 | Rlx-like relaxase/mobilisation protein | 485 | - | 03432 |
 LR202_01105 | Hypothetical protein | 112 | - | - |
 LR202_01106 | Hypothetical protein | 250 | - | - |
 LR202_01429 | Secreted protein with Ser/Ala-rich surface protein repeats, SEC10/PgrA surface exclusion domain and LPXTG cell wall anchor; Rib/alpha-like repeat | 1133 | - | 00746 08428 |
 LR202_01598 | Secreted protein with SEC10/PgrA surface exclusion domain; possible pseudogene lacking an LPXTG cell wall anchor | 541 | - | - |
 LR202_01610 | Conserved hypothetical integral membrane protein; possible Mg-transporting ATPase (P-type) or dolichyl-phosphate-mannose-protein mannosyltransferase PMT-2 superfamily | 499 | 0474 | - |
 LR202_02163 | Secreted protein with Ser/Ala-rich surface protein repeats, SEC10/PgrA surface exclusion domain and LPXTG cell wall anchor; Rib/alpha-like repeat | 1084 | - | 00746 08428 |