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Salmonella enterica subsp. I serovar Enteritidis (S. Enteritidis) is the world's leading cause of salmonellosis. Eggs contaminated by apparently healthy hens can result in illness in humans who consume them. Although the incidence of this pathogen within the United States has not been as high as it has been in Europe, current estimates from the Centers for Disease Control and from the USDA-Food Safety Inspection Service respectively suggest that this pathogen has the capacity to contaminate meat as well as eggs. It is considered a persistent threat to the safety of the food supply (1). It has prevented export of breeding stock to other countries. To investigate the genetic basis for the ability of the pathogen to contaminate eggs as well as to identify other evolutionary trends associated with growth potential and colonization of the avian host, the genomes of two monomorphic strains of S. Enteritidis PT13a with variant phenotypes were subjected to virtual subtraction hybridization against dimorphic S. Enteritidis PT4 (3). Direct comparison of the closely related genomes was possible by using the genome database for S.Enteritidis PT4 NCTC 13349 to generate overlapping sets of primers (Nimblegen, Inc.) that were capable of detecting single nucleotide polymorphisms (SNPs). The database of the S. Enteritidis PT4 reference genome is from the Pathogen Sequencing Group at the Sanger Institute and can be obtained from http://www.sanger.ac.uk/Projects/Salmonella/ and at NCBI under EMBL Accession Number AM933172 and in NCBI RefSeq Accession Number NC_011294. Version 7 lists 247 confirmed polymorphisms in the chromosome, one of which changes an amino acid and introduces a deletion (248 line entries). The large virulence plasmid had 3 additional SNPs. Version 7 is the endpoint of analysis. Future updates to this website will focus on editorial content rather than de novo discovery. Users of this information are asked to contact the principle investigator if corrections are needed or if additional information becomes available that should be linked to this website.
SNP locationb,c | PT4 P125109 dbSNP IDd | PT4 P125109 protein | Salmonella enteritidis annotation | Salmonella typhimurium annotation | gene name | mutated PT13a 21046 straine | nucleotide substitutiona(PT4 P125109/PT13a 21046) | amino acid substitutiona(PT4 P125109/PT13a 21046) | class of amino acid substitutiona(PT4 P125109/PT13a 21046) | KEGG pathway | other information |
Large Virulence Plasmid SNPs | |||||||||||
4958 | 159831017 | na | pSLT008-009 | srgC-rck | 21046 | T/C | intergenic | na | - | - | |
19260 | 159831018 | na | pSLT026-027 | pSLT026-ccdA | 21046 | A/G | intergenic | na | - | - | |
38977 | 159831019 | na | pSLT047-048 | pSLT047-tldA | 21046 | G/T | intergenic | na | - | - | |
Chromosomal SNPs | |||||||||||
74552 | 153929104 | CAR31655.1 | SEN0065 | STM0064 | dapB | 21027 | G/A | AA asp to asn 263 | ap to np | 00300 | reduces 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis |
82917 | 153929758 | CAR31661.1 | SEN0072 | STM0071 | caiC | 21046 | C/T | AA val to ile 258 | nn to nn | - | AMP-binding enzyme;L-carnitine production |
95090 | 142459090 | na | SEN0083-0084 | STM0083-0084 | none | 21046 | A/G | intergenic | na | - | - |
95192 | 142459091 | na | SEN0083-0084 | STM0083-0084 | none | 21046 | G/A | intergenic | na | - | - |
129592 | 141096998 | CAR31701.1 | SEN0112 | STM0111 | leuC | 21046 | C/T | synonymous | na | 00290 | valine, leucine and isoleucine biosynthesis |
186989 | 142459106 | na | SEN0161-0162 | STM0157-0158 | yacH-acnB | 21027 | T/G | intergenic | na | - | - |
196607 | 153929107 | CAR31758.1 | SEN0170 | STM0165 | speD | 21027 | T/C | AA thr to ala 55 | np to nn | 00271, 00220 | spermidine biosynthesis from putrescine |
204450 | 153929760 | CAR31765.1 | SEN0177 | STM0172 | yadG | 21046 | G/A | AA gly to ser 166 | nn to np | 02010 | ABC-type multidrug transport system |
226922 | 153929762 | CAR31784.1 | SEN0196 | SeAg_B0227 | fhuA | 21046 | C/T | AA TER at gln 470 | np to TER | - | ferrichrome-iron receptor, colicin M, and phages; pseudogene |
237853 | 153929109 | CAR31793.1 | SEN0205 | STM0200 | stfG | 21027 | A/C | AA thr to pro 98 | np to nn | 02010 | High-affiinity transport of Fe (3+) ferrichrome |
241034 | 141100738 | CAR31796.1 | SEN0208 | STM0203 | yadQ | 21027 | G/A | synonymous | na | - | chloride channel protein important for extreme acid resistance |
255011 | 141100740 | CAR31807.1 | SEN0219 | STM0213 | dapD | 21027 | A/G | synonymous | na | 00300 | 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase |
267017 | 141096999 | CAR31818.1 | SEN0230 | STM0223 | yaeL | 21046 | G/A | synonymous | na | - | zinc metallopeptidase |
304365 | 153929764 | CAR31848.1 | SEN0261 | STM0259 | yafE | 21046 | G/A | AA ala to thr 101 | nn to np | 00620 | menaquinone/biotin biosynthesis |
351933 | 141100742 | CAR31897.1 | SEN0311 | STM0328.s | none | 21027 | G/A | synonymous | na | - | permease |
393529 | 153929111 | CAR31933.1 | SEN0347 | STM0364 | foxA | 21027 | Del G/- | DEL 1 bp | Del | - | ferrioxamine receptor |
399525 | 141100744 | CAR31939.1 | SEN0353 | STM0370 | prpD | 21027 | C/T | synonymous | na | 00790, 00500 | 2-methylcitrate dehydratase; propionate catabolism |
401171 | 153929113 | CAR31940.1 | SEN0354 | STM0371 | prpE | 21027 | C/G | AA arg to gly 60 | bp+ to nn | 00640 | forms propionyl-CoA from propionate |
466363 | 153929766 | CAR32002.1 | SEN0416 | STM0434 | apbA | 21046 | C/T | AA ser to asn 237 | np to np | 00770 | Pantothenate and CoA biosynthesis |
505777 | 153929768 | CAR32036.1 | SEN0450 | STM0469 | rpmE2 | 21046 | C/A | AA ser to arg 18 | np to bp+ | 03010 | 50S ribosomal protein L31 type B |
513535 | 153929115 | CAR32044.1 | SEN0458 | STM0477 | acrR | 21027 | A/G | AA ser to gly 137 | np to nn | - | regulates acrAB operon; TetR/AcrR family (dephalothin and cephaloridine) |
533246 | 153929117 | CAR32061.1 | SEN0475 | STM0494 | ushA | 21027 | T/G | AA asp to glu 41 | ap to ap | 00760, 00230, 00240 | nicotinate/nicoinamide/purine/pyrimidine metabolism; |
562921 | 153929770 | CAR32088.1 | SEN0503 | STM0522 | allP | 21046 | C/T | AA ala to val 268 | nn to nn | - | Cytosine/uracil/thiamine/allantoin permeases |
565589 | 153929119 | CAR32090.1 | SEN0505 | STM0524 | ybbY | 21027 | T/C | AA pro to leu 238 | nn to nn | - | purine permease |
633202 | 141097001 | CAR32157.1 | SEN0569 | STM0600 | cstA | 21046 | C/T | synonymous | na | - | carbon starvation protein |
643964 | 153929772 | CAR32166.1 | SEN0578 | STM0609 | ahpF | 21046 | C/A | AA asp to glu 281 | ap to ap | - | protects DNA from alkyl hydroperoxides |
661305 | 141100746 | CAR32182.1 | SEN0594 | STM0625 | dpiB | 21027 | G/T | synonymous | na | 02020 | sensory histidine kinase; regulation of cit operon and plasmid inheritance genes |
664020 | 142459107 | na | SEN0596-0597 | STM0627-0628 | dcuC-pagP | 21027 | C/T | intergenic | na | - | - |
684875 | 141097004 | CAR32207.1 | SEN0619 | STM0650 | uxaA | 21046 | C/A | synonymous | na | 00040 | pentose and glucuronate interconversions |
696522 | 153929774 | na | SEN0629 | STM0660 | pseudo | 21046 | G/A | AA arg to cys 288 | bp to np | - | pseudogene in SEN after AA 171 |
716869 | 142459108 | na | SEN0648-0649 | STM0684-0685 | nagB-nagE | 21027 | T/C | intergenic | na | - | - |
721398 | 142459109 | na | SEN0650-0651 | STM0686-0687 | glnS-ybfM | 21027 | C/T | intergenic | na | - | - |
789332 | 141097005 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21046 | C/T | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403870 |
789335 | 141097007 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21046 | T/G | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403871 |
789347 | 141097010 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21046 | T/C | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403872 |
789359 | 141097012 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21046 | C/T | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403873 |
789362 | 141097014 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21046 | T/C | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403874 |
789389 | 141100748 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21027 | T/C | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403874 |
789488 | 141100750 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21027 | G/C | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403875 |
789503 | 141100752 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21027 | C/G | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403876 |
789512 | 141101249 | CAR31646.1 | SEN0712 | STM0767 | dcoA-2 | 21027 | A/G | synonymous | na | - | pseudogene in STM; biotin requiring enzyme; forms oxaloacetate from pyruvate and CO2; repeated at 63302-66643 and complement 3400450 to 3403877 |
799987 | 153929121 | CAR32307.1 | SEN0721 | STM0776 | galE | 21027 | T/A | AA lys to asn 253 | bp to np | 00052, 00520 | UDP-glucose 4-epimerase; galactose and nucleotide sugars metabolism |
818905 | 153929776 | CAR32324.1 | SEN0738 | STM0793 | bioA | 21046 | C/T | AA asp to asn 110 | ap to np | 00780 | biotin metabolism |
831768 | 153929123 | CAR32336.1 | SEN0751 | STM0805 | moaD | 21027 | C/A | AA phe to leu 9 | nn to nn | - | biosynthesis of the molybdenum cofactor |
833026 | 153929778 | CAR32338.1 | SEN0753 | STM0807 | ybhL | 21046 | T/C | AA phe to leu 178 | nn to nn | - | poorly characterized |
838275 | 142459092 | na | SEN0759-0760 | STM0813-0814 | ybhP-ybhQ | 21046 | G/A | intergenic | na | - | - |
883330 | 153929780 | CAR32381.1 | SEN0798 | STM0852 | yliG | 21046 | C/A | AA arg to leu 139 | bp+ to nn | - | 2-methylthioadenine synthetase: RNA binding; catalytic activity; iron-sulfur cluster binding |
900607 | 141097015 | CAR32397.1 | SEN0814 | STM0868 | deoR | 21046 | G/A | synonymous | na | - | putative transport protein/regulator |
909178 | 141101251 | CAR32407.1 | SEN0824 | STM0878 | potG | 21027 | G/T | synonymous | na | putrescine transport ATP-binding protein | |
920824 | 142459110 | na | SEN0836-0837 | STM0891-0892 | artP-ybjP | 21027 | G/A | intergenic | na | - | - |
937016 | 141101253 | CAR32433.1 | SEN0850 | STM0942 | yjbZ | 21027 | C/T | synonymous | na | - | macrolide export |
1019733 | 153929125 | CAR32501.1 | SEN0917 | STM1053 | none | 21027 | T/G | AA glu to ala 109 | ap to nn | - | poorly characterized |
1035179 | 153929127 | CAR32513.1 | SEN0930 | STM1065 | ymbA | 21027 | C/T | AA ala to val 169 | nn to nn | - | poorly characterized |
1035267 | 142459093 | na | SEN0930-0931 | STM1065-1066 | ymbA-rmf | 21046 | A/G | intergenic | na | - | - |
1095448 | 153929129 | CAR32573.1 | SEN0989 | STM1128 | putP | 21027 | G/T | AA TER at cys 120 | np to TER | - | Na+/proline symporter |
1099079 | 153929131 | CAR32576.1 | SEN0992 | STM1131 | kdgM | 21027 | Del A/- | DEL 1 bp | Del | - | oligogalacturonate-specific porin protein; pectin secretion? |
1126845 | 142459111 | na | SEN1024-1025 | STM1984-1985 | yedP-yodD | 21027 | C/T | intergenic | na | - | - |
1159508 | 142459112 | na | SEN_t021-t022 | STM1943-1944 | cysT-glyW | 21027 | C/T | intergenic | na | - | - |
1163256 | 153929133 | CAR32650.1 | SEN1067 | STM1938 | yecA | 21027 | T/G | AA trp to gly 182 | nn to nn | - | metal-binding protein |
1164068 | 141097017 | CAR32651.1 | SEN1068 | STM1937 | tyrP | 21046 | G/A | synonymous | na | - | Tryptophan/tyrosine permase family |
1164733 | 142459113 | na | SEN1068-1069 | STM1937-1936 | tyrP-yecH | 21027 | C/T | intergenic | na | - | - |
1175680 | 141101255 | CAR32664.1 | SEN1081 | STM1922 | motB | 21027 | G/A | synonymous | na | 02030, 02040 | couples rotation with proton/sodium motive force |
1189967 | 141097020 | CAR32676.1 | SEN1093 | STM1910 | ftsI | 21046 | C/T | synonymous | na | - | penicillin-binding protein |
1216457 | 153929135 | CAR32701.1 | SEN1118 | STM1885 | edd | 21027 | A/G | AA lys to arg 503 | bp to bp+ | 00030 | Pentose phosphate pathway |
1218767 | 142459094 | na | SEN1120-1121 | STM1882-1883 | purT-yebG | 21046 | C/T | intergenic | na | - | - |
1248118 | 153929137 | CAR32743.1 | SEN1162 | STM1869 | none | 21027 | T/A | AA val to asp 52 | nn to ap | - | phage-tail assembly-like protein |
1249431 | 153929782 | CAR32745.1 | SEN1164 | STM1868.1N | none | 21046 | A/G | AA asp to gly 68 | ap to nn | - | TER codon of STM is changed; alternative ORF is longer in SE |
1276695 | 141101257 | CAR32775.1 | SEN1194 | STM1843 | none | 21027 | G/T | synonymous | na | - | multidrug efflux system protein domain PRK10504 |
1279901 | 153929139 | CAR32780.1 | SEN1199 | STM1838 | yobF | 21027 | A/G | AA lys to arg 12 | bp to bp+ | - | cytoplasmic |
1281189 | 141101259 | CAR32782.1 | SEN1201 | STM1836 | ftsI | 21027 | C/T | synonymous | na | - | penicillin-binding protein; peptidoglycan synthetase |
1284118 | 153929784 | CAR32785.1 | SEN1204 | STM1833 | none | 21046 | C/T | AA arg to gln 129 | bp+ to np | - | membrane |
1287804 | 153929141 | CAR32789.1 | SEN1209 | STM1828 | yoaE | 21027 | G/A | AA val to ile 29 | nn to nn | - | terC, tellurium resistance |
1289642 | 153929786 | CAR32790.1 | SEN1210 | STM1827 | none | 21046 | C/T | AA gly to ser 421 | nn to np | - | diguanylate cyclase/ phosphodiesterase |
1317293 | 141101261 | CAR32818.1 | SEN1238 | STM1799 | emtA | 21027 | C/A | synonymous | na | - | lysM/invasin domains; lytic transglycosylase; Goose Egg White Lysozyme (GEWL) domain. |
1319180 | 153929143 | CAR32821.1 | SEN1241 | STM1796 | treA | 21027 | T/C | AA thr to ala 512 | np to nn | 00500 | hydrolysis of trehalose to glucose |
1328395 | 141097021 | CAR32829.1 | SEN1250 | STM1787 | none | 21046 | C/T | synonymous | na | - | Ni,Fe-hydrogenase I large subunit; fermentative growth |
1363969 | 142459114 | na | SEN_t025-1280 | STM1756-1757 | purU-tyrT | 21027 | C/T | intergenic | na | - | |
1383947 | 142459115 | na | SEN1295-1296 | STM1739-1738 | cls-yciI | 21027 | A/G | intergenic | na | - | - |
1416687 | 141101263 | AAL20623.1 | SEN1327-1328 | STM1705 | osmB | 21027 | G/A | synonymous | na | - | osmotically inducible lipoprotein; may aid stationary-phase survival |
1445558 | 153929145 | CAR32932.1 | SEN1355 | STM1678 | none | 21027 | C/T | AA asp to asn 49 | ap to np | - | 2'-hydroxyisoflavone reductase |
1474943 | 141101265 | CAR32965.1 | SEN1386 | na | none | 21027 | T/C | synonymous | na | - | degenerate lysogenic bacteriophage in Enteritidis, E. coli and Typhi CT18; |
1503343 | 141097024 | CAR32996.1 | SEN1418 | STM1635 | none | 21046 | C/T | synonymous | na | 02010 | ABC-type polar amino acid transport system |
1533003 | 153929147 | CAR33025.1 | SEN1446 | STM1610 | ydcK | 21027 | A/G | AA val to ala 250 | nn to nn | - | UDP-3-O-[3-hydroxymyristoyl]: LPS |
1541966 | 142459095 | na | SEN1454-1455 | STM1602-1601 | sifB-ugtL | 21046 | G/T | intergenic | na | - | - |
1542105 | 142459116 | na | SEN1454-1455 | STM1602-1601 | sifB-ugtL | 21027 | T/C | intergenic | na | - | - |
1554930 | 153929149 | CAR33043.1 | SEN1464 | STM1591 | ydcZ | 21027 | Del1554930-935 | AA leu to phe 10 (DEL event) | nn to nn | - | unknown function |
1554930 | 153929149 | CAR33043.1 | SEN1464 | STM1591 | ydcZ | 21027 | Del1554930-935 | DEL 6bp | Del11&12 | - | unknown function |
1575469 | 142459117 | na | SEN1480-1481 | STM1575-1574 | TetR-smvA | 21027 | G/T | intergenic | na | - | - |
1579797 | 153929788 | CAR33063.1 | SEN1484 | STM1571 | yddG | 21046 | C/T | AA cys to tyr 78 | np to nn | - | unknown function |
1610591 | 141097025 | CAR33088.1 | SEN1509 | STM1543 | none | 21046 | C/A | synonymous | na | - | sugar metabolism/transportprotein |
1638463 | 153929790 | CAR33118.1 | SEN1539 | STM1512 | dcp | 21046 | T/C | AA asp to gly 386 | ap to nn | - | dipeptidyl carboxypeptidase II; amino acid transport |
1647065 | 142459096 | na | SEN1545-1546 | STM1504-1505 | rspA-ynfA | 21046 | T/C | intergenic | na | - | - |
1656696 | 153929151 | CAR33135.1 | SEN1555 | bf | ynfI | 21027 | T/G | AA asp to glu 93 | ap to ap | - | TorD; cytoplasmic chaperone TorD |
1659052 | 153929792 | CAR33138.1 | SEN1558 | STM1491 | none | 21046 | T/G | AA leu to arg 22 | nn to bp+ | 02010 | proline/glycine betaine transport system |
1679797 | 142459097 | na | SEN1575-1576 | STM1473-1472 | ompN-SEN1576 | 21046 | G/A | intergenic | na | - | - |
1681327 | 153929153 | CAR33157.1 | SEN1576 | STM1472 | ytcJ-like | 21027 | G/A | AA TER at trp 409 | nn to TER | - | metal-dependent hydrolase with the TIM-barrel fold |
1697323 | 153929155 | CAR33172.1 | SEN1590 | STM1457 | rnfC | 21027 | G/A | AA glu to asp 591 | ap to ap | - | NADH ubiquinone dehydrogenase; RnfC; electron transport to nitrogen |
1715322 | 153929157 | CAR33193.1 | SEN1611 | STM1436 | nemA | 21027 | C/T | AA pro to ser 38 | nn to np | - | Old yellow enzyme (OYE)-like FMN; N-ethylmaleimide reductase; |
1723077 | 153929794 | CAR33201.1 | SEN1619 | STM1428 | ydhC | 21046 | G/A | AA gly to ser 241 | nn to np | - | Major facilitator superfamily |
1738692 | 141097027 | CAR33218.1 | SEN1636 | STM1409 | ssaJ | 21046 | C/T | synonymous | na | 03070 | Type III secretion, lipoprotein EscJ |
1764145 | 153929159 | CAR33245.1 | SEN1663 | STM1382 | orf 408 | 21027 | C/A | AA his to asn 327 | bp- to np | - | ribokinase; DeoR family |
1775109 | 141097030 | CAR33257.1 | SEN1675 | STM1370 | sufB | 21046 | G/A | synonymous | na | - | activates cysteine desulfurase SufS with SufCD |
1785781 | 141101267 | CAR33265.1 | SEN1683 | STM1361 | ydiM | 21027 | C/A | synonymous | na | - | Major facilitator superfamily |
1800374 | 141097032 | CAR33277.1 | SEN1695 | STM1349 | pps | 21046 | T/C | synonymous | na | 00620, 00720 | forms phosphoenolpyruvate from pyruvate |
1801472 | 141101269 | CAR33277.1 | SEN1695 | STM1349 | pps | 21027 | A/G | synonymous | na | 00620, 00720 | forms phosphoenolpyruvate from pyruvate |
1806066 | 141097033 | CAR33282.1 | SEN1700 | STM1344 | ydiV | 21046 | G/T | synonymous | na | - | putative diguanylate cyclase/phosphodiesterase |
1828544 | 153929161 | CAR33304.1 | SEN1723 | STM1320 | ydjN | 21027 | G/A | AA TER at trp 225 | np- to TER | - | Predicted Na+/dicarboxylate symporter |
1843306 | 153929796 | CAR33318.1 | SEN1737 | STM1306 | astB | 21046 | G/A | AA arg to cys 39 | bp to np- | 00330 | Succinylarginine dihydrolase |
1860952 | 153929798 | CAR33334.1 | SEN1753 | SeD_A2056 | ydjG | 21046 | G/T | AA arg to ser 245 | bp to np | - | Hypothetical oxidoreductase |
1901744 | 141101271 | CAR33379.1 | SEN1799 | STM1252 | none | 21027 | G/A | synonymous | na | - | predicted neuraminidase (sialidase) |
1903278 | 142459118 | na | SEN1800-1801 | STM1250-1251 | bf | 21027 | G/A | intergenic | na | - | - |
1908163 | 142459119 | na | SEN1805-1806 | STM1242-1243 | bf | 21027 | G/A | intergenic | na | - | - |
1934221 | 141097035 | CAR33411.1 | SEN1831 | STM1218 | lolD | 21046 | G/A | synonymous | na | - | ABC-type antimicrobial peptide transport; lipoprotein transport |
1987706 | 153929800 | CAR33463.1 | SEN1883 | STM1165 | grxB | 21046 | A/G | AA ile to val 5 | nn to nn | - | Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones] |
1990183 | 142459120 | na | SEN1885-1886 | STM1162-1163 | bf | 21027 | C/T | intergenic | na | - | - |
2008113 | 142459098 | na | SEN1905-1906 | STM1143-1142 | csgB-csgD | 21046 | G/A | intergenic | na | - | - |
2008553 | 141097037 | CAR33486.1 | SEN1906 | STM1142 | csgD | 21046 | T/C | synonymous | na | - | DNA-binding transcriptional regulator; activates csg operons involved in biofilm formation |
2062613 | 141101273 | CAR33553.1 | SEN1970 | SeD_A2305 | none | 21027 | G/A | synonymous | na | - | DNA breaking rejoining enzyme superfamily. Phage integrase domain. |
2084629 | 153929802 | CAR33577.1 | SEN1995 | SeD_A2331 | none | 21046 | T/C | AA arg to gly 149 | bp to nn | - | - |
2131226 | 153929163 | CAR33630.1 | SEN2050 | STM2052 | pduQ | 21027 | A/C | AA asp to ala 64 | ap to nn | 00053, 00120, 00650, 00051, 00052, 00260, 00310, 00520, 00625 | propanol dehydrogenase |
2140726 | 142459121 | na | SEN2060-2061 | STM2062-2063 | dacD-phsC | 21027 | G/A | intergenic | na | - | - |
2142697 | 141101275 | CAR33643.1 | SEN2063 | STM2065 | phsA | 21027 | T/C | synonymous | na | - | thiosulfate reductase precursor |
2144992 | 141101277 | CAR33644.1 | SEN2065 | STM2066 | sopA | 21027 | A/G | synonymous | na | - | secreted effector protein |
2158117 | 141101279 | CAR33654.1 | SEN2075 | STM2076 | hisA | 21027 | C/T | synonymous | na | 00340 | amino acid transport and metabolism |
2172706 | 153929165 | CAR33666.1 | SEN2085B | SeD_A2427 | rfbX | 21027 | T/C | AA arg to gly 300 | bp+ to nn | - | O-antigen transporter: in SG & STY, not in STM |
2182397 | 153929167 | CAR33676.1 | SEN2093 | STM2097 | rfbB | 21027 | A/T | AA cys to ser 274 | np to np | 00520, 00523, 00521 | dTDP-glucose 4,6-dehydratase |
2182436 | 153929804 | CAR33676.1 | SEN2093 | STM2097 | rfbB | 21046 | G/T | AA his to asn 261 | bp- to np | 00520, 00523, 00521 | dTDP-glucose 4,6-dehydratase |
2200415 | 141101281 | CAR33691.1 | bf | STM2112 | wcaD | 21027 | G/A | synonymous | na | - | putative colanic acid polymerase |
2203153 | 141097039 | CAR33694.1 | SEN2111 | STM2115 | wcaA | 21046 | G/A | synonymous | na | - | colanic acid:glycosyl transferase |
2231955 | 153929169 | CAR33712.1 | SEN2129 | STM2134 | none | 21027 | G/A | AA gly to glu 207 | nn to ap | - | inner membrane |
2256571 | 141101283 | CAR33735.1 | SEN2150 | STM2156A | none | 21027 | T/C | synonymous | na | - | putative protein of unknown function; possible lipoprotein |
2293090 | 153929171 | CAR33770.1 | SEN2185 | STM2192 | yeiB | 21027 | G/A | AA pro to ser 290 | nn to np | - | inner membrane |
2307838 | 153929806 | CAR33782.1 | SEN2197 | STM2204 | fruA | 21046 | C/T | AA ala to thr 321 | nn to np | 00051, 02060 | fructose-specific metabolism/transportprotein |
2468813 | 141101285 | CAR33928.1 | SEN2344 | STM2362 | purF | 21027 | G/A | synonymous | na | 00251, 00230 | nucleotide:amidophosphoribosyltransferase |
2526004 | 153929808 | CAR33982.1 | SEN2396 | STM2410 | yfeA | 21046 | A/G | AA his to tyr 600 | bp- to nn | - | diguanylate cyclase/phosphodiesterase |
2557022 | 141097041 | CAR34012.1 | SEN2427 | STM2446 | none | 21046 | G/T | synonymous | na | - | iron-dependent peroxidase |
2566232 | 141101287 | CAR34023.1 | SEN2438 | STM2458 | eutB | 21027 | G/T | synonymous | na | 00564 | adenosylcobalamin:ethanolamine ammonia-lyase |
2573093 | 153929173 | CAR34029.1 | SEN2444 | STM2464 | eutN | 21027 | G/A | AA his to tyr 71 | bp- to nn | - | ethanolamine utilization |
2607540 | 142459099 | na | SEN2473-2474 | SeD_A2860-2493 | cdaR-perM | 21046 | T/C | intergenic | na | - | - |
2642024 | 141097044 | na | SEN2494 | STM2514 | ratB | 21046 | G/A | synonymous | na | - | pseudogene; unknown function; putative OMP; many repeats (DUF824) |
2664521 | 141097045 | CAR34093.1 | SEN2510 | STM2530 | none | 21046 | G/A | synonymous | na | - | anaerobic DMSO reductase |
2677674 | 153929810 | CAR34099.1 | SEN2516 | STM2536 | pepB | 21046 | G/A | AA pro to ser 187 | nn to np | - | Cytosol aminopeptidase family |
2686717 | 153929812 | CAR34110.1 | SEN2527 | STM2547 | none | 21046 | C/T | AA thr to met 191 | np to nn | - | lipid:hydrolase |
2690699 | 153929814 | CAR34114.1 | SEN2531 | STM2551 | nicO | 21046 | C/A | AA phe to leu 128 | nn to nn | - | High-affinity nickel protein (see STM2552) |
2736265 | 141101289 | CAR34152.1 | SEN2570 | STM2644 | srmB | 21027 | C/T | synonymous | na | - | transcription: LysR |
2751287 | 142460370 | na | SEN_r005 | STM2657 | rrlG | 21027 | AA/GG | rrn | na | 03010 | 23S rrn subunit |
2751875 | 142460371 | na | SEN_r005 | STM2657 | rrlG | 21027 | T/C | rrn | na | 03010 | 23S rrn subunit |
2764932 | 142459100 | na | SEN2591-2592 | STM2670-2671 | aroF-yfiR | 21046 | G/A | intergenic | na | - | - |
2764986 | 142459101 | na | SEN2591-2592 | STM2670-2671 | aroF-yfiR | 21046 | T/C | intergenic | na | - | - |
2786647 | 153929175 | CAR34191.1 | SEN2609 | STM2689 | bapA | 21027 | G/T | AA trp to cys 2319 | nn to np | - | proline/threonine-rich protein |
2788796 | 153929177 | CAR34191.1 | SEN2609 | STM2689 | bapA | 21027 | A/C | AA ile to leu 3036 | nn to nn | - | proline/threonine-rich protein |
2829865 | 141097047 | CAR34218.1 | SEN2638 | STM2794 | ygaE | 21046 | G/A | synonymous | na | - | regulator of gab gene expression; DNA-binding trnascriptional regulator CsiR; GntR family |
2851388 | 153929816 | CAR34242.1 | SEN2662 | STM2817 | luxS | 21046 | C/T | AA ala to thr 109 | nn to np | 00271 | produces autoinducer; AI II quorum sensing |
2869327 | 153929179 | CAR34259.1 | SEN2680 | STM2839 | ygaA | 21027 | C/T | AA gly to arg 72 | nn to bp+ | - | Required for the expression of anaerobic nitric oxide (NO) reductase; acts as a transcriptional activator for the norVW operon |
2908407 | 153929181 | CAR34299.1 | SEN2721 | STM2879 | sicP | 21027 | G/A | AA ser to leu 112 | np to nn | - | chaperone related to virulence |
2939833 | 153929183 | CAR34330.1 | SEN2751 | STM2912 | pgk | 21027 | Del2939833-844 | DEL 12bp | Del167-170 | - | lysR; transcriptional regulator |
2957802 | 153929185 | CAR34352.1 | SEN2773 | STM2934 | cysN | 21027 | C/A | AA TER at glu 447 | ap to TER | 00230, 00450, 00920 | sulfate adenylyltransferase subunit 1 |
3014949 | 141097049 | CAR34397.1 | SEN2819 | STM2974 | fucA | 21046 | C/T | synonymous | na | 00051 | Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases |
3032200 | 153929187 | CAR34413.1 | SEN2834 | STM2992 | argA | 21027 | C/G | AA leu to val 225 | nn to nn | 00220 | N-acetylglutamate synthase |
3046877 | 141101291 | CAR34422.1 | SEN2843 | STM3001 | thyA | 21027 | G/A | synonymous | na | 00670, 00240 | catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP |
3058806 | 142459102 | na | SEN2853-2854 | STM3010-3011 | aas-galR | 21046 | C/T | intergenic | na | - | - |
3073028 | 141097051 | CAR34445.1 | SEN2867 | STM3024 | rcnA | 21046 | C/G | synonymous | na | - | nickel/cobalt efflux protein RcnA ; membrane protein conferring nickel and cobalt resistance |
3081698 | 153929818 | CAR34452.1 | SEN2874 | STM3030 | none | 21046 | C/T | AA met to ile 6 | nn to nn | - | putative periplasmic protein |
3081785 | 153929189 | CAR34453.1 | SEN2875 | STM3031 | none | 21027 | G/A | AA leu to phe 12 | nn to nn | - | Ail/OmpX-like protein; possible surface antigen |
3135538 | 141097054 | CAR34505.1 | SEN2928 | STM3084.s | fadR | 21046 | G/A | synonymous | na | - | similar to Escherichia coli regulator for uxu operon (AAC77280.1); GntR family |
3148475 | 153929820 | CAR34519.1 | SEN2942 | STM3099 | yggR | 21046 | C/T | AA ala to thr 138 | nn to np | 03090 | twitching motility protein; pilu retraction |
3153640 | 153929822 | CAR34526.1 | SEN2949 | STM3106 | ansB | 21046 | G/A | AA gly to asp 237 | nn to ap | 00252, 00460, 00910 | catalyzes the formation of aspartate from asparagine CRP regulated and induced by anaerobiosis |
3153778 | 153929824 | CAR34526.1 | SEN2949 | STM3106 | ansB | 21046 | C/T | AA ala to val 283 | nn to nn | 00252, 00460, 00910 | catalyzes the formation of aspartate from asparagine CRP regulated and induced by anaerobiosis |
3195186 | 153929191 | CAR34562.1 | SEN2986 | STM3143 | hybG | 21027 | C/A | AA arg to leu 74 | bp+ to nn | - | hydrogenase 2 accessory protein HypG; may effect maturation of large subunit of hydrogenase-2 |
3206865 | 153929193 | CAR34576.1 | SEN3000 | STM3157 | yghA | 21027 | C/A | AA ser to arg 110 | np to bp+ | - | oxidoreductase |
3218705 | 153929195 | CAR34587.1 | SEN3011 | STM3168 | ygiR | 21027 | A/C | AA leu to arg 121 | nn to bp+ | - | Fe-S oxidoreductase family 2 |
3225510 | 141097055 | CAR34593.1 | SEN3017 | STM3174 | par C | 21046 | G/A | synonymous | na | - | decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling |
3296285 | 153929826 | CAR34526.1 | SEN3082 | STM3241 | tdcE | 21046 | T/C | AA asp to gly 135 | np to nn | 00650, 00640, 00620 | Pyruvate formate lyasea:anaerobic glycolysis |
3363009 | 141097057 | CAR34724.1 | SEN3148 | STM3315 | yrbH | 21046 | G/A | synonymous | na | - | D-arabinose 5-phosphate isomerase:polysialic acid capsule expression protein |
3377504 | 141101293 | CAR34739.1 | SEN3163 | STM3330 | gltB | 21027 | G/A | synonymous | na | - | catalyzes the formation of glutamate from glutamine and alpha-ketoglutarate |
3407874 | 153929828 | CAR34767.1 | SEN3191 | STM3358 | none | 21046 | C/G | AA val to leu 140 | nn to nn | - | gntR transcriptional regulator |
3432239 | 141097060 | CAR34788.1 | SEN3213 | STM3379 | accB | 21046 | G/A | synonymous | na | - | acetylCoA carboxylase, BCCP subunit:biotin |
3441850 | 153929197 | CAR34798.1 | SEN3223 | STM3389 | envR | 21027 | A/G | AA val to ala 194 | nn to nn | - | regulator for envCD; acrEF; TetR/AcrR family |
3446987 | 153929830 | CAR34800.1 | SEN3225 | STM3391 | acrF | 21046 | G/A | AA arg to his 992 | bp+ to bp- | - | multidrug transport;acriflavin resistance |
3455766 | 153929832 | CAR34805.1 | SEN3230 | STM3402 | yrdC | 21046 | C/G | AA gly to ala 171 | nn to nn | - | RimN; YrdC; required for maturation of 16s RNA; binds preferentially double stranded RNA |
3507751 | 153929834 | CAR34877.1 | SEN3302 | STM3475 | nirD | 21046 | G/A | AA val to ile 28 | nn to nn | - | nitrite reductase |
3572250 | 153929199 | CAR34928.1 | SEN3353 | STM3528 | pseudo | 21027 | C/T | AA gly to glu 241 | nn to np | - | pseudogene in reference; ABC-type phosphate transport system |
3576418 | 141101295 | CAR34931.1 | SEN3355 | STM3531 | none | 21027 | G/A | synonymous | na | - | dihydroxyacid dehydratase |
3584158 | 153929201 | CAR34936.1 | SEN3360 | STM3536 | glgC | 21027 | C/A | AA glu to asp 174 | ap to np | - | ADP-glucose pyrophosphorylase |
3586071 | 141097062 | CAR34937.1 | SEN3361 | STM3537 | glgX | 21046 | C/A | synonymous | na | - | glycogen debranching enzyme |
3594297 | 141101297 | CAR34943.1 | SEN3367 | STM3544 | yhhW | 21027 | G/A | synonymous | na | - | Cupin domain |
3613736 | 153929836 | CAR34963.1 | SEN3387 | STM3564 | livK | 21046 | C/A | AA ala to ser 207 | nn to np | - | branched chain amino acid binding |
3658575 | 153929203 | CAR35003.1 | SEN3427 | STM3604 | none | 21027 | C/T | AA gly to glu 369 | nn to np | - | inner membrane |
3673351 | 153929205 | CAR35014.1 | SEN3438 | STM3615 | yhjK | 21027 | G/A | AA arg to cys 398 | bp+ to np | - | putative phosphodiesterase; may inhibit biofilm formation; may facilitate invasion of epithelial cells; see HmsP of Yersinia pestis |
3683137 | 141101299 | CAR35018.1 | SEN3442 | STM3619 | bcsA | 21027 | C/A | synonymous | na | - | polymerizes uridine 5'-diphosphate glucose to cellulose; acts with BcsB, BcsZ and BcsC in cellulose biosynthesis |
3734249 | 153929838 | CAR35066.1 | SEN3487 | STM3665 | avtA | 21046 | G/A | AA ser to asn 60 | np to np | - | valine--pyruvate transaminase |
3744227 | 153929207 | CAR35076.1 | SEN3497 | STM3675 | sgbH | 21027 | G/T | AA gly to trp 145 | nn to nn | - | 3-hexulose-6-phosphate isomerase |
3744397 | 141101301 | CAR35076.1 | SEN3497 | STM3675 | sgbH | 21027 | G/T | synonymous | na | - | 3-hexulose-6-phosphate isomerase |
3788343 | 153929840 | CAR35112.1 | SEN3533 | STM3711 | rfaF | 21046 | C/G | AA thr to arg 331 | np to bp+ | 01031, 00540 | LPS heptosyltransferase II |
3792668 | 153929209 | CAR35116.1 | SEN3537 | STM3715 | rfaZ | 21027 | G/T | AA ala to glu 17 | nn to ap | - | LPS core biosynthetic protein |
3793026 | 141097063 | CAR35117.1 | SEN3538 | STM3716 | rfaY | 21046 | T/C | synonymous | na | 01031, 00540 | LPS: modification of heptose region of core |
3795869 | 141101303 | CAR35120.1 | SEN3541 | STM3719 | rfaB | 21027 | C/A | synonymous | na | 01031, 00540 | LPS: 1,6-D-galactosyltransferase |
3846103 | 141097066 | CAR35164.1 | SEN3587 | STM3765 | yicL | 21046 | G/A | synonymous | na | - | permease |
3867458 | 153929211 | CAR35184.1 | SEN3608 | STM3792 | none | 21027 | G/A | AA arg to cys 254 | bp+ to np | - | putative L-fucose permease |
3880104 | 153929213 | CAR35195.1 | SEN3619 | STM3802 | dsdA | 21027 | Del3880104-0113 | DEL 10bp | Del | 00260 | D-serine deaminase; dehydratase |
3942784 | 142459122 | na | SEN3676-3677 | STM3862-3683 | glmU-SEN3677 | 21027 | G/A | intergenic | na | - | - |
3970231 | 142459123 | na | SEN3703-r011 | STM3888-3889 | yieP-rrsC | 21027 | T/A | intergenic | na | - | - |
3972440 | 142460372 | na | SEN_r012 | STM3891 | rrlC | 21027 | A/G | rrn | na | 03010 | 23S rrn subunit |
3973593 | 159695620 | na | SEN_r012 | STM3891 | rrlC | 21046 | C/T | rrn | na | 03010 | 23S rrn subunit |
3973601 | 159695621 | na | SEN_r012 | STM3892 | rrlC | 21046 | GCCT/TGTC | rrn | na | 03010 | 23S rrn subunit; bp 3973601appears to discriminate between Sanger ref PT4 (g) and CA template PT4 (c); does not alter restriction site used in PFGE |
3973611 | 159695622 | na | SEN_r012 | STM3891 | rrlC | 21046 | GT/CA | rrn | na | 03010 | 23S rrn subunit; alters PFGE restriction site |
3995713 | 142459103 | na | SEN3721-3722 | STM3915-3916 | trxA-rho | 21046 | A/T | intergenic | na | - | - |
4004604 | 141101305 | CAR35305.1 | SEN3730 | STM3925 | wecE | 21027 | C/T | synonymous | na | - | transaminase:DegT_DnrJ_EryC1 |
4018775 | 141097067 | CAR35315.1 | SEN3740 | STM3939 | cyaA | 21046 | C/T | synonymous | na | 00230 | adenylate cyclase |
4018861 | 153929215 | CAR35315.1 | SEN3740 | STM3939 | cyaA | 21027 | A/G | AA asn to ser 702 | np to np | 00230 | adenylate cyclase |
4027489 | 141101307 | CAR35325.1 | SEN3749 | STM3952 | corA | 21027 | C/T | synonymous | na | - | magnesium/nickel/cobalt transporter |
4066450 | 142459124 | na | SEN_r014-t068 | STM3988-3989 | rrsA-ileT | 21027 | CT/GC | intergenic | na | - | - |
4066454 | 142459125 | na | SEN_r014-t068 | STM3988-3989 | rrsA-ileT | 21027 | T/A | intergenic | na | - | - |
4066460 | 142459126 | na | SEN_r014-t068 | STM3988-3989 | rrsA-ileT | 21027 | A/C | intergenic | na | - | - |
4066568 | 159695623 | na | SEN_t068 | STM3989 | ileT | 21046 | G/A | rrn | na | - | tRNA |
4068166 | 159695624 | na | SEN_r015 | STM3991 | rrlA | 21046 | C/T | rrn | na | 03010 | 23S rrn subunit; sequence is reverse complement to what is in cyaA manuscript |
4068174 | 159695625 | na | SEN_r015 | STM3991 | rrlA | 21046 | GCCT/TGTC | rrn | na | 03010 | 23S rrn subunit; sequence is reverse complement to what is in cyaA manuscript |
4068184 | 159695626 | na | SEN_r015 | STM3991 | rrlA | 21046 | GT/CA | rrn | na | 03010 | 23S rrn subunit; sequence is reverse complement to what is in cyaA manuscript |
4133134 | 141101309 | na | SEN3843 | STM4052 | pseudo | 21027 | T/G | synonymous | na | - | pseudogene in Enteritidis; missing 5' 28 aa of Typhimurium gene. |
4146218 | 153929842 | CAR35430.1 | SEN3857 | STM4067 | none | 21046 | A/G | AA thr to ala 42 | np to nn | - | putative ADP-ribosylglycohydrolase |
4152430 | 141101311 | CAR35437.1 | SEN3864 | STM4074 | ego | 21027 | A/G | synonymous | na | 02010 | ABC-type sugar transport system |
4189388 | 153929844 | CAR35472.1 | SEN3898 | SeD_A4510 | mocR subfamily | 21046 | Del4189388-9479 | DEL 92bp | Del | - | transcription: gntR: flanked by an 11bp repeat GCGGCAAAATG |
4223137 | 142459104 | na | SEN3925-3926 | STM4131-4132 | murI-SEN_r017 | 21046 | G/A | intergenic | na | - | - |
4268912 | 159695627 | na | SEN_r021 | STM4179 | rrlE | 21046 | T/C | rrn | na | - | - |
4269421 | 142460373 | na | bf | STM4179 | rrlE | 21027 | TT/CC | rrn | na | 03010 | 23S rrn subunit |
4274880 | 153929846 | CAR35534.1 | SEN3965 | STM4183 | aceB | 21046 | G/C | AA val to leu 345 | nn to nn | 00630, 00620 | malate synthase A |
4296365 | 141097070 | CAR35553.1 | SEN3986 | STM4220 | lysC | 21046 | T/C | synonymous | na | 00260, 00300 | lysine sensitive aspartokinase III |
4331502 | 141097072 | CAR35587.1 | SEN4023 | STM4254 | uvrA | 21046 | C/T | synonymous | na | - | DNA excision repair enzyme |
4351538 | 141101313 | CAR35593.1 | SEN4030 | STM4261 | siiE | 21027 | T/C | synonymous | na | - | Fusion protein; sulfite oxidase (SO); molybdopterin binding |
4365146 | 141097074 | CAR35601.1 | SEN4039 | STM4269 | yjcE | 21046 | C/T | synonymous | na | - | Sodium/hydrogen exchanger:pH maintenance |
4368126 | 153929217 | CAR35604.1 | SEN4042 | STM4272 | lrgB | 21027 | Del4368126-8137 | DEL 12bp (in-frame) | Del | - | LrgB-like:murein:penicillin:seritonin |
4402066 | 153929219 | CAR35632.1 | SEN4071 | STM4299 | melB | 21027 | G/A | AA gly to asp 331 | nn to ap | - | GPH family melibiose permease II |
4418467 | 141101315 | CAR35646.1 | SEN4086 | STM4315 | hilD | 21027 | C/T | synonymous | na | - | arabinose operon control protein:DNA binding |
4418965 | 153929221 | CAR35647.1 | SEN4087 | STM4316 | none | 21027 | C/A | AA val to phe 34 | nn to nn | - | cytoplasmic protein |
4420944 | 141101317 | CAR35650.1 | SEN4090 | STM4319 | phoN | 21027 | A/G | synonymous | na | 00740, 02020, 00361 | non-specific acid phosphatase |
4472579 | 153929223 | CAR35699.1 CAR35700.1 | SEN4139 & SEN4140 | STM4373 and STM4374 | yjfK and yjfL | 21027 | Del4472579-2589 | DEL 11bp (fusion) | Del | - | TER codon and sequence 3' of yjfK removed; ORF reads through to end of yjfL |
4503965 | 142459105 | na | SEN4177-4178 | STM4408-4409 | msrA-ytfM | 21046 | G/T | intergenic | na | - | - |
4517227 | 153929225 | CAR35746.1 | SEN4187 | STM4438 | pmbA | 21027 | C/T | AA thr to met 103 | np to nn | - | protease involved in proteolytic processing of the antibiotic Microcin B17 and in sensitivity to the DNA gyrase inhibitor LetD |
4532612 | 153929848 | CAR35763.1 | SEN4204A | SeD_A4835 | treB | 21046 | A/G | AA leu to pro 235 | nn to nn | - | trehalose-specific IIBC part of PTS (pseudogene in Typhimurium, read through in Enteritidis) |
4558130 | 153929227 | CAR35786.1 | SEN4232 | STM4479 | yjgP | 21027 | T/C | AA phe to leu 227 | nn to nn | - | permease |
4565438 | 153929229 | CAR35793.1 | SEN4239 | STM4486 | yjgB | 21027 | C/T | AA gly to ser 154 | nn to np | - | alcohol dehydrogenase |
4574262 | 153929231 | CAR35805.1 | SEN4250 | SeD_A4882* | sefD | 21027 | Del A/- | DEL 1bp | Del | - | *S. Enteritidis fimbrial protein (pseudogene in most Salmonella serotypes, with the exception of Dublin, but it is not a named protein in Dublin; sefD of Dublin contains SeC_A4882) |
4579004 | 141097075 | na | SEN4256 | SeD_A4893 | pseudo | 21046 | C/T | AA TER at gln 25 | np to TER | - | Dublin transposase family gene ORF included within SEN4256, but this ORF is a pseudogene already in SE. |
4592540 | 153929233 | CAR35824.1 | SEN4271 | STM4510 | none | 21027 | C/T | AA thr to ile 215 | np to nn | - | aspartate racemase |
4596231 | 142459127 | na | SEN4275-4276 | STM4514-4515 | yjiH-yjiJ | 21027 | A/G | intergenic | na | - | - |
4622524 | 153929235 | CAR35850.1 | SEN4298 | STM4533 | tsr | 21027 | A/G | AA met to val 82 | nn to nn | 02030, 02020 | serine sensor receptor |
4642252 | 153929850 | CAR35868.1 | SEN4316 | STM4551 | none | 21046 | Del4642252-2466 | DEL 215 bp (5' 135 bp & 1st 80 bp) | Del | - | turnover of cyclic diguanosine monophosphate |
4666711 | 153929237 | CAR35890.1 | SEN4337 | STM4581 | yjjK | 21027 | T/C | AA asn to ser 99 | np to ap | - | ABC transporter; see chvD (Agrobacterium tumefaciens) |
a
Shading indicates SNPs that differentiate PT13a 21027, which is positive for biofilm formation but negative for egg contamination (BF-EC+), from the reference PT4
genome (BF+EC+) and PT13a 21046 (BF-EC+). Conversely, SNPs that differentiate PT13a from the reference strain PT4 strain and PT13a 21027 are unshaded.
bThe genomic database for the reference strain Salmonella enterica subsp. enterica serovar str. P125109 is available at
http://www.sanger.ac.uk/Projects/Salmonella/ and has been submitted under
EMBL Accession Number AM933172 and is present in
NCBI RefSeq Accession Number NC_011294.
cDates of analysis span Jan 2006 - July 2009. Location of SNPs may change pending confirmatory sequencing and corrections to the deposited sequence.
dSNP ID are NCBI's Entrez dbSNP unique identifiers.
eAbbreviations and symbols: STM, S. Typhimurium LT2; PSLT, large virulence plasmid of S. Typhimurium LT2; STY, S. Typhi CT18; t, S. Typhi Ty2;
SEN, S. Enteritidis PT4; SeD, S. Dublin;
SeAg, S. Agona; del, deletion; tbd, to be determined; TER, terminating codon; nn, neutral non-polar; np, neutral polar; ap, acidic polar; bp, basic polar; np-,
neutral slightly polar.