2. PATHOGENS
Basic Information
Accession number
GCA_000168395.1
Release date
2008-08-28
Organism
Listeria monocytogenes FSL J1-194
Species name
Listeria monocytogenes
Assembly level
Contig
Assembly name
ASM16839v1
Assembly submitter
Broad Institute
Assembly Type
haploid
Genome size
3.0 Mb
GC percent
38.0
Contig count
30
Collection date
-
Sample location
-
Host
-
Isolation source
-
Isolate type
-
Strain
FSL J1-194
Isolate
-
ARG List
ORF_ID Pass_Bitscore Best_Hit_Bitscore Best_Hit_ARO Best_Identities ARO Model_type SNPs_in_Best_Hit_ARO Other_SNPs Drug class Resistance mechanism AMR gene family Description
AARJ02000011.1_32 # 29737 # 30561 50.0 109.383 vanY gene in vanM cluster 43.33 ARO:3002961 protein homolog model glycopeptide antibiotic antibiotic target alteration vanY; glycopeptide resistance gene cluster Also known as vanYM, is a vanY variant found in the vanM gene cluster.
AARJ02000010.1_71 # 79796 # 80197 200.0 276.174 FosX 100.0 ARO:3000198 protein homolog model phosphonic acid antibiotic antibiotic inactivation fosfomycin thiol transferase FosX is an enzyme used to confer resistance to fosfomycin. It's dependent on the cofactor, manganese (II), and uses water to generate a vicinal diol.
AARJ02000010.1_78 # 84406 # 87003 1650.0 1744.17 Listeria monocytogenes mprF 99.42 ARO:3003770 protein homolog model peptide antibiotic antibiotic target alteration defensin resistant mprF MprF is a integral membrane protein that modifies the negatively-charged phosphatidylglycerol on the membrane surface. This confers resistance to cationic peptides that disrupt the cell membrane, including defensins.
AARJ02000003.1_114 # 120779 # 122179 900.0 904.434 norB 99.36 ARO:3000421 protein homolog model fluoroquinolone antibiotic antibiotic efflux major facilitator superfamily (MFS) antibiotic efflux pump NorB is a multidrug efflux pump in Staphylococcus aureus that confers resistance to fluoroquinolones and other structurally unrelated antibiotics like tetracycline. It shares 30% similarity with NorB, and is a structural homolog of Blt of Bacillus subtilis. It is regulated by mgrA, also known as NorR.
AARJ02000001.1_304 # 283771 # 285342 900.0 1053.12 lin 97.9 ARO:3004651 protein homolog model lincosamide antibiotic antibiotic inactivation lincosamide nucleotidyltransferase (LNU) Listeria monocytogenes EGD-e lin gene for lincomycin resistance ABC-F type ribosomal protection protein, complete CDS.
AARJ02000001.1_339 # 316116 # 317222 175.0 202.601 vanT gene in vanG cluster 34.6 ARO:3002972 protein homolog model glycopeptide antibiotic antibiotic target alteration glycopeptide resistance gene cluster; vanT Also known as vanTG, is a vanT variant found in the vanG gene cluster.
VF List
Query_id %Identity E-value Related genes VF ID Virulence factor VFcategory VFcategoryID Characteristics Description Strain
AARJ02000029.1_1 98.857 1.18E-118 ami VF0071 Ami Adherence VFC0001 (ami) autolysin amidase, adhesin [Ami (VF0071) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000017.1_15 95.946 0.0 inlC VF0438 InlC Immune modulation VFC0258 (inlC) internalin C [InlC (VF0438) - Immune modulation (VFC0258)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000015.1_34 97.546 1.12E-107 ami VF0071 Ami Adherence VFC0001 (ami) autolysin amidase, adhesin [Ami (VF0071) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000012.1_17 72.624 0.0 groEL VF0594 GroEL Adherence VFC0001 GroEL of numerous bacteria, such as L. pneumophila, H. pylori, H. ducreyi, M. avium, S. typhimurium, A. actinomycetemcomitans and B. burgdorferi, has been shown to be involved in adhesion or invasion of various target cells or tissues. (groEL) chaperonin GroEL [GroEL (VF0594) - Adherence (VFC0001)] [Clostridium difficile 630] Clostridium difficile
AARJ02000012.1_18 98.462 0.0 bsh VF0350 BSH Stress survival VFC0282 The bsh gene is positively regulated by the central listerial virulence regulator PrfA in vivo (bsh) bile salt hydrolase [BSH (VF0350) - Stress survival (VFC0282)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000011.1_28 60.448 1.89E-54 msrA/B(pilB VF0456 MsrAB Stress survival VFC0282 Methionine sulfoxide reductases (Msr) are enzymes that catalyze the reduction of free and protein-bound methionine sulfoxide (MetSO) back to Met. Two structurally unrelated classes of Msrs have been described so far. MsrAs are stereo specific toward the S isomer on the sulfur of the sulfoxide function, whereas MsrBs are specific toward the R isomer (msrA/B(pilB)) trifunctional thioredoxin/methionine sulfoxide reductase A/B protein [MsrAB (VF0456) - Stress survival (VFC0282)] [Neisseria meningitidis MC58] Neisseria meningitidis
AARJ02000011.1_40 98.387 0.0 lpeA VF0346 LpeA Invasion VFC0083 Membrane protein homologous to a Streptococcus pneumoniae adherence factor PsaA, but LpeA is not involved in adhesion; the only listerial lipoprotein known to date to be involved in invasion (lpeA) lipoprotein promoting cell invasion [LpeA (VF0346) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000011.1_43 99.351 8.24E-110 lspA VF0351 Lsp Post-translational modification VFC0315 (lspA) signal peptidase II [Lsp (VF0351) - Post-translational modification (VFC0315)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000011.1_58 98.421 0.0 fbpA VF0349 FbpA Adherence VFC0001 A 570 aa polypeptide with strong homologies to the fibronectin binding proteins PavA of S. pneumoniae, Fbp54 of S. pyogenes and FbpA of S. gordonii; a substrate for the SecA2 pathway (fbpA) fibronectin-binding protein [FbpA (VF0349) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000011.1_81 63.514 2.93E-25 acpXL VF0367 LPS Immune modulation VFC0258 Brucella possesses a non-classical LPS as compared with the so-called classical LPS from enterobacteria such as Escherichia coli. B. abortus lipid A possesses a diaminoglucose backbone (rather than glucosamine), and acyl groups are longer (C28 rather than C12 and C16) and are only linked to the core by amide bounds (rather than ester and amide bonds).; In contrast to enterobacterial LPSs, Brucella LPS is several-hundred-times less active and toxic than E. coli LPS.; this is an evolutionary adaptation to an intracellular lifestyle, low endotoxic activity is shared by other intracellular pathogens such as Bartonella and Legionella. (acpXL) acyl carrier protein [LPS (VF0367) - Immune modulation (VFC0258)] [Brucella melitensis bv. 1 str. 16M] Brucella melitensis
AARJ02000009.1_19 95.848 0.0 plcB VF0067 PlcB Exotoxin VFC0235 Secreted as an inactive propeptide, activated on cleavage by the Mpl; active between pH 5.0 and 8.0; also called lecithinase, zinc-dependent enzyme (plcB) phospholipase C [PlcB (VF0067) - Exotoxin (VFC0235)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000009.1_20 85.759 0.0 actA VF0066 ActA Motility VFC0204 (actA) actin-assembly inducing protein precursor [ActA (VF0066) - Motility (VFC0204)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000009.1_21 95.882 0.0 mpl VF0065 Mpl Exoenzyme VFC0251 (mpl) Zinc metalloproteinase precursor [Mpl (VF0065) - Exoenzyme (VFC0251)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000009.1_22 99.433 0.0 hly VF0064 LLO Exotoxin VFC0235 Active at low optimum pH (5.5) and the narrow pH range, so although Listeriolysin O (LLO) is produced by bacteria in both the cytosol (pH 7.0) and the vacuole, LLO activity is restricted to the vacuole compartment; belongs to the family of cholesterol-dependent, pore-forming toxins(CDTX)(such as streptolysin O (SLO), pneumolysin, perfringolysin) or cholesterol-binding 'thiol-activated' family, means inhibition by oxidation or thiol-reacting compounds and reactivation by thiol-reducing agents, LLO and ivanolysin (the homolog of LLO in L.ivanovii) are the only members produced by an intracellular bacteria (hly) listeriolysin O precursor [LLO (VF0064) - Exotoxin (VFC0235)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000009.1_23 97.792 0.0 plcA VF0063 PlcA Exotoxin VFC0235 33-kDa, highly specific for PI, with a pH optimum between 5.5 and 6.5; able to hydrolyze glycosyl PI(GPI)-anchored eukaryotic membrane proteins (plcA) phosphatidylinositol-specific phospholipase c [PlcA (VF0063) - Exotoxin (VFC0235)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000009.1_24 100.0 2.75E-178 prfA VF0062 PrfA Regulation VFC0301 Belongs to CAP (for catabolite gene activator protein) /FNR family; dimeric protein that binds to its DNA target sequences in dimeric form; natural isolates have been shown to carry a mutation changing Gly145 to Ser, the substitution renders PrfA protein has greater binding affinity for the specific target DNA sequence, also increases the capacity of the PrfA-RNA polymerase complex to initiate transcription (prfA) listeriolysin positive regulatory protein [PrfA (VF0062) - Regulation (VFC0301)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000008.1_20 84.058 7.69E-124 lntA VF0440 LntA Immune modulation VFC0258 (lntA) listeria nuclear targeted protein A [LntA (VF0440) - Immune modulation (VFC0258)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000008.1_24 95.714 0.0 inlB VF0070 InlB Invasion VFC0083 (inlB) Internalin B [InlB (VF0070) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000008.1_25 97.75 0.0 inlA VF0069 InlA Invasion VFC0083 (inlA) Internalin A [InlA (VF0069) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000008.1_40 97.21 0.0 pdgA VF0442 PgdA Immune modulation VFC0258 (pdgA) Peptidoglycan N-deacetylase [PgdA (VF0442) - Immune modulation (VFC0258)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000008.1_45 73.998 0.0 inlF VF0447 InlF Adherence VFC0001 An example of a virulence factor whose function may be only significant under specific host cell conditions or during infection of specific host species (inlF) internalin F [InlF (VF0447) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000007.1_13 83.254 0.0 vip VF0443 Vip Invasion VFC0083 A LPXTG protein anchored to the peptidoglycan by SrtA (vip) surface adhesin Vip [Vip (VF0443) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000007.1_104 99.512 0.0 clpC VF0072 ClpC Stress survival VFC0282 27-kDa stress protein belongs to the Hsp100/Clp family; Regulation of Clp protease expression is mediated by CtsR, the product of the first gene in the ClpC operon (clpC) endopeptidase Clp ATP-binding chain C [ClpC (VF0072) - Stress survival (VFC0282)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000005.1_1 99.65 0.0 ami VF0071 Ami Adherence VFC0001 (ami) autolysin amidase, adhesin [Ami (VF0071) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000005.1_10 100.0 1.83E-102 gtcA VF0607 GtcA Post-translational modification VFC0315 (gtcA) wall teichoic acid glycosylation protein GtcA [GtcA (VF0607) - Post-translational modification (VFC0315)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000005.1_98 94.588 0.0 inlP VF0577 InlP Adherence VFC0001 Of the 25 known members of the L. monocytogenes internalin family, InlC and InlP are two of only four internalin family members that are thought to be secreted in a soluble form rather than anchored to the bacteria cell surface. (inlP) internalin P [InlP (VF0577) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000005.1_100 100.0 2.52E-146 clpP VF0074 ClpP Stress survival VFC0282 21.6 kDa protein belongs to a family of proteases highly conserved in prokaryotes and eukaryotes (clpP) ATP-dependent Clp protease proteolytic subunit [ClpP (VF0074) - Stress survival (VFC0282)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000004.1_162 98.635 0.0 prsA2 VF0449 PrsA2 Post-translational modification VFC0315 A conserved post-translocation chaperone and a peptidyl prolyl cis-trans isomerase (PPIase) contributing to LLO folding and pore-forming ability and to the activity of the broad-range PC-PLC (prsA2) post translocation chaperone PrsA2 [PrsA2 (VF0449) - Post-translational modification (VFC0315)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000004.1_195 92.308 8.03E-134 hbp1/svpA VF0263 SvpA Nutritional/Metabolic factor VFC0272 The transcription of svpA gene is not controlled by PrfA; HupDCG system of haem transport with cooperating proteins Hbp1 (SvpA) and Hbp2 (hbp1/svpA) Haemoglobin binding protein 1 [SvpA (VF0263) - Nutritional/Metabolic factor (VFC0272)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000004.1_196 97.54 0.0 hbp2 VF0263 SvpA Nutritional/Metabolic factor VFC0272 The transcription of svpA gene is not controlled by PrfA; HupDCG system of haem transport with cooperating proteins Hbp1 (SvpA) and Hbp2 (hbp2) hypothetical protein [SvpA (VF0263) - Nutritional/Metabolic factor (VFC0272)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000003.1_111 95.182 0.0 inlJ VF0445 InlJ Adherence VFC0001 (inlJ) internalin J [InlJ (VF0445) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000003.1_282 74.3 0.0 tufA VF0460 EF-Tu Adherence VFC0001 (tufA) elongation factor Tu [EF-Tu (VF0460) - Adherence (VFC0001)] [Francisella tularensis subsp. tularensis SCHU S4] Francisella tularensis
AARJ02000002.1_17 95.925 0.0 lapB VF0446 LapB Adherence VFC0001 A sortase SrtA-anchored LPXTG protein (lapB) Listeria adhesion protein LapB [LapB (VF0446) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000002.1_51 99.654 0.0 lap VF0444 Lap Adherence VFC0001 Originally named surface protein p104, is a 104 kDa adhesion protein, present in every Listeria spp. except L. grayi (lap) Listeria adhesion protein Lap [Lap (VF0444) - Adherence (VFC0001)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000002.1_241 60.357 3.8E-119 prsA2 VF0449 PrsA2 Post-translational modification VFC0315 A conserved post-translocation chaperone and a peptidyl prolyl cis-trans isomerase (PPIase) contributing to LLO folding and pore-forming ability and to the activity of the broad-range PC-PLC (prsA2) post translocation chaperone PrsA2 [PrsA2 (VF0449) - Post-translational modification (VFC0315)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000002.1_310 75.214 0.0 gndA VF0560 Capsule Immune modulation VFC0258 The Klebsiella polysaccharide capsule is produced through a Wzy-dependent process, for which the synthesis and export machinery are encoded in a single 10-30 kb region of the genome known as the K locus.; 78 distinct capsule phenotypes have been recognized by serological typing, but many isolates are serologically non-typable.; capsular serotypes vary substantially in the degree of serum resistance; K1, K2 and K5 are highly serum resistant and are associated with hypervirulent strains that differ from classical K. pneumoniae in that they commonly cause community-acquired disease. (gndA) NADP-dependent phosphogluconate dehydrogenase [Capsule (VF0560) - Immune modulation (VFC0258)] [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Klebsiella pneumoniae
AARJ02000002.1_372 64.103 4.05E-114 cpsA/uppS VF0361 Capsule Immune modulation VFC0258 The biosynthesis of capsular polysaccharides by E. faecalis is encoded by the csp operon, which includes 11 open reading frames (cpsA to cpsK). However, only 7 open reading frames in the cps operon are essential for capsule production (cpsC, cpsD, cpsE, cpsG, cpsI, cpsJ, and cpsK); Previous genetic evidence demonstrated that E. faecalis isolates can be classified in 1 of 3 capsule operon polymorphisms. CPS 1 presents only cpsA and cpsB. CPS 2 presents all 11 genes in the cps operon. CPS 5 presents all genes except for cpsF. Furthermore, CPS 2 and 5 express the capsular polysaccharide, whereas CPS 1 does not. (cpsA/uppS) undecaprenyl diphosphate synthase [Capsule (VF0361) - Immune modulation (VFC0258)] [Enterococcus faecalis V583] Enterococcus faecalis
AARJ02000002.1_395 96.656 0.0 oatA VF0441 OatA Immune modulation VFC0258 (oatA) peptidoglycan O-acetyltransferase [OatA (VF0441) - Immune modulation (VFC0258)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000002.1_396 91.472 0.0 inlK VF0439 InlK Immune modulation VFC0258 (inlK) internalin K [InlK (VF0439) - Immune modulation (VFC0258)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000001.1_146 63.793 3.29E-138 wbtL VF0542 LPS Immune modulation VFC0258 The structure of Francisella spp. lipid A is unique in that it is modified by various carbohydrates that greatly reduce TLR4 activation and allow for immune evasion (wbtL) glucose-1-phosphate thymidylyltransferase [LPS (VF0542) - Immune modulation (VFC0258)] [Francisella tularensis subsp. tularensis SCHU S4] Francisella tularensis
AARJ02000001.1_149 64.505 2.55E-137 hasC VF0244 Hyaluronic acid capsule Immune modulation VFC0258 (hasC) UTP--glucose-1-phosphate uridylyltransferase HasC [Hyaluronic acid capsule (VF0244) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AARJ02000001.1_151 98.776 0.0 aut VF0348 Auto Invasion VFC0083 A surface protein in L. monocytogenes but absent in L. innocua; the aut gene is expressed independently of PrfA (aut) autolysin [Auto (VF0348) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000001.1_227 97.787 0.0 clpE VF0073 ClpE Stress survival VFC0282 Belongs to HSP-100/Clp family (clpE) ATP-dependent protease [ClpE (VF0073) - Stress survival (VFC0282)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000001.1_293 98.187 0.0 lplA1 VF0347 LplA1 Nutritional/Metabolic factor VFC0272 (lplA1) lipoate protein ligase [LplA1 (VF0347) - Nutritional/Metabolic factor (VFC0272)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000001.1_388 98.915 0.0 hpt VF0264 Hpt Nutritional/Metabolic factor VFC0272 "Belongs to the organophosphate:inorganic phosphate antiporter (OPA) family, of the major facilitator superfamily of permease.; Hpt is the first virulence factor to be identified as specifically involved in the replication phase of a facultative intracellular pathogen. It could be termed ""metabolic"" virulence factor and represent an example of the concept in the biology of host-pathogen interaction: adaptation to parasitic life often involves the mimicry of eukaryotic host functions by microbial virulence factors.; Expression of the Hpt permease is tightly cotrolled by the PrfA." (hpt) hexose phosphate transport protein [Hpt (VF0264) - Nutritional/Metabolic factor (VFC0272)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
AARJ02000001.1_638 96.687 0.0 iap/cwhA VF0068 P60 Invasion VFC0083 Encoded by the iap (for invasion-associated protein) gene; not regulated by PrfA (iap/cwhA) P60 extracellular protein, invasion associated protein Iap [P60 (VF0068) - Invasion (VFC0083)] [Listeria monocytogenes EGD-e] Listeria monocytogenes