Staphylococcus saccharolyticus S1 is an anaerobe, Gram-positive, coccus-shaped bacterium that was isolated from plasma.
Gram-positive coccus-shaped anaerobe genome sequence 16S sequence Bacteria| @ref 20215 |
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| Domain Bacteria |
| Phylum Bacillota |
| Class Bacilli |
| Order Caryophanales |
| Family Staphylococcaceae |
| Genus Staphylococcus |
| Species Staphylococcus saccharolyticus |
| Full scientific name Staphylococcus saccharolyticus (Foubert and Douglas 1948) Kilpper-Bälz and Schleifer 1984 |
| Synonyms (2) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 8621 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | Medium recipe at MediaDive | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base | ||
| 8621 | PYG MEDIUM (MODIFIED) (DSMZ Medium 104) | Medium recipe at MediaDive | Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water | ||
| 34237 | MEDIUM 3 - Columbia agar | Columbia agar (39.000 g);distilled water (1000.000 ml) | |||
| 122337 | CIP Medium 3 | Medium recipe at CIP |
| @ref | Murein short key | Type | |
|---|---|---|---|
| 8621 | A11.03 | A3alpha L-Lys-Gly2-4-L-Ser1-2-Gly |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68371 | 27613 ChEBI | amygdalin | - | builds acid from | from API 50CH acid |
| 68375 | 22599 ChEBI | arabinose | - | fermentation | from API ID32STA |
| 68371 | 18305 ChEBI | arbutin | - | builds acid from | from API 50CH acid |
| 68375 | 17057 ChEBI | cellobiose | - | fermentation | from API ID32STA |
| 68371 | 17057 ChEBI | cellobiose | - | builds acid from | from API 50CH acid |
| 68371 | 17108 ChEBI | D-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18333 ChEBI | D-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 15824 ChEBI | D-fructose | + | builds acid from | from API 50CH acid |
| 68371 | 28847 ChEBI | D-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 12936 ChEBI | D-galactose | - | builds acid from | from API 50CH acid |
| 68371 | 17634 ChEBI | D-glucose | + | builds acid from | from API 50CH acid |
| 68371 | 62318 ChEBI | D-lyxose | - | builds acid from | from API 50CH acid |
| 68375 | 16899 ChEBI | D-mannitol | - | fermentation | from API ID32STA |
| 68371 | 16024 ChEBI | D-mannose | + | builds acid from | from API 50CH acid |
| 68375 | 16988 ChEBI | D-ribose | - | fermentation | from API ID32STA |
| 68371 | 16988 ChEBI | D-ribose | - | builds acid from | from API 50CH acid |
| 68371 | 17924 ChEBI | D-sorbitol | - | builds acid from | from API 50CH acid |
| 68371 | 16443 ChEBI | D-tagatose | - | builds acid from | from API 50CH acid |
| 68371 | 65327 ChEBI | D-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17113 ChEBI | erythritol | - | builds acid from | from API 50CH acid |
| 68375 | 4853 ChEBI | esculin | - | hydrolysis | from API ID32STA |
| 68371 | 4853 ChEBI | esculin | - | builds acid from | from API 50CH acid |
| 68371 | 16813 ChEBI | galactitol | - | builds acid from | from API 50CH acid |
| 68371 | 28066 ChEBI | gentiobiose | - | builds acid from | from API 50CH acid |
| 68371 | 24265 ChEBI | gluconate | - | builds acid from | from API 50CH acid |
| 68371 | 17754 ChEBI | glycerol | + | builds acid from | from API 50CH acid |
| 68371 | 28087 ChEBI | glycogen | - | builds acid from | from API 50CH acid |
| 68371 | 15443 ChEBI | inulin | - | builds acid from | from API 50CH acid |
| 68371 | 30849 ChEBI | L-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18403 ChEBI | L-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 18287 ChEBI | L-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 62345 ChEBI | L-rhamnose | - | builds acid from | from API 50CH acid |
| 68371 | 17266 ChEBI | L-sorbose | - | builds acid from | from API 50CH acid |
| 68371 | 65328 ChEBI | L-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17716 ChEBI | lactose | - | builds acid from | from API 50CH acid |
| 68371 | 17306 ChEBI | maltose | - | builds acid from | from API 50CH acid |
| 68371 | 6731 ChEBI | melezitose | - | builds acid from | from API 50CH acid |
| 68371 | 28053 ChEBI | melibiose | - | builds acid from | from API 50CH acid |
| 68371 | 320061 ChEBI | methyl alpha-D-glucopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 43943 ChEBI | methyl alpha-D-mannoside | - | builds acid from | from API 50CH acid |
| 68371 | 74863 ChEBI | methyl beta-D-xylopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 17268 ChEBI | myo-inositol | - | builds acid from | from API 50CH acid |
| 68371 | 59640 ChEBI | N-acetylglucosamine | - | builds acid from | from API 50CH acid |
| 122337 | 17632 ChEBI | nitrate | + | reduction | |
| 122337 | 16301 ChEBI | nitrite | - | reduction | |
| 68375 | 18257 ChEBI | ornithine | - | degradation | from API ID32STA |
| 68371 | 0 ChEBI | Potassium 2-ketogluconate | - | builds acid from | from API 50CH acid |
| 68371 | 0 ChEBI | Potassium 5-ketogluconate | - | builds acid from | from API 50CH acid |
| 68375 | 16634 ChEBI | raffinose | - | fermentation | from API ID32STA |
| 68371 | 16634 ChEBI | raffinose | - | builds acid from | from API 50CH acid |
| 68371 | 15963 ChEBI | ribitol | - | builds acid from | from API 50CH acid |
| 68371 | 17814 ChEBI | salicin | - | builds acid from | from API 50CH acid |
| 122337 | 132112 ChEBI | sodium thiosulfate | - | builds gas from | |
| 68371 | 28017 ChEBI | starch | - | builds acid from | from API 50CH acid |
| 68375 | 27082 ChEBI | trehalose | - | fermentation | from API ID32STA |
| 68371 | 27082 ChEBI | trehalose | - | builds acid from | from API 50CH acid |
| 122337 | 35020 ChEBI | tributyrin | - | hydrolysis | |
| 68371 | 32528 ChEBI | turanose | - | builds acid from | from API 50CH acid |
| 68375 | 16199 ChEBI | urea | + | hydrolysis | from API ID32STA |
| 68371 | 17151 ChEBI | xylitol | - | builds acid from | from API 50CH acid |
| @ref | Metabolite | Is sensitive | Is resistant | |
|---|---|---|---|---|
| 122337 | 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate) |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 122337 | alcohol dehydrogenase | + | 1.1.1.1 | |
| 122337 | beta-galactosidase | + | 3.2.1.23 | |
| 68375 | beta-galactosidase | - | 3.2.1.23 | from API ID32STA |
| 68375 | beta-glucosidase | - | 3.2.1.21 | from API ID32STA |
| 68375 | beta-glucuronidase | - | 3.2.1.31 | from API ID32STA |
| 122337 | catalase | + | 1.11.1.6 | |
| 122337 | DNase | - | ||
| 122337 | gelatinase | - | ||
| 68375 | L-arginine arylamidase | - | from API ID32STA | |
| 122337 | lecithinase | - | ||
| 122337 | lysine decarboxylase | - | 4.1.1.18 | |
| 122337 | ornithine decarboxylase | - | 4.1.1.17 | |
| 68375 | ornithine decarboxylase | - | 4.1.1.17 | from API ID32STA |
| 122337 | oxidase | - | ||
| 68375 | pyrrolidonyl arylamidase | - | 3.4.19.3 | from API ID32STA |
| 122337 | urease | + | 3.5.1.5 | |
| 68375 | urease | + | 3.5.1.5 | from API ID32STA |
| @ref | ControlQ | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 122337 | not determinedn.d. | + | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| @ref | URE | ADH (Arg) | ODC | ESC | GLU | FRU | MNE | MAL | LAC | TRE | MAN | RAF | RIB | CEL | Reduction of nitrateNIT | Acetoin production (Voges Proskauer test)VP | beta GAL | L-arginine arylamidaseArgA | PAL | Pyrrolidonyl arylamidasePyrA | NOVO | SAC | NAG | TUR | ARA | beta GUR | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 8621 | + | + | - | - | + | + | + | - | - | - | - | - | - | - | + | + | - | - | - | - | + | - | + | - | - | - | |
| 8621 | + | - | - | - | + | + | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | |
| 8621 | + | - | - | - | + | + | + | + | + | - | - | - | - | - | + | + | - | - | + | - | - | + | + | + | - | - | |
| 8621 | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | |
| 8621 | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - |
Global distribution of 16S sequence NR_113405 (>99% sequence identity) for Staphylococcus from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 124043 | ASM1612771v1 assembly for Staphylococcus saccharolyticus FDAARGOS_1074 | complete | 33028 | 95.03 | ||||
| 67770 | 49699_H02 assembly for Staphylococcus saccharolyticus NCTC11807 | contig | 33028 | 69.64 | ||||
| 66792 | ASM396888v1 assembly for Staphylococcus saccharolyticus NCTC 11807 | scaffold | 33028 | 50.89 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Staphylococcus saccharolyticus 16S ribosomal RNA (16S rRNA) gene | L37602 | 1527 | 33028 | ||
| 20218 | Staphylococcus saccharolyticus ATCC 14953 16S rRNA gene, partial sequence | U02922 | 398 | 33028 | ||
| 20218 | Staphylococcus saccharolyticus strain DSM 20359 16S ribosomal RNA gene, partial sequence | AY688087 | 464 | 33028 | ||
| 20218 | Staphylococcus saccharolyticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 1768 | AB646616 | 1512 | 33028 | ||
| 8621 | Staphylococcus saccharolyticus strain JCM 1768 16S ribosomal RNA, partial sequence | NR_113405 | 1512 | 33028 | ||
| 124043 | Staphylococcus saccharolyticus strain DSM 20359 16S ribosomal RNA gene, partial sequence. | MF678959 | 1283 | 33028 | ||
| 124043 | Staphylococcus saccharolyticus strain DSM 20359 16S ribosomal RNA gene, partial sequence 16S-23S ribosomal RNA intergenic spacer, complete sequence and 23S ribosomal RNA gene, partial sequence. | MF678903 | 4420 | 33028 | ||
| 124043 | Staphylococcus saccharolyticus strain JCM 1768 16S ribosomal RNA gene, partial sequence. | PV612272 | 712 | 33028 | ||
| 124043 | Staphylococcus saccharolyticus strain JCM 1768 16S ribosomal RNA gene, partial sequence. | PP858676 | 722 | 33028 |
| 8621 | GC-content (mol%)34.0 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | facultative anaerobe | 92.30 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 64.16 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 42.70 | no |
| 125439 | spore_formation | BacteriaNetⓘ | no | 71.38 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 87.68 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 99.89 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 75.48 | no |
| 125438 | aerobic | aerobicⓘ | no | 52.01 | yes |
| 125438 | thermophilic | thermophileⓘ | no | 97.09 | yes |
| 125438 | flagellated | motile2+ⓘ | no | 85.53 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Genetics | Staphylococcus saccharolyticus Isolated From Blood Cultures and Prosthetic Joint Infections Exhibits Excessive Genome Decay. | Bruggemann H, Poehlein A, Brzuszkiewicz E, Scavenius C, Enghild JJ, Al-Zeer MA, Brinkmann V, Jensen A, Soderquist B. | Front Microbiol | 10.3389/fmicb.2019.00478 | 2019 | |
| Staphylococcus saccharolyticus: An Overlooked Human Skin Colonizer. | Ahle CM, Stodkilde K, Afshar M, Poehlein A, Ogilvie LA, Soderquist B, Hupeden J, Bruggemann H. | Microorganisms | 10.3390/microorganisms8081105 | 2020 | ||
| Pathogenicity | In vitro antimicrobial activity of razupenem (SMP-601, PTZ601) against anaerobic bacteria. | Tran CM, Tanaka K, Yamagishi Y, Goto T, Mikamo H, Watanabe K. | Antimicrob Agents Chemother | 10.1128/aac.01038-10 | 2011 | |
| Phylogeny | A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community. | Joseph S, Aduse-Opoku J, Hashim A, Hanski E, Streich R, Knowles SCL, Pedersen AB, Wade WG, Curtis MA. | mSystems | 10.1128/msystems.01222-20 | 2021 | |
| Pathogenicity | In vitro activity of tomopenem (CS-023/RO4908463) against anaerobic bacteria. | Tanaka K, Mikamo H, Nakao K, Ichiishi T, Goto T, Yamagishi Y, Watanabe K. | Antimicrob Agents Chemother | 10.1128/aac.00595-08 | 2009 | |
| Pathogenicity | Real-time PCR assay for detection of fluoroquinolone resistance associated with grlA mutations in Staphylococcus aureus. | Lapierre P, Huletsky A, Fortin V, Picard FJ, Roy PH, Ouellette M, Bergeron MG. | J Clin Microbiol | 10.1128/jcm.41.7.3246-3251.2003 | 2003 | |
| Pathogenicity | In vitro antianaerobic activity of DX-619, a new des-fluoro(6) quinolone. | Tanaka K, Mikamo H, Nakao K, Watanabe K. | Antimicrob Agents Chemother | 10.1128/aac.00639-06 | 2006 | |
| Phylogeny | Use of PCR and sodium dodecyl sulfate-polyacrylamide gel electrophoresis techniques for differentiation of Prevotella intermedia sensu stricto and Prevotella nigrescens. | Premaraj T, Kato N, Fukui K, Kato H, Watanabe K. | J Clin Microbiol | 10.1128/jcm.37.4.1057-1061.1999 | 1999 | |
| Enzymology | Diversity of anaerobic microbes in spacecraft assembly clean rooms. | Probst A, Vaishampayan P, Osman S, Moissl-Eichinger C, Andersen GL, Venkateswaran K. | Appl Environ Microbiol | 10.1128/aem.02167-09 | 2010 | |
| Phylogeny | Rapid and accurate species-level identification of coagulase-negative staphylococci by using the sodA gene as a target. | Poyart C, Quesne G, Boumaila C, Trieu-Cuot P. | J Clin Microbiol | 10.1128/jcm.39.12.4296-4301.2001 | 2001 | |
| Enzymology | Rapid identification of obligately anaerobic gram-positive cocci using high-performance liquid chromatography. | Harpold DJ, Wasilauskas BL. | J Clin Microbiol | 10.1128/jcm.25.6.996-1001.1987 | 1987 | |
| One-step loop-mediated isothermal amplification system for Mycobacterium marinum detection. | Okumura K, Miyamoto Y, Mitarai S, Ato M. | Microbiol Spectr | 10.1128/spectrum.02906-24 | 2025 | ||
| Effect of Chronic Consumption of Sweeteners on Microbiota and Immunity in the Small Intestine of Young Mice. | Martinez-Carrillo BE, Rosales-Gomez CA, Ramirez-Duran N, Resendiz-Albor AA, Escoto-Herrera JA, Mondragon-Velasquez T, Valdes-Ramos R, Castillo-Cardiel A. | Int J Food Sci | 10.1155/2019/9619020 | 2019 | ||
| Genetics | Staphylococcus saccharolyticus Associated with Prosthetic Joint Infections: Clinical Features and Genomic Characteristics. | Soderquist B, Afshar M, Poehlein A, Bruggemann H, Bruggemann H. | Pathogens | 10.3390/pathogens10040397 | 2021 | |
| Draft Genome Sequences of 64 Type Strains of 50 Species and 25 Subspecies of the Genus Staphylococcus Rosenbach 1884. | Cole K, Foster D, Russell JE, Golubchik T, Llewelyn M, Wilson DJ, Crook D, Paul J, Modernising Medical Microbiology Consortium. | Microbiol Resour Announc | 10.1128/mra.00062-19 | 2019 | ||
| Cultivation | Stimulation of the growth of cutaneous strains of Peptococcus saccharolyticus by iron, haematin and blood. | Strom MS, Douglas HC, Evans CA | J Gen Microbiol | 10.1099/00221287-128-2-387 | 1982 |
| #8621 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20359 |
| #20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 ) |
| #34237 | ; Curators of the CIP; |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #67770 | Japan Collection of Microorganism (JCM) ; Curators of the JCM; |
| #68371 | Automatically annotated from API 50CH acid . |
| #68375 | Automatically annotated from API ID32STA . |
| #69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta . |
| #122337 | Collection of Institut Pasteur ; Curators of the CIP; CIP 103275 |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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