Paracoccus yeei G 1212 is an aerobe, mesophilic, Gram-negative prokaryote of the family Paracoccaceae.
Gram-negative coccus-shaped aerobe mesophilic genome sequence| @ref 20215 |
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| Domain Bacteria |
| Phylum Pseudomonadota |
| Class Alphaproteobacteria |
| Order Rhodobacterales |
| Family Paracoccaceae |
| Genus Paracoccus |
| Species Paracoccus yeei |
| Full scientific name Paracoccus yeei corrig. Daneshvar et al. 2003 |
| Synonyms (1) |
| @ref | Gram stain | Cell shape | Motility | |
|---|---|---|---|---|
| 37407 | negative | coccus-shaped |
| @ref | Name | Growth | Composition | Medium link | |
|---|---|---|---|---|---|
| 37407 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 37407 | CIP Medium 72 | Medium recipe at CIP | |||
| 37407 | CIP Medium 328 | Medium recipe at CIP |
| @ref | Metabolite | Is sensitive | Is resistant | |
|---|---|---|---|---|
| 37407 | 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate) |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 37407 | alcohol dehydrogenase | - | 1.1.1.1 | |
| 68382 | alkaline phosphatase | + | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | + | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 37407 | amylase | - | ||
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 37407 | beta-galactosidase | - | 3.2.1.23 | |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 37407 | caseinase | + | 3.4.21.50 | |
| 37407 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 37407 | DNase | + | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 37407 | gelatinase | +/- | ||
| 37407 | lecithinase | + | ||
| 68382 | leucine arylamidase | - | 3.4.11.1 | from API zym |
| 37407 | lipase | + | ||
| 68382 | lipase (C 14) | - | from API zym | |
| 37407 | lysine decarboxylase | - | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 37407 | ornithine decarboxylase | - | 4.1.1.17 | |
| 37407 | oxidase | + | ||
| 37407 | protease | + | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 37407 | tryptophan deaminase | - | ||
| 37407 | tween esterase | - | ||
| 37407 | urease | + | 3.5.1.5 | |
| 68382 | valine arylamidase | - | from API zym |
| @ref | pathway | enzyme coverage | annotated reactions | external links | |
|---|---|---|---|---|---|
| 66794 | quinate degradation | 100 | 2 of 2 | ||
| 66794 | reductive acetyl coenzyme A pathway | 100 | 7 of 7 | ||
| 66794 | formaldehyde oxidation | 100 | 3 of 3 | ||
| 66794 | adipate degradation | 100 | 2 of 2 | ||
| 66794 | coenzyme A metabolism | 100 | 4 of 4 | ||
| 66794 | glycogen biosynthesis | 100 | 4 of 4 | ||
| 66794 | CDP-diacylglycerol biosynthesis | 100 | 2 of 2 | ||
| 66794 | UDP-GlcNAc biosynthesis | 100 | 3 of 3 | ||
| 66794 | methane metabolism | 100 | 3 of 3 | ||
| 66794 | molybdenum cofactor biosynthesis | 100 | 9 of 9 | ||
| 66794 | ppGpp biosynthesis | 100 | 4 of 4 | ||
| 66794 | cardiolipin biosynthesis | 100 | 7 of 7 | ||
| 66794 | cis-vaccenate biosynthesis | 100 | 2 of 2 | ||
| 66794 | Entner Doudoroff pathway | 100 | 10 of 10 | ||
| 66794 | enterobactin biosynthesis | 100 | 3 of 3 | ||
| 66794 | allantoin degradation | 100 | 9 of 9 | ||
| 66794 | valine metabolism | 100 | 9 of 9 | ||
| 66794 | methylglyoxal degradation | 100 | 5 of 5 | ||
| 66794 | CMP-KDO biosynthesis | 100 | 4 of 4 | ||
| 66794 | palmitate biosynthesis | 100 | 22 of 22 | ||
| 66794 | C4 and CAM-carbon fixation | 100 | 8 of 8 | ||
| 66794 | ethanol fermentation | 100 | 2 of 2 | ||
| 66794 | propanol degradation | 100 | 7 of 7 | ||
| 66794 | gluconeogenesis | 100 | 8 of 8 | ||
| 66794 | octane oxidation | 100 | 3 of 3 | ||
| 66794 | suberin monomers biosynthesis | 100 | 2 of 2 | ||
| 66794 | folate polyglutamylation | 100 | 1 of 1 | ||
| 66794 | anapleurotic synthesis of oxalacetate | 100 | 1 of 1 | ||
| 66794 | photosynthesis | 100 | 14 of 14 | ||
| 66794 | citric acid cycle | 92.86 | 13 of 14 | ||
| 66794 | glutathione metabolism | 92.86 | 13 of 14 | ||
| 66794 | leucine metabolism | 92.31 | 12 of 13 | ||
| 66794 | phenylalanine metabolism | 92.31 | 12 of 13 | ||
| 66794 | vitamin B12 metabolism | 91.18 | 31 of 34 | ||
| 66794 | proline metabolism | 90.91 | 10 of 11 | ||
| 66794 | propionate fermentation | 90 | 9 of 10 | ||
| 66794 | threonine metabolism | 90 | 9 of 10 | ||
| 66794 | chorismate metabolism | 88.89 | 8 of 9 | ||
| 66794 | lipid A biosynthesis | 88.89 | 8 of 9 | ||
| 66794 | CO2 fixation in Crenarchaeota | 88.89 | 8 of 9 | ||
| 66794 | serine metabolism | 88.89 | 8 of 9 | ||
| 66794 | 4-hydroxymandelate degradation | 88.89 | 8 of 9 | ||
| 66794 | isoleucine metabolism | 87.5 | 7 of 8 | ||
| 66794 | alanine metabolism | 86.21 | 25 of 29 | ||
| 66794 | ubiquinone biosynthesis | 85.71 | 6 of 7 | ||
| 66794 | purine metabolism | 85.11 | 80 of 94 | ||
| 66794 | pyrimidine metabolism | 84.44 | 38 of 45 | ||
| 66794 | glutamate and glutamine metabolism | 82.14 | 23 of 28 | ||
| 66794 | glycogen metabolism | 80 | 4 of 5 | ||
| 66794 | peptidoglycan biosynthesis | 80 | 12 of 15 | ||
| 66794 | hydrogen production | 80 | 4 of 5 | ||
| 66794 | ethylmalonyl-CoA pathway | 80 | 4 of 5 | ||
| 66794 | phenylacetate degradation (aerobic) | 80 | 4 of 5 | ||
| 66794 | cellulose degradation | 80 | 4 of 5 | ||
| 66794 | starch degradation | 80 | 8 of 10 | ||
| 66794 | degradation of pentoses | 78.57 | 22 of 28 | ||
| 66794 | NAD metabolism | 77.78 | 14 of 18 | ||
| 66794 | aspartate and asparagine metabolism | 77.78 | 7 of 9 | ||
| 66794 | vitamin B1 metabolism | 76.92 | 10 of 13 | ||
| 66794 | histidine metabolism | 75.86 | 22 of 29 | ||
| 66794 | butanoate fermentation | 75 | 3 of 4 | ||
| 66794 | ketogluconate metabolism | 75 | 6 of 8 | ||
| 66794 | acetate fermentation | 75 | 3 of 4 | ||
| 66794 | biotin biosynthesis | 75 | 3 of 4 | ||
| 66794 | sulfopterin metabolism | 75 | 3 of 4 | ||
| 66794 | lactate fermentation | 75 | 3 of 4 | ||
| 66794 | flavin biosynthesis | 73.33 | 11 of 15 | ||
| 66794 | vitamin B6 metabolism | 72.73 | 8 of 11 | ||
| 66794 | pentose phosphate pathway | 72.73 | 8 of 11 | ||
| 66794 | oxidative phosphorylation | 72.53 | 66 of 91 | ||
| 66794 | cysteine metabolism | 72.22 | 13 of 18 | ||
| 66794 | degradation of sugar acids | 72 | 18 of 25 | ||
| 66794 | heme metabolism | 71.43 | 10 of 14 | ||
| 66794 | myo-inositol biosynthesis | 70 | 7 of 10 | ||
| 66794 | sulfate reduction | 69.23 | 9 of 13 | ||
| 66794 | urea cycle | 69.23 | 9 of 13 | ||
| 66794 | methionine metabolism | 69.23 | 18 of 26 | ||
| 66794 | lysine metabolism | 69.05 | 29 of 42 | ||
| 66794 | degradation of sugar alcohols | 68.75 | 11 of 16 | ||
| 66794 | non-pathway related | 68.42 | 26 of 38 | ||
| 66794 | tryptophan metabolism | 68.42 | 26 of 38 | ||
| 66794 | cyanate degradation | 66.67 | 2 of 3 | ||
| 66794 | degradation of hexoses | 66.67 | 12 of 18 | ||
| 66794 | glycolate and glyoxylate degradation | 66.67 | 4 of 6 | ||
| 66794 | acetyl CoA biosynthesis | 66.67 | 2 of 3 | ||
| 66794 | acetoin degradation | 66.67 | 2 of 3 | ||
| 66794 | selenocysteine biosynthesis | 66.67 | 4 of 6 | ||
| 66794 | d-mannose degradation | 66.67 | 6 of 9 | ||
| 66794 | L-lactaldehyde degradation | 66.67 | 2 of 3 | ||
| 66794 | glycolysis | 64.71 | 11 of 17 | ||
| 66794 | lipid metabolism | 64.52 | 20 of 31 | ||
| 66794 | tetrahydrofolate metabolism | 64.29 | 9 of 14 | ||
| 66794 | d-xylose degradation | 63.64 | 7 of 11 | ||
| 66794 | arginine metabolism | 62.5 | 15 of 24 | ||
| 66794 | 6-hydroxymethyl-dihydropterin diphosphate biosynthesis | 62.5 | 5 of 8 | ||
| 66794 | isoprenoid biosynthesis | 61.54 | 16 of 26 | ||
| 66794 | vitamin K metabolism | 60 | 3 of 5 | ||
| 66794 | phenol degradation | 60 | 12 of 20 | ||
| 66794 | gallate degradation | 60 | 3 of 5 | ||
| 66794 | 3-phenylpropionate degradation | 60 | 9 of 15 | ||
| 66794 | 3-chlorocatechol degradation | 60 | 3 of 5 | ||
| 66794 | creatinine degradation | 60 | 3 of 5 | ||
| 66794 | degradation of aromatic, nitrogen containing compounds | 58.33 | 7 of 12 | ||
| 66794 | tyrosine metabolism | 57.14 | 8 of 14 | ||
| 66794 | metabolism of disaccharids | 54.55 | 6 of 11 | ||
| 66794 | polyamine pathway | 52.17 | 12 of 23 | ||
| 66794 | cyclohexanol degradation | 50 | 2 of 4 | ||
| 66794 | aminopropanol phosphate biosynthesis | 50 | 1 of 2 | ||
| 66794 | ascorbate metabolism | 50 | 11 of 22 | ||
| 66794 | ribulose monophosphate pathway | 50 | 1 of 2 | ||
| 66794 | dTDPLrhamnose biosynthesis | 50 | 4 of 8 | ||
| 66794 | coenzyme M biosynthesis | 50 | 5 of 10 | ||
| 66794 | kanosamine biosynthesis II | 50 | 1 of 2 | ||
| 66794 | resorcinol degradation | 50 | 1 of 2 | ||
| 66794 | glycine metabolism | 50 | 5 of 10 | ||
| 66794 | arachidonic acid metabolism | 50 | 9 of 18 | ||
| 66794 | phosphatidylethanolamine bioynthesis | 46.15 | 6 of 13 | ||
| 66794 | glycine betaine biosynthesis | 40 | 2 of 5 | ||
| 66794 | lipoate biosynthesis | 40 | 2 of 5 | ||
| 66794 | 4-hydroxyphenylacetate degradation | 40 | 4 of 10 | ||
| 66794 | arachidonate biosynthesis | 40 | 2 of 5 | ||
| 66794 | phenylpropanoid biosynthesis | 38.46 | 5 of 13 | ||
| 66794 | androgen and estrogen metabolism | 37.5 | 6 of 16 | ||
| 66794 | carotenoid biosynthesis | 36.36 | 8 of 22 | ||
| 66794 | nitrate assimilation | 33.33 | 3 of 9 | ||
| 66794 | IAA biosynthesis | 33.33 | 1 of 3 | ||
| 66794 | (5R)-carbapenem carboxylate biosynthesis | 33.33 | 1 of 3 | ||
| 66794 | methanogenesis from CO2 | 33.33 | 4 of 12 | ||
| 66794 | pantothenate biosynthesis | 33.33 | 2 of 6 | ||
| 66794 | sulfoquinovose degradation | 33.33 | 1 of 3 | ||
| 66794 | sphingosine metabolism | 33.33 | 2 of 6 | ||
| 66794 | benzoyl-CoA degradation | 28.57 | 2 of 7 | ||
| 66794 | mevalonate metabolism | 28.57 | 2 of 7 | ||
| 66794 | alginate biosynthesis | 25 | 1 of 4 | ||
| 66794 | carnitine metabolism | 25 | 2 of 8 | ||
| 66794 | toluene degradation | 25 | 1 of 4 |
| @ref | Biosafety level | Biosafety level comment | |
|---|---|---|---|
| 37407 | 1 | Risk group (French classification) |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Genetics | Genome-wide comparative analysis of clinical and environmental strains of the opportunistic pathogen Paracoccus yeei (Alphaproteobacteria). | Szuplewska M, Sentkowska D, Lasek R, Decewicz P, Halucha M, Funk L, Chmielowska C, Bartosik D. | Front Microbiol | 10.3389/fmicb.2024.1483110 | 2024 | |
| Metabolism | Involvement of membrane vesicles in long-chain-AHL delivery in Paracoccus species. | Morinaga K, Nagakubo T, Nomura N, Toyofuku M. | Environ Microbiol Rep | 10.1111/1758-2229.12843 | 2020 | |
| Genome Structure of the Opportunistic Pathogen Paracoccus yeei (Alphaproteobacteria) and Identification of Putative Virulence Factors. | Lasek R, Szuplewska M, Mitura M, Decewicz P, Chmielowska C, Pawlot A, Sentkowska D, Czarnecki J, Bartosik D. | Front Microbiol | 10.3389/fmicb.2018.02553 | 2018 | ||
| Pan-genome analysis of six Paracoccus type strain genomes reveal lifestyle traits. | Hollensteiner J, Schneider D, Poehlein A, Brinkhoff T, Daniel R. | PLoS One | 10.1371/journal.pone.0287947 | 2023 | ||
| Genetics | Whole Genome Comparison of Thermus sp. NMX2.A1 Reveals Principle Carbon Metabolism Differences with Closest Relation Thermus scotoductus SA-01. | Muller WJ, Tlalajoe N, Cason ED, Litthauer D, Reva O, Brzuszkiewicz E, van Heerden E. | G3 (Bethesda) | 10.1534/g3.116.032953 | 2016 | |
| Phylogeny | Paracoccus yeeii sp. nov. (formerly CDC group EO-2), a novel bacterial species associated with human infection. | Daneshvar MI, Hollis DG, Weyant RS, Steigerwalt AG, Whitney AM, Douglas MP, Macgregor JP, Jordan JG, Mayer LW, Rassouli SM, Barchet W, Munro C, Shuttleworth L, Bernard K | J Clin Microbiol | 10.1128/JCM.41.3.1289-1294.2003 | 2003 |
| #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 ) |
| #37407 | Collection of Institut Pasteur ; Curators of the CIP; CIP 108092 |
| #57359 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 46822 |
| #66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 ) |
| #68382 | Automatically annotated from API zym . |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #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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