Siccibacter turicensis 508/05 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from fruit powder.
Gram-negative motile coccus-shaped facultative anaerobe genome sequence 16S sequence Bacteria| @ref 20215 |
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| Domain Bacteria |
| Phylum Pseudomonadota |
| Class Gammaproteobacteria |
| Order Enterobacterales |
| Family Enterobacteriaceae |
| Genus Siccibacter |
| Species Siccibacter turicensis |
| Full scientific name Siccibacter turicensis (Stephan et al. 2007) Stephan et al. 2014 |
| Synonyms (2) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 7525 | COLUMBIA BLOOD AGAR (DSMZ Medium 429) | Medium recipe at MediaDive | Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base | ||
| 7525 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | Medium recipe at MediaDive | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water | ||
| 34216 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 124039 | CIP Medium 72 | Medium recipe at CIP |
| 31918 | Observationaggregates in clumps |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 31918 | 16808 ChEBI | 2-dehydro-D-gluconate | + | carbon source | |
| 31918 | 16449 ChEBI | alanine | + | carbon source | |
| 68368 | 27613 ChEBI | amygdalin | + | fermentation | from API 20E |
| 31918 | 22599 ChEBI | arabinose | + | carbon source | |
| 68371 | 18305 ChEBI | arbutin | + | builds acid from | from API 50CH acid |
| 68368 | 29016 ChEBI | arginine | - | hydrolysis | from API 20E |
| 31918 | 35391 ChEBI | aspartate | + | carbon source | |
| 31918 | 17057 ChEBI | cellobiose | + | carbon source | |
| 68371 | 17057 ChEBI | cellobiose | + | builds acid from | from API 50CH acid |
| 68368 | 16947 ChEBI | citrate | + | assimilation | from API 20E |
| 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 |
| 68368 | 17634 ChEBI | D-glucose | + | fermentation | from API 20E |
| 68371 | 62318 ChEBI | D-lyxose | - | builds acid from | from API 50CH acid |
| 68371 | 16899 ChEBI | D-mannitol | + | builds acid from | from API 50CH acid |
| 68368 | 16899 ChEBI | D-mannitol | + | fermentation | from API 20E |
| 68371 | 16024 ChEBI | D-mannose | + | builds acid from | from API 50CH acid |
| 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 |
| 68371 | 4853 ChEBI | esculin | + | builds acid from | from API 50CH acid |
| 31918 | 28757 ChEBI | fructose | + | carbon source | |
| 68371 | 16813 ChEBI | galactitol | + | builds acid from | from API 50CH acid |
| 31918 | 28260 ChEBI | galactose | + | carbon source | |
| 68368 | 5291 ChEBI | gelatin | - | hydrolysis | from API 20E |
| 68371 | 28066 ChEBI | gentiobiose | + | builds acid from | from API 50CH acid |
| 68371 | 24265 ChEBI | gluconate | + | builds acid from | from API 50CH acid |
| 31918 | 5417 ChEBI | glucosamine | + | carbon source | |
| 31918 | 17234 ChEBI | glucose | + | carbon source | |
| 31918 | 29987 ChEBI | glutamate | + | carbon source | |
| 31918 | 17754 ChEBI | glycerol | + | carbon source | |
| 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 |
| 68368 | 30849 ChEBI | L-arabinose | + | fermentation | from API 20E |
| 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 |
| 68368 | 62345 ChEBI | L-rhamnose | + | fermentation | from API 20E |
| 68371 | 17266 ChEBI | L-sorbose | - | builds acid from | from API 50CH acid |
| 31918 | 24996 ChEBI | lactate | + | carbon source | |
| 31918 | 17716 ChEBI | lactose | + | carbon source | |
| 68371 | 17716 ChEBI | lactose | + | builds acid from | from API 50CH acid |
| 68368 | 25094 ChEBI | lysine | - | degradation | from API 20E |
| 31918 | 25115 ChEBI | malate | + | carbon source | |
| 31918 | 17306 ChEBI | maltose | + | carbon source | |
| 68371 | 17306 ChEBI | maltose | + | builds acid from | from API 50CH acid |
| 31918 | 29864 ChEBI | mannitol | + | carbon source | |
| 31918 | 37684 ChEBI | mannose | + | carbon source | |
| 68371 | 6731 ChEBI | melezitose | - | builds acid from | from API 50CH acid |
| 31918 | 28053 ChEBI | melibiose | + | carbon source | |
| 68371 | 28053 ChEBI | melibiose | + | builds acid from | from API 50CH acid |
| 68368 | 28053 ChEBI | melibiose | + | fermentation | from API 20E |
| 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 |
| 68368 | 17268 ChEBI | myo-inositol | - | fermentation | from API 20E |
| 68371 | 59640 ChEBI | N-acetylglucosamine | + | builds acid from | from API 50CH acid |
| 124039 | 17632 ChEBI | nitrate | + | reduction | |
| 124039 | 16301 ChEBI | nitrite | - | reduction | |
| 68368 | 18257 ChEBI | ornithine | - | degradation | from API 20E |
| 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 |
| 31918 | 26271 ChEBI | proline | + | carbon source | |
| 31918 | 26546 ChEBI | rhamnose | + | carbon source | |
| 68371 | 15963 ChEBI | ribitol | - | builds acid from | from API 50CH acid |
| 31918 | 33942 ChEBI | ribose | + | carbon source | |
| 68371 | 17814 ChEBI | salicin | + | builds acid from | from API 50CH acid |
| 31918 | 17822 ChEBI | serine | + | carbon source | |
| 68368 | 30911 ChEBI | sorbitol | - | fermentation | from API 20E |
| 68371 | 28017 ChEBI | starch | - | builds acid from | from API 50CH acid |
| 68371 | 17992 ChEBI | sucrose | - | builds acid from | from API 50CH acid |
| 68368 | 17992 ChEBI | sucrose | - | fermentation | from API 20E |
| 31918 | 27082 ChEBI | trehalose | + | carbon source | |
| 68371 | 27082 ChEBI | trehalose | + | builds acid from | from API 50CH acid |
| 68368 | 27897 ChEBI | tryptophan | - | energy source | from API 20E |
| 68371 | 32528 ChEBI | turanose | - | builds acid from | from API 50CH acid |
| 68368 | 16199 ChEBI | urea | - | hydrolysis | from API 20E |
| 68371 | 17151 ChEBI | xylitol | - | builds acid from | from API 50CH acid |
| 31918 | 18222 ChEBI | xylose | + | carbon source |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 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 |
| 68368 | arginine dihydrolase | - | 3.5.3.6 | from API 20E |
| 68382 | beta-galactosidase | + | 3.2.1.23 | from API zym |
| 68368 | beta-galactosidase | + | 3.2.1.23 | from API 20E |
| 68382 | beta-glucosidase | + | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 31918 | catalase | + | 1.11.1.6 | |
| 124039 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 31918 | cytochrome oxidase | + | 1.9.3.1 | |
| 68368 | cytochrome oxidase | - | 1.9.3.1 | from API 20E |
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 68368 | gelatinase | - | from API 20E | |
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 68382 | lipase (C 14) | - | from API zym | |
| 68368 | lysine decarboxylase | - | 4.1.1.18 | from API 20E |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 68368 | ornithine decarboxylase | - | 4.1.1.17 | from API 20E |
| 124039 | oxidase | - | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 68368 | tryptophan deaminase | - | 4.1.99.1 | from API 20E |
| 124039 | urease | - | 3.5.1.5 | |
| 68368 | urease | - | 3.5.1.5 | from API 20E |
| 68382 | valine arylamidase | - | from API zym |
| @ref | ONPG | ADH (Arg) | LDC (Lys) | ODC | CIT | H2S productionH2S | URE | TDA (Trp) | IND | Acetoin production (Voges Proskauer test)VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | OX | Nitrite productionNO2 | Reduction to N2N2 | MotilityMOB | Growth on MacConkey mediumMAC | OF-O | OF-F | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 7525 | + | - | - | - | + | - | - | - | - | - | - | + | + | - | - | + | - | + | + | + | - | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. |
| @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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 124039 | not determinedn.d. | + | - | + | + | + | + | +/- | - | - | + | + | + | + | - | + | + | - | + | - | - | - | + | +/- | + | + | + | + | + | + | + | - | + | - | - | +/- | - | - | - | + | - | - | - | - | - | - | - | + | + | + |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 124043 | z508 assembly for Siccibacter turicensis z508 | complete | 357233 | 95.09 | ||||
| 67770 | CroZurLMG23730T_1.0 assembly for Siccibacter turicensis LMG 23730 | scaffold | 1388748 | 59.37 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 7525 | Enterobacter turicensis strain LMG 23730 16S ribosomal RNA gene, partial sequence | DQ273681 | 1266 | 1388748 | ||
| 67770 | Enterobacter turicensis strain LMG 23730 16S ribosomal RNA gene, partial sequence | HQ992947 | 1494 | 1388748 | ||
| 124043 | Enterobacter turicensis strain LMG 23730 16S ribosomal RNA gene, partial sequence. | JX986977 | 1494 | 357233 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | aerobe | 90.90 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 98.29 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 60.87 | no |
| 125439 | spore_formation | BacteriaNetⓘ | no | 99.47 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 99.50 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 96.20 | yes |
| 125438 | spore-forming | spore-formingⓘ | no | 88.26 | yes |
| 125438 | aerobic | aerobicⓘ | no | 67.76 | no |
| 125438 | thermophilic | thermophileⓘ | no | 99.50 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 76.86 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Siccibacter turicensis from Kangaroo Scats: Possible Implication in Cellulose Digestion. | Dhakal S, Boath JM, Van TTH, Moore RJ, Macreadie IG. | Microorganisms | 10.3390/microorganisms8050635 | 2020 | ||
| Brown Macroalgae (Phaeophyceae): A Valuable Reservoir of Antimicrobial Compounds on Northern Coast of Spain. | Rubino S, Peteiro C, Aymerich T, Hortos M. | Mar Drugs | 10.3390/md20120775 | 2022 | ||
| Enzymology | Identification and characterisation of the lactic acid bacteria associated with the traditional fermentation of dairy fermented product. | Obioha PI, Ouoba LII, Anyogu A, Awamaria B, Atchia S, Ojimelukwe PC, Sutherland JP, Ghoddusi HB. | Braz J Microbiol | 10.1007/s42770-021-00461-y | 2021 | |
| Genetics | Novel Insights Into the Phylogeny and Biotechnological Potential of Weissella Species. | Fanelli F, Montemurro M, Chieffi D, Cho GS, Franz CMAP, Dell'Aquila A, Rizzello CG, Fusco V. | Front Microbiol | 10.3389/fmicb.2022.914036 | 2022 | |
| Emergence of Cronobacter sakazakii in Cases of Neonatal Sepsis in Upper Egypt: First Report in North Africa. | Elkhawaga AA, Hetta HF, Osman NS, Hosni A, El-Mokhtar MA. | Front Microbiol | 10.3389/fmicb.2020.00215 | 2020 | ||
| Biotechnology | Exploration of isoxanthohumol bioconversion from spent hops into 8-prenylnaringenin using resting cells of Eubacterium limosum. | Moens E, Bolca S, Van de Wiele T, Van Landschoot A, Goeman JL, Possemiers S, Verstraete W. | AMB Express | 10.1186/s13568-020-01015-5 | 2020 | |
| Phylogeny | Re-examination of the taxonomic status of Enterobacter helveticus, Enterobacter pulveris and Enterobacter turicensis as members of the genus Cronobacter and their reclassification in the genera Franconibacter gen. nov. and Siccibacter gen. nov. as Franconibacter helveticus comb. nov., Franconibacter pulveris comb. nov. and Siccibacter turicensis comb. nov., respectively. | Stephan R, Grim CJ, Gopinath GR, Mammel MK, Sathyamoorthy V, Trach LH, Chase HR, Fanning S, Tall BD | Int J Syst Evol Microbiol | 10.1099/ijs.0.059832-0 | 2014 | |
| Genetics | Draft Genome Sequences of Three Newly Identified Species in the Genus Cronobacter, C. helveticus LMG23732T, C. pulveris LMG24059, and C. zurichensis LMG23730T. | Masood N, Moore K, Farbos A, Hariri S, Paszkiewicz K, Dickins B, McNally A, Forsythe S | Genome Announc | 10.1128/genomeA.00783-13 | 2013 | |
| Genetics | Marinobacter arenosus sp. nov., a halotolerant bacterium isolated from a tidal flat. | Lee Y, Weerawongwiwat V, Kim JH, Suh MK, Kim HS, Lee JS, Yoon JH, Sukhoom A, Kim W. | Arch Microbiol | 10.1007/s00203-021-02696-7 | 2022 | |
| Metabolism | Weissella fabaria sp. nov., from a Ghanaian cocoa fermentation. | De Bruyne K, Camu N, De Vuyst L, Vandamme P. | Int J Syst Evol Microbiol | 10.1099/ijs.0.019323-0 | 2010 | |
| Phylogeny | Weissella beninensis sp. nov., a motile lactic acid bacterium from submerged cassava fermentations, and emended description of the genus Weissella. | Padonou SW, Schillinger U, Nielsen DS, Franz CMAP, Hansen M, Hounhouigan JD, Nago MC, Jakobsen M. | Int J Syst Evol Microbiol | 10.1099/ijs.0.014332-0 | 2010 | |
| Phylogeny | Halomonas ilicicola sp. nov., a moderately halophilic bacterium isolated from a saltern. | Arenas M, Banon PI, Copa-Patino JL, Sanchez-Porro C, Ventosa A, Soliveri J. | Int J Syst Evol Microbiol | 10.1099/ijs.0.003509-0 | 2009 | |
| Metabolism | Alteromonas halophila sp. nov., a new moderately halophilic bacterium isolated from a sea anemone. | Chen YG, Xiao HD, Tang SK, Zhang YQ, Borrathybay E, Cui XL, Li WJ, Liu YQ. | Antonie Van Leeuwenhoek | 10.1007/s10482-009-9341-8 | 2009 | |
| Phylogeny | Description of Siccibacter colletis sp. nov., a novel species isolated from plant material, and emended description of Siccibacter turicensis. | Jackson EE, Masood N, Ibrahim K, Urvoy N, Hariri S, Forsythe SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.000108 | 2015 | |
| Phylogeny | Enterobacter turicensis sp. nov. and Enterobacter helveticus sp. nov., isolated from fruit powder. | Stephan R, Van Trappen S, Cleenwerck I, Vancanneyt M, De Vos P, Lehner A | Int J Syst Evol Microbiol | 10.1099/ijs.0.64650-0 | 2007 |
| #7525 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18397 |
| #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 ) |
| #28175 | IJSEM 820 2007 ( DOI 10.1099/ijs.0.64650-0 , PubMed 17392213 ) |
| #31918 | Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28175 |
| #34216 | ; Curators of the CIP; |
| #60405 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54945 |
| #67770 | Japan Collection of Microorganism (JCM) ; Curators of the JCM; |
| #68368 | Automatically annotated from API 20E . |
| #68371 | Automatically annotated from API 50CH acid . |
| #68382 | Automatically annotated from API zym . |
| #124039 | Collection of Institut Pasteur ; Curators of the CIP; CIP 109627 |
| #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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