Amycolatopsis lexingtonensis DSM 44653 is an obligate aerobe, Gram-positive, rod-shaped animal pathogen that builds an aerial mycelium and was isolated from equine placenta.
Gram-positive rod-shaped obligate aerobe animal pathogen genome sequence 16S sequence Bacteria| @ref 20215 |
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| Domain Bacteria |
| Phylum Actinomycetota |
| Class Actinomycetes |
| Order Pseudonocardiales |
| Family Pseudonocardiaceae |
| Genus Amycolatopsis |
| Species Amycolatopsis lexingtonensis |
| Full scientific name Amycolatopsis lexingtonensis Labeda et al. 2003 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 11962 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | Medium recipe at MediaDive | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water | ||
| 20086 | ISP 2 | Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes | |||
| 20086 | ISP 3 | Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms: | |||
| 20086 | ISP 4 | Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml | |||
| 20086 | ISP 5 | Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes | |||
| 20086 | ISP 6 | Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes | |||
| 20086 | ISP 7 | Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes | |||
| 33906 | MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum | Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g) | |||
| 120589 | CIP Medium 57 | Medium recipe at CIP |
| 67770 | Observationquinones: MK-9(H2), MK-9(H4) |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 20086 | 22599 ChEBI | arabinose | + | ||
| 20086 | 62968 ChEBI | cellulose | + | ||
| 120589 | 16947 ChEBI | citrate | - | carbon source | |
| 120589 | 4853 ChEBI | esculin | + | hydrolysis | |
| 20086 | 28757 ChEBI | fructose | + | ||
| 20086 | 17234 ChEBI | glucose | + | ||
| 120589 | 606565 ChEBI | hippurate | + | hydrolysis | |
| 20086 | 29864 ChEBI | mannitol | + | ||
| 20086 | 17268 ChEBI | myo-inositol | + | ||
| 120589 | 17632 ChEBI | nitrate | + | reduction | |
| 120589 | 17632 ChEBI | nitrate | - | respiration | |
| 120589 | 16301 ChEBI | nitrite | - | reduction | |
| 20086 | 16634 ChEBI | raffinose | + | ||
| 20086 | 26546 ChEBI | rhamnose | + | ||
| 20086 | 17992 ChEBI | sucrose | + | ||
| 20086 | 18222 ChEBI | xylose | - |
| @ref | Metabolite | Is sensitive | Is resistant | |
|---|---|---|---|---|
| 120589 | 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate) |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 120589 | 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-glucosidase | + | 3.2.1.20 | from API zym |
| 120589 | amylase | + | ||
| 68382 | beta-galactosidase | + | 3.2.1.23 | from API zym |
| 120589 | 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 |
| 120589 | caseinase | + | 3.4.21.50 | |
| 120589 | catalase | + | 1.11.1.6 | |
| 120589 | DNase | - | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 120589 | gamma-glutamyltransferase | + | 2.3.2.2 | |
| 120589 | gelatinase | + | ||
| 120589 | lecithinase | - | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 120589 | 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 | |
| 120589 | ornithine decarboxylase | - | 4.1.1.17 | |
| 120589 | oxidase | - | ||
| 120589 | protease | + | ||
| 120589 | tryptophan deaminase | - | ||
| 120589 | tween esterase | + | ||
| 120589 | urease | + | 3.5.1.5 | |
| 68382 | valine arylamidase | + | from API zym |
| Cat1 | Cat2 | Cat3 | |
|---|---|---|---|
| #Host | #Mammals | #Equidae (Horse) | |
| #Host Body Product | #Urogenital tract | - |
Global distribution of 16S sequence AY183358 (>99% sequence identity) for Amycolatopsis from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM1487375v1 assembly for Amycolatopsis lexingtonensis DSM 44653 | contig | 218822 | 76.6 | ||||
| 67770 | ASM215600v1 assembly for Amycolatopsis lexingtonensis NRRL B-24131 | scaffold | 218822 | 0 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 11962 | Amycolatopsis lexingtonensis 16S ribosomal RNA gene, partial sequence | AY183358 | 1446 | 218822 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 98.90 | no |
| 125439 | motility | BacteriaNetⓘ | no | 86.30 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 97.32 | no |
| 125439 | spore_formation | BacteriaNetⓘ | yes | 55.67 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 87.05 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 95.92 | no |
| 125438 | spore-forming | spore-formingⓘ | yes | 68.41 | no |
| 125438 | aerobic | aerobicⓘ | yes | 81.47 | no |
| 125438 | thermophilic | thermophileⓘ | no | 97.49 | no |
| 125438 | flagellated | motile2+ⓘ | no | 86.00 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Genetics | Comparative genomics reveals insight into the phylogeny and habitat adaptation of novel Amycolatopsis species, an endophytic actinomycete associated with scab lesions on potato tubers. | Wannawong T, Mhuantong W, Macharoen P, Niemhom N, Sitdhipol J, Chaiyawan N, Umrung S, Tanasupawat S, Suwannarach N, Asami Y, Kuncharoen N. | Front Plant Sci | 10.3389/fpls.2024.1346574 | 2024 | |
| First Confirmed Diagnosis of Nocardioform Placentitis (Amycolatopsis lexingtonensis) in South America | Carneiro FP, Alonso MA, Redoan MA, Henriques DA, Lima FM, Oliveira RM, Cogliati B, Canisso IF, Fernandes CB. | J Equine Vet Sci | 2022 | |||
| First Confirmed Diagnosis of Nocardioform Placentitis (Amycolatopsis lexingtonensis) in South America. | Carneiro FP, Alonso MA, Redoan MA, Henriques DA, Lima FM, Oliveira RM, Cogliati B, Canisso IF, Fernandes CB. | J Equine Vet Sci | 10.1016/j.jevs.2021.103835 | 2022 | ||
| Metagenetic Analysis of the Pregnant Microbiome in Horses. | Beckers KF, Gomes VCL, Crissman KR, Liu CC, Schulz CJ, Childers GW, Sones JL. | Animals (Basel) | 10.3390/ani13121999 | 2023 | ||
| Genetics | Revisiting the Taxonomic Status of the Biomedically and Industrially Important Genus Amycolatopsis, Using a Phylogenomic Approach. | Sangal V, Goodfellow M, Blom J, Tan GYA, Klenk HP, Sutcliffe IC. | Front Microbiol | 10.3389/fmicb.2018.02281 | 2018 | |
| Amycolatopsis mongoliensis sp. nov., a novel actinobacterium with antifungal activity isolated from a coal mining site in Mongolia. | Oyuntsetseg B, Lee HB, Kim SB. | Int J Syst Evol Microbiol | 10.1099/ijsem.0.006266 | 2024 | ||
| Phylogeny | Amycolatopsis plumensis sp. nov., a novel bioactive actinomycete isolated from a New-Caledonian brown hypermagnesian ultramafic soil. | Saintpierre-Bonaccio D, Amir H, Pineau R, Tan GYA, Goodfellow M. | Int J Syst Evol Microbiol | 10.1099/ijs.0.63630-0 | 2005 | |
| Phylogeny | Amycolatopsis stemonae sp. nov., isolated from a Thai medicinal plant. | Klykleung N, Tanasupawat S, Pittayakhajonwut P, Ohkuma M, Kudo T | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000509 | 2015 | |
| Phylogeny | Amycolatopsis kentuckyensis sp. nov., Amycolatopsis lexingtonensis sp. nov. and Amycolatopsis pretoriensis sp. nov., isolated from equine placentas. | Labeda DP, Donahue JM, Williams NM, Sells SF, Henton MM | Int J Syst Evol Microbiol | 10.1099/ijs.0.02691-0 | 2003 |
| #11962 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44653 |
| #20086 | Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig . |
| #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 ) |
| #20216 | Curators of the JMRC: Jena Microbial Resource Collection (JMRC): |
| #33906 | ; 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; |
| #68382 | Automatically annotated from API zym . |
| #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 . |
| #120589 | Collection of Institut Pasteur ; Curators of the CIP; CIP 108185 |
| #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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