Strain identifier
BacDive ID: 11055
Type strain:
Species: Aeromicrobium erythreum
Strain history: NRRL B-3381 <-- J. C. French.
NCBI tax ID(s): 2041 (species)
General
@ref: 3325
BacDive-ID: 11055
DSM-Number: 8599
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, antibiotic compound production
description: Aeromicrobium erythreum DSM 8599 is a mesophilic bacterium that produces antibiotic compounds and was isolated from soil.
NCBI tax id
- NCBI tax id: 2041
- Matching level: species
strain history
@ref | history |
---|---|
3325 | <- H. Prauser <- NRRL <- J.C. French (Arthrobacter sp.) |
67770 | NRRL B-3381 <-- J. C. French. |
doi: 10.13145/bacdive11055.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Propionibacteriales
- family: Nocardioidaceae
- genus: Aeromicrobium
- species: Aeromicrobium erythreum
- full scientific name: Aeromicrobium erythreum Miller et al. 1991
@ref: 3325
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardioidaceae
genus: Aeromicrobium
species: Aeromicrobium erythreum
full scientific name: Aeromicrobium erythreum Miller et al. 1991 emend. Nouioui et al. 2018
type strain: yes
Morphology
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19730 | Saffron yellow | 10-14 days | 5006 |
19730 | Saffron yellow | 10-14 days | 5425 |
19730 | Saffron yellow | 10-14 days | 5428 |
19730 | Saffron yellow | 10-14 days | 5530 |
19730 | Saffron yellow | 10-14 days | ISP 2 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
19730 | no | ISP 2 |
19730 | no | 5006 |
19730 | no | 5425 |
19730 | no | 5428 |
19730 | no | 5530 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3325 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water |
19730 | ISP 2 | yes | 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 | |
19730 | 5006 | yes | Medium: 5006 Name: Composition (g/l) Sucrose 3,0 Dextrin 15,0 Meat extract 1,0 Yeast extract 2,0 Tryptone soy broth (Oxoid) 5,0 NaCl 0,5 K2HPO4 0,5 MgSO4 x 7 H2O 0,5 FeSO4 x 7 H2O 0,01 Agar 20,0 Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7,3 Usage: Maintenance Organisms: All Actinomycetes | |
19730 | 5425 | yes | Name: Brain Heart Infusion (BHI) Agar; 5425 Composition: Calf brain infusion 200.0 g/l Beef heart infusion 250.0 g/l Casein (meat) peptone 10.0 g/l Glucose 2.0 g/l NaCl 5.0 g/l Na2HPO4 2.5 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.4 Usage: Maintenance and revitalization Organisms: Dermatophilus congolensis, Nocardia brasieliensis, N. asteroides, Rhodococcus equi, R. fascians, R. rhodochrous, Streptomyces thermoviol aceus subsp. apingens, Coryneform species | |
19730 | 5428 | yes | ||
19730 | 5530 | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
19730 | positive | optimum | 37 | mesophilic |
3325 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
compound production
- @ref: 3325
- compound: erythromycin A
murein
- @ref: 3325
- murein short key: A41.01
- type: A3gamma LL-Dpm-Gly
observation
- @ref: 67770
- observation: quinones: MK-9(H4)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68368 | 5291 | gelatin | + | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | + | hydrolysis |
68368 | 16947 | citrate | + | assimilation |
68368 | 18257 | ornithine | + | degradation |
68368 | 25094 | lysine | + | degradation |
68368 | 29016 | arginine | + | hydrolysis |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | + | hydrolysis |
68379 | 16199 | urea | + | hydrolysis |
68379 | 5291 | gelatin | + | hydrolysis |
68379 | 17634 | D-glucose | - | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | - | fermentation |
68379 | 28087 | glycogen | - | fermentation |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
67770 | 48923 | erythromycin | yes |
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | - | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68379 | gelatinase | + | |
68379 | urease | + | 3.5.1.5 |
68379 | beta-glucosidase | + | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | - | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | + | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | - | 3.5.1.B15 |
68368 | gelatinase | + | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | + | 3.5.1.5 |
68368 | ornithine decarboxylase | + | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | + | 3.5.3.6 |
68368 | beta-galactosidase | - | 3.2.1.23 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | + | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19730 | - | - | - | + | - | - | + | - | + | + | + | - | - | - | - | - | - | - | - |
API zym
@ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19730 | + | + | + | + | + | + | + | + | + | + | - | - | - | - | + | + | - | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
19730 | - | + | + | + | + | - | + | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
3325 | soil | Puerto Rico | Puerto Rico | PRI | Middle and South America |
67770 | Soil | Puerto Rico | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_4049.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_1793;97_2145;98_3066;99_4049&stattab=map
- Last taxonomy: Aeromicrobium erythreum subclade
- 16S sequence: AF005021
- Sequence Identity:
- Total samples: 200
- soil counts: 85
- aquatic counts: 61
- animal counts: 27
- plant counts: 27
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
3325 | 1 | Risk group (German classification) |
19730 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Aeromicrobium erythreum strain NRRL B-3381 16S ribosomal RNA gene, partial sequence | AF005021 | 1474 | ena | 2041 |
20218 | Aeromicrobium erythreum strain NRRL B-3381 16S-23S internal transcribed spacer, complete sequence | AF017508 | 349 | ena | 2041 |
67770 | A.erythreus small subunit ribosomal RNA | M37200 | 1463 | ena | 2041 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Aeromicrobium erythreum strain AR18 | 2041.4 | complete | patric | 2041 |
67770 | Aeromicrobium erythreum AR18 | GCA_001509405 | complete | ncbi | 2041 |
GC content
@ref | GC-content | method |
---|---|---|
3325 | 71 | |
67770 | 72.1 | genome sequence analysis |
67770 | 70 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 95.705 | no |
gram-positive | yes | 94.177 | no |
anaerobic | no | 99.055 | no |
halophile | no | 91.083 | no |
spore-forming | no | 84.506 | no |
glucose-util | yes | 88.106 | no |
flagellated | no | 98.543 | no |
aerobic | yes | 95.43 | no |
thermophile | no | 98.513 | yes |
glucose-ferment | no | 91.102 | no |
External links
@ref: 3325
culture collection no.: DSM 8599, ATCC 51598, NRRL B-3381, JCM 8359, GTC 01565, IFO 15406, KCCM 41104, KCTC 9586, LMG 16472, NBRC 15406, NCIMB 13258
straininfo link
- @ref: 80304
- straininfo: 8163
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 1883712 | Description of the erythromycin-producing bacterium Arthrobacter sp. strain NRRL B-3381 as Aeromicrobium erythreum gen. nov., sp. nov. | Miller ES, Woese CR, Brenner S | Int J Syst Bacteriol | 10.1099/00207713-41-3-363 | 1991 | Amino Acids/analysis, Arthrobacter/*classification/metabolism, Bacteria, Aerobic/*classification/metabolism, Base Composition, Base Sequence, Erythromycin/*metabolism, Fatty Acids/analysis, Gram-Positive Bacteria/*classification/metabolism, Microscopy, Electron, Molecular Sequence Data, Peptidoglycan/chemistry, Phenotype, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Soil Microbiology, Vitamin K/analysis | Metabolism |
Phylogeny | 14657123 | Aeromicrobium marinum sp. nov., an abundant pelagic bacterium isolated from the German Wadden Sea. | Bruns A, Philipp H, Cypionka H, Brinkhoff T | Int J Syst Evol Microbiol | 10.1099/ijs.0.02735-0 | 2003 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Germany, Microscopy, Electron, Molecular Sequence Data, Nocardiaceae/*classification/*genetics/growth & development/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Genetics |
Phylogeny | 18398207 | Aeromicrobium ponti sp. nov., isolated from seawater. | Lee DW, Lee SD | Int J Syst Evol Microbiol | 10.1099/ijs.0.65575-0 | 2008 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Base Composition, DNA, Bacterial/chemistry/genetics, Fatty Acids/metabolism, Genes, Bacterial, Korea, Molecular Sequence Data, Phenotype, Phospholipids/metabolism, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Species Specificity, Terminology as Topic, Vitamin K 2/metabolism | Metabolism |
Phylogeny | 20081024 | Aeromicrobium halocynthiae sp. nov., a taurocholic acid-producing bacterium isolated from the marine ascidian Halocynthia roretzi. | Kim SH, Yang HO, Sohn YC, Kwon HC | Int J Syst Evol Microbiol | 10.1099/ijs.0.016618-0 | 2010 | Actinomycetales/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Taurocholic Acid/*biosynthesis, Urochordata/*microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Phylogeny | 26354190 | Aeromicrobium camelliae sp. nov., isolated from Pu'er tea. | Niu L, Xiong M, Tang T, Song L, Hu X, Zhao M, Zhang K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000583 | 2015 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tea/*microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Genetics | 27103725 | Genome Sequence of Aeromicrobium erythreum NRRL B-3381, an Erythromycin-Producing Bacterium of the Nocardioidaceae. | Harrell EA, Miller ES | Genome Announc | 10.1128/genomeA.00300-16 | 2016 | ||
Phylogeny | 31124044 | Aeromicrobium endophyticum sp. nov., an endophytic actinobacterium isolated from reed (Phragmites australis). | Li FN, Liao SL, Liu SW, Jin T, Sun CH | J Microbiol | 10.1007/s12275-019-8705-7 | 2019 | Actinobacteria/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Cell Wall/chemistry/metabolism, China, DNA, Bacterial/genetics, Endophytes/classification/genetics/*isolation & purification/metabolism, Fatty Acids/chemistry/metabolism, Peptidoglycan/chemistry/metabolism, Phylogeny, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics | Metabolism |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3325 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8599) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8599 | |||
19730 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM8599.pdf | 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. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68368 | Automatically annotated from API 20E | |||||
68379 | Automatically annotated from API Coryne | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
80304 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID8163.1 | StrainInfo: A central database for resolving microbial strain identifiers |