Strain identifier
BacDive ID: 13312
Type strain:
Species: Lentzea flaviverrucosa
Strain Designation: AS4.0578
Strain history: CIP <- 2002, Z. Liu, Chinese Academy Sciences, Beijing, China: strain AS4.0578 <- CGMCC <- JCM <- Z. Liu
NCBI tax ID(s): 200379 (species)
General
@ref: 11860
BacDive-ID: 13312
DSM-Number: 44664
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic
description: Lentzea flaviverrucosa AS4.0578 is an obligate aerobe, spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 200379
- Matching level: species
strain history
@ref | history |
---|---|
11860 | <- Z. Liu, AS, China |
67770 | Z. Liu AS 4.0578. |
119380 | CIP <- 2002, Z. Liu, Chinese Academy Sciences, Beijing, China: strain AS4.0578 <- CGMCC <- JCM <- Z. Liu |
doi: 10.13145/bacdive13312.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Lentzea
- species: Lentzea flaviverrucosa
- full scientific name: Lentzea flaviverrucosa (ex Yan and Deng 1966) Xie et al. 2002
@ref: 11860
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Lentzea
species: Lentzea flaviverrucosa
full scientific name: Lentzea flaviverrucosa (ex Yan and Deng 1966) Xie et al. 2002
strain designation: AS4.0578
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 91.048 | ||
69480 | 100 | positive | ||
119380 | no | positive | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
11860 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | 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 |
39933 | MEDIUM 275 - for Actinomadura rugatobispora and Actinomadura verrucosospora | yes | Distilled water make up to (1000.000 ml);Sodium chloride (1.000 g);Magnesium sulphate heptahydrate (1.000 g);Agar (20.000 g);Ammonium sulphate (2.000 g);Starch maize (10.000 g);Calcium carbonate (2.000 g);Trace salt solution - M00447 (1.000 ml) | |
119380 | CIP Medium 275 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=275 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
11860 | positive | growth | 28 | mesophilic |
39933 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
119380 | positive | growth | 22-37 | |
119380 | no | growth | 10 | psychrophilic |
119380 | no | growth | 15 | psychrophilic |
119380 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 119380
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 94 |
69480 | yes | 100 |
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H2)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
119380 | 17632 | nitrate | - | reduction |
119380 | 16301 | nitrite | - | reduction |
119380 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 119380
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite tests
- @ref: 119380
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
119380 | oxidase | - | |
119380 | alcohol dehydrogenase | - | 1.1.1.1 |
119380 | catalase | + | 1.11.1.6 |
119380 | lysine decarboxylase | - | 4.1.1.18 |
119380 | ornithine decarboxylase | - | 4.1.1.17 |
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 zym
@ref | Control | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119380 | - | + | + | + | - | + | - | - | - | - | + | - | + | + | - | + | - | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
11860 | soil | Shanxi province, Wutaishan Mountain | China | CHN | Asia | |
67770 | Soil | Wutaishan Mountain, Shanxi Province | China | CHN | Asia | |
119380 | Environment, Soil | Wutaishan mountain | China | CHN | Asia | 1966 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_32369.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_840;97_982;98_3756;99_32369&stattab=map
- Last taxonomy: Lentzea
- 16S sequence: AF183957
- Sequence Identity:
- Total samples: 289
- soil counts: 231
- aquatic counts: 15
- animal counts: 10
- plant counts: 33
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
11860 | 1 | Risk group (German classification) |
119380 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 11860
- description: Lentzea flavoverrucosus 16S ribosomal RNA gene, partial sequence
- accession: AF183957
- length: 1426
- database: ena
- NCBI tax ID: 200379
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lentzea flaviverrucosa strain DSM 44664 | 200379.4 | wgs | patric | 200379 |
66792 | Lentzea flaviverrucosa DSM 44664 | 2770939509 | draft | img | 200379 |
67770 | Lentzea flaviverrucosa CGMCC 4.578 | GCA_900110985 | scaffold | ncbi | 200379 |
67770 | Lentzea flaviverrucosa DSM 44664 | GCA_003350445 | scaffold | ncbi | 200379 |
GC content
- @ref: 11860
- GC-content: 64.1
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 94 | no |
motile | no | 91.755 | no |
gram-positive | yes | 89.845 | no |
anaerobic | no | 99.21 | no |
aerobic | yes | 92.204 | no |
halophile | no | 85.418 | no |
spore-forming | yes | 93.648 | no |
glucose-util | yes | 88.704 | no |
flagellated | no | 96.722 | no |
thermophile | no | 98.938 | yes |
glucose-ferment | no | 91.966 | no |
External links
@ref: 11860
culture collection no.: DSM 44664, AS 4.0578, JCM 11373, BCRC 16960, CGMCC 4.0578, CIP 107743, NBRC 100042
straininfo link
- @ref: 82512
- straininfo: 100722
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 12361291 | Description of Lentzea flaviverrucosa sp. nov. and transfer of the type strain of Saccharothrix aerocolonigenes subsp. staurosporea to Lentzea albida. | Xie Q, Wang Y, Huang Y, Wu Y, Ba F, Liu Z | Int J Syst Evol Microbiol | 10.1099/00207713-52-5-1815 | 2002 | Actinomycetales/*classification/genetics/isolation & purification/metabolism, Base Sequence, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Soil Microbiology, Species Specificity, Terminology as Topic | Genetics |
35439047 | Discovery of unusual dimeric piperazyl cyclopeptides encoded by a Lentzea flaviverrucosa DSM 44664 biosynthetic supercluster. | Li C, Hu Y, Wu X, Stumpf SD, Qi Y, D'Alessandro JM, Nepal KK, Sarotti AM, Cao S, Blodgett JAV | Proc Natl Acad Sci U S A | 10.1073/pnas.2117941119 | 2022 | *Actinobacteria/genetics, *Actinomycetales/genetics, Multigene Family, Peptides, Cyclic/genetics, *Streptomyces/genetics |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
11860 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44664) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44664 | |
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 | |
39933 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5212 | ||
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) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
82512 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100722.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
119380 | Curators of the CIP | Collection of Institut Pasteur (CIP 107743) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107743 |