Strain identifier
BacDive ID: 139754
Type strain: 
Species: Lampropedia puyangensis
Strain Designation: 2-bin
Strain history: <- KCTC <- Y. Li, The Key Laboratory of State Forestry Administration on Forest Protection, Chinese Academy of Forestry, Beijing, China; 2-bin, Lampropedia puyangensis
NCBI tax ID(s): 1869227 (species)
version 8.1 (current version)
General
@ref: 42365
BacDive-ID: 139754
DSM-Number: 105719
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Lampropedia puyangensis 2-bin is a mesophilic, Gram-negative bacterium that was isolated from symptomatic bark of Populus euramericana.
NCBI tax id
- NCBI tax id: 1869227
- Matching level: species
strain history
- @ref: 42365
- history: <- KCTC <- Y. Li, The Key Laboratory of State Forestry Administration on Forest Protection, Chinese Academy of Forestry, Beijing, China; 2-bin, Lampropedia puyangensis
doi: 10.13145/bacdive139754.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Lampropedia
- species: Lampropedia puyangensis
- full scientific name: Lampropedia puyangensis Li et al. 2015
@ref: 42365
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Clostridiales
family: Comamonadaceae
genus: unclassified
species: unclassified bacterium
full scientific name: unclassified bacterium
strain designation: 2-bin
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.969
multimedia
- @ref: 42365
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_105719.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 42365
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
- @ref: 42365
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.954 |
Isolation, sampling and environmental information
isolation
- @ref: 42365
- sample type: symptomatic bark of Populus euramericana
- host species: Populus x euramericana
- geographic location: Qingfeng, Puyang City, Henan province
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Tree |
| #Host Body-Site | #Plant | #Bark |
taxonmaps
- @ref: 69479
- File name: preview.99_28092.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_13883;97_16917;98_21013;99_28092&stattab=map
- Last taxonomy: Lampropedia puyangensis
- 16S sequence: JX680314
- Sequence Identity:
- Total samples: 358
- soil counts: 15
- aquatic counts: 196
- animal counts: 101
- plant counts: 46
Sequence information
16S sequences
- @ref: 42365
- description: Lampropedia puyangensis strain 2-bin 16S ribosomal RNA gene, partial sequence
- accession: JX680314
- length: 1442
- database: ena
- NCBI tax ID: 1330072
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Lampropedia puyangensis 2-bin | GCA_004833285 | scaffold | ncbi | 1330072 |
| 66792 | Lampropedia puyangensis strain 2-bin | 1330072.3 | wgs | patric | 1330072 |
| 66792 | Lampropedia puyangensis 2-bin | 2889496559 | draft | img | 1330072 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 83.15 | no |
| flagellated | no | 86.16 | no |
| gram-positive | no | 97.408 | no |
| anaerobic | no | 98.564 | no |
| aerobic | yes | 93.102 | no |
| halophile | no | 93.976 | no |
| spore-forming | no | 94.913 | no |
| glucose-util | no | 68.555 | no |
| thermophile | no | 98.532 | yes |
| glucose-ferment | no | 88.852 | no |
External links
@ref: 42365
culture collection no.: DSM 105719, KCTC 32235, CFCC 10925
literature
- topic: Phylogeny
- Pubmed-ID: 25991383
- title: Lampropedia puyangensis sp. nov., isolated from symptomatic bark of Populus x euramericana canker and emended description of Lampropedia hyalina (Ehrenberg 1832) Lee et al. 2004.
- authors: Li Y, Wang T, Piao CG, Wang LF, Tian GZ, Zhu TH, Guo MW
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-015-0483-6
- year: 2015
- mesh: Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Comamonadaceae/*classification/genetics/*isolation & purification/physiology, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Glycolipids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Plant Bark/*microbiology, Plant Diseases/*microbiology, Populus/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | 10.1099/ijsem.0.004332 | |
| 42365 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105719 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105719) | |
| 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) | https://diaspora-project.de/progress.html#genomes | |
| 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 | https://microbeatlas.org/ | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |