Strain identifier
BacDive ID: 131388
Type strain: 
Species: Paenibacillus herberti
Strain Designation: R33
Strain history: <- Y. H. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; R33
NCBI tax ID(s): 1619309 (species)
version 8.1 (current version)
General
@ref: 22615
BacDive-ID: 131388
DSM-Number: 29849
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, motile
description: Paenibacillus herberti R33 is a spore-forming, mesophilic, motile bacterium that was isolated from Herbertus sendtneri.
NCBI tax id
- NCBI tax id: 1619309
- Matching level: species
strain history
- @ref: 22615
- history: <- Y. H. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; R33
doi: 10.13145/bacdive131388.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Paenibacillaceae
- genus: Paenibacillus
- species: Paenibacillus herberti
- full scientific name: Paenibacillus herberti Guo et al. 2015
@ref: 22615
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Paenibacillaceae
genus: Paenibacillus
species: Paenibacillus herberti
full scientific name: Paenibacillus herberti et al. 2015
strain designation: R33
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 94.532 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 22615
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 22615
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 22615
- sample type: Herbertus sendtneri
- host species: Herbertus sendtneri
- geographic location: Ga Walloon Glacier
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 29.7635
- longitude: 95.6976
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Moss
Sequence information
16S sequences
- @ref: 22615
- description: Paenibacillus herberti strain R33 16S ribosomal RNA gene, partial sequence
- accession: KP056548
- length: 1516
- database: ena
- NCBI tax ID: 1619309
Genome sequences
- @ref: 66792
- description: Paenibacillus herberti R33
- accession: GCA_002233675
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 1619309
GC content
- @ref: 22615
- GC-content: 56.9
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| flagellated | yes | 84.476 | no |
| gram-positive | yes | 84.01 | no |
| anaerobic | no | 99.094 | no |
| aerobic | yes | 93.497 | no |
| halophile | no | 91.679 | no |
| spore-forming | yes | 96.195 | no |
| thermophile | no | 99.733 | yes |
| glucose-util | yes | 91.305 | no |
| motile | yes | 87.004 | no |
| glucose-ferment | no | 88.955 | no |
External links
@ref: 22615
culture collection no.: DSM 29849, CGMCC 1.15042
literature
- topic: Phylogeny
- Pubmed-ID: 26155771
- title: Paenibacillus herberti sp. nov., an endophyte isolated from Herbertus sendtneri.
- authors: Guo GN, Zhou X, Zhao R, Chen XY, Chen ZL, Li XD, Li YH
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-015-0514-3
- year: 2015
- mesh: Aerobiosis, Base Composition, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases, Diaminopimelic Acid/analysis, Endophytes/*classification/genetics/*isolation & purification/physiology, Fatty Acids/analysis, Hepatophyta/*microbiology, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/*isolation & purification/physiology, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, Polymorphism, Restriction Fragment Length, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spores, Bacterial/cytology
- topic2: Enzymology
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 | |
| 22615 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29849 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29849) | |
| 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 | |
| 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 |