Strain identifier
BacDive ID: 162552
Type strain: 
Species: Paenibacillus hemerocallicola
Strain history: S. B. Kim DLE-12.
NCBI tax ID(s): 1172614 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 162552
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Paenibacillus hemerocallicola JCM 19572 is a spore-forming, mesophilic bacterium that was isolated from Root of day lily .
NCBI tax id
- NCBI tax id: 1172614
- Matching level: species
strain history
- @ref: 67770
- history: S. B. Kim DLE-12.
doi: 10.13145/bacdive162552.20250331.9.3
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 hemerocallicola
- full scientific name: Paenibacillus hemerocallicola Kim et al. 2015
@ref: 67770
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Paenibacillaceae
genus: Paenibacillus
species: Paenibacillus hemerocallicola
full scientific name: Paenibacillus hemerocallicola Kim et al. 2015
type strain: yes
Morphology
cell morphology
- @ref: 125439
- motility: yes
- confidence: 93.2
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: aerobe
- confidence: 96.2
spore formation
- @ref: 125439
- spore formation: yes
- confidence: 95.8
observation
- @ref: 67770
- observation: quinones: MK-7
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Root of day lily (Hemerocallis fulva)
- host species: Hemerocallis fulva
Sequence information
16S sequences
- @ref: 67770
- description: Paenibacillus hemerocallicola strain DLE-12 16S ribosomal RNA gene, partial sequence
- accession: JQ723718
- length: 1467
- database: nuccore
- NCBI tax ID: 1172614
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paenibacillus hemerocallicola strain KCTC 33185 | 1172614.3 | wgs | patric | 1172614 |
| 66792 | Paenibacillus hemerocallicola KCTC 33185 | 2925326138 | draft | img | 1172614 |
| 67770 | Paenibacillus hemerocallicola KCTC 33185 | GCA_006265175 | scaffold | ncbi | 1172614 |
GC content
- @ref: 67770
- GC-content: 55.2
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 96.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 89.1 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 93.2 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 95.8 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 59.22 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 93.487 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 88.677 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 72.382 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 95.795 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 85.18 | no |
External links
@ref: 67770
culture collection no.: JCM 19572, KCTC 33185
literature
- topic: Phylogeny
- Pubmed-ID: 25977281
- title: Paenibacillus oenotherae sp. nov. and Paenibacillus hemerocallicola sp. nov., isolated from the roots of herbaceous plants.
- authors: Kim TS, Han JH, Joung Y, Kim SB
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.000329
- year: 2015
- mesh: Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hemerocallis/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oenothera/*microbiology, Paenibacillus/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 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 | https://github.com/GenomeNet/deepG |