Strain identifier
BacDive ID: 1542
Type strain: 
Species: Lysinibacillus macroides
Strain Designation: 1741-1b
Strain history: IAM 15292 <-- LMG 18474 <-- N. Logan <-- DSM 54 <-- SAG; 1741-1b <-- E. Pringsheim.
NCBI tax ID(s): 33935 (species)
version 9.1 (current version)
General
@ref: 2045
BacDive-ID: 1542
DSM-Number: 54
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-variable, motile, rod-shaped
description: Lysinibacillus macroides 1741-1b is an aerobe, spore-forming, Gram-variable bacterium that was isolated from cow dung.
NCBI tax id
- NCBI tax id: 33935
- Matching level: species
strain history
| @ref | history |
|---|---|
| 2045 | <- SAG, 1741-1b <- E. Pringsheim |
| 67770 | IAM 15292 <-- LMG 18474 <-- N. Logan <-- DSM 54 <-- SAG; 1741-1b <-- E. Pringsheim. |
doi: 10.13145/bacdive1542.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Caryophanaceae
- genus: Lysinibacillus
- species: Lysinibacillus macroides
- full scientific name: Lysinibacillus macroides (ex Bennett and Canale-Parola 1965) Coorevits et al. 2012
@ref: 2045
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Caryophanaceae
genus: Lysinibacillus
species: Lysinibacillus macroides
full scientific name: Lysinibacillus macroides (ex Bennett and Canale-Parola 1965) Coorevits et al. 2012
strain designation: 1741-1b
type strain: yes
Morphology
cell morphology
- @ref: 29993
- gram stain: variable
- cell length: 03-05 µm
- cell width: 0.9-1.1 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 29993
- production: yes
Culture and growth conditions
culture medium
- @ref: 2045
- 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 | growth | type | temperature |
|---|---|---|---|
| 2045 | positive | growth | 30 |
| 29993 | positive | growth | 20-45 |
| 29993 | positive | optimum | 30 |
| 67770 | positive | growth | 30 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29993 | positive | growth | 07-09 | alkaliphile |
| 29993 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
- @ref: 29993
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 29993 | yes | |
| 69480 | yes | 92.664 |
compound production
- @ref: 2045
- compound: protein
halophily
- @ref: 29993
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-4 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29993 | 16947 | citrate | + | carbon source |
| 29993 | 24265 | gluconate | + | carbon source |
| 29993 | 17272 | propionate | + | carbon source |
| 29993 | 16634 | raffinose | + | carbon source |
enzymes
- @ref: 29993
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 2045 | cow dung | ||||
| 67770 | Cow dung | Cambridge | United Kingdom | GBR | Europe |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_2355.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_503;97_577;98_664;99_2355&stattab=map
- Last taxonomy: Lysinibacillus
- 16S sequence: AJ628749
- Sequence Identity:
- Total samples: 804
- soil counts: 226
- aquatic counts: 68
- animal counts: 485
- plant counts: 25
Safety information
risk assessment
- @ref: 2045
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Bacillus macroides clone Bmac2 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | AF478088 | 477 | nuccore | 33935 |
| 2045 | Bacillus macroides partial 16S rRNA gene, strain LMG 18474 | AJ628749 | 1504 | nuccore | 33935 |
| 124043 | Lysinibacillus macroides strain LMG 18474 16S ribosomal RNA gene, partial sequence. | ON754036 | 1504 | nuccore | 33935 |
| 124043 | Lysinibacillus macroides strain LMG 18474 16S ribosomal RNA gene, partial sequence. | OR186663 | 1400 | nuccore | 33935 |
Genome sequences
- @ref: 67770
- description: Lysinibacillus macroides DSM 54
- accession: GCA_001281525
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 33935
GC content
| @ref | GC-content | method |
|---|---|---|
| 2045 | 38.2 | high performance liquid chromatography (HPLC) |
| 29993 | 38.2 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 72.327 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.933 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 81.349 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 92.664 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 92.346 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 84.742 | no |
External links
@ref: 2045
culture collection no.: DSM 54, ATCC 12905, LMG 18474, SAG 1741-1b, JCM 21742, IAM 15292, LMG 18473
straininfo link
- @ref: 71187
- straininfo: 12119
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21724959 | Lysinibacillus macroides sp. nov., nom. rev. | Coorevits A, Dinsdale AE, Heyrman J, Schumann P, Van Landschoot A, Logan NA, De Vos P | Int J Syst Evol Microbiol | 10.1099/ijs.0.027995-0 | 2011 | Animals, Bacillaceae/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Cattle, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Feces/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| Phylogeny | 24385367 | Lysinibacillus jejuensis sp. nov., isolated from swinery waste. | Kim JY, Park SH, Oh DC, Kim YJ | J Microbiol | 10.1007/s12275-013-2500-7 | 2013 | Animals, Bacillaceae/*classification/genetics/*isolation & purification/metabolism, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, Republic of Korea, Sewage/*microbiology, Swine | Metabolism |
| Phylogeny | 26333922 | Lysinibacillus cresolivorans sp. nov., an m-cresol-degrading bacterium isolated from coking wastewater treatment aerobic sludge. | Ren Y, Chen SY, Yao HY, Deng LJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000569 | 2015 | Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, *Coke, Cresols/*metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Vitamin K 2/analogs & derivatives/chemistry, Waste Water/*microbiology | Transcriptome |
| Genetics | 26543111 | Genome Sequence of Type Strain Lysinibacillus macroides DSM 54T. | Liu GH, Liu B, Wang JP, Che JM, Chen QQ, Chen Z, Ge CB | Genome Announc | 10.1128/genomeA.01271-15 | 2015 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 2045 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 54) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-54 | ||||
| 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 | ||
| 29993 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28776041 | 26359 | ||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
| 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) | ||||
| 71187 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID12119.1 | StrainInfo: A central database for resolving microbial strain identifiers | ||||
| 124043 | Dr. Isabel Schober, Dr. Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy |