Strain identifier
BacDive ID: 1252
Type strain:
Species: Halalkalibacter krulwichiae
Strain Designation: AM31D
Strain history: CIP <- 2003, JCM <- 2002, I. Yumoto: strain AM31D
NCBI tax ID(s): 1220588 (strain), 199441 (species)
General
@ref: 7441
BacDive-ID: 1252
DSM-Number: 18225
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, motile
description: Halalkalibacter krulwichiae AM31D is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1220588 | strain |
199441 | species |
strain history
@ref | history |
---|---|
7441 | <- NCIMB |
67770 | I. Yumoto AM31D. |
120507 | CIP <- 2003, JCM <- 2002, I. Yumoto: strain AM31D |
doi: 10.13145/bacdive1252.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Halalkalibacter
- species: Halalkalibacter krulwichiae
- full scientific name: Halalkalibacter krulwichiae (Yumoto et al. 2003) Joshi et al. 2022
synonyms
@ref synonym 20215 Alkalihalobacillus krulwichiae 20215 Bacillus krulwichiae
@ref: 7441
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Bacillaceae
genus: Halalkalibacter
species: Halalkalibacter krulwichiae
full scientific name: Halalkalibacter krulwichiae (Yumoto et al. 2003) Joshi et al. 2022
strain designation: AM31D
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 92.817 | ||
69480 | 100 | positive | ||
120507 | yes | positive | rod-shaped |
colony morphology
- @ref: 120507
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7441 | ALKALINE NUTRIENT AGAR (DSMZ Medium 31) | yes | https://mediadive.dsmz.de/medium/31 | Name: ALKALINE NUTRIENT AGAR (DSMZ Medium 31) Composition: Agar 15.0 g/l Na2CO3 anhydrous 5.3 g/l Peptone 5.0 g/l NaHCO3 4.2 g/l Meat extract 3.0 g/l Distilled water |
32895 | MEDIUM 291 - for Bacillus horti | yes | Distilled water make up to (900.000 ml);Magnesium sulphate heptahydrate (0.200 g);Agar (15.000 g);Glucose (10.000 g);Yeast extract (5.000 g);Potassium di-hydrogen phosphate (1.000 g);Polypeptone (5.000 g);Sodium carbonate solution - M00442 (100.000 ml) | |
120507 | CIP Medium 291 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=291 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7441 | positive | growth | 30 | mesophilic |
32895 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 27 | mesophilic |
120507 | positive | growth | 22-45 | |
120507 | no | growth | 10 | psychrophilic |
120507 | no | growth | 55 | thermophilic |
culture pH
- @ref: 120507
- ability: no
- type: growth
- pH: 6
Physiology and metabolism
oxygen tolerance
- @ref: 120507
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
120507 | NaCl | no | growth | 0 % |
120507 | NaCl | no | growth | 2 % |
120507 | NaCl | no | growth | 4 % |
120507 | NaCl | no | growth | 6 % |
120507 | NaCl | no | growth | 8 % |
120507 | NaCl | no | growth | 10 % |
observation
- @ref: 67770
- observation: quinones: MK-7, MK-6, MK-5
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
120507 | 16947 | citrate | - | carbon source |
120507 | 4853 | esculin | - | hydrolysis |
120507 | 606565 | hippurate | - | hydrolysis |
120507 | 17632 | nitrate | + | reduction |
120507 | 16301 | nitrite | - | reduction |
120507 | 17632 | nitrate | - | respiration |
metabolite production
- @ref: 120507
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
120507 | 15688 | acetoin | - | |
120507 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
120507 | oxidase | - | |
120507 | beta-galactosidase | - | 3.2.1.23 |
120507 | alcohol dehydrogenase | - | 1.1.1.1 |
120507 | gelatinase | - | |
120507 | amylase | - | |
120507 | DNase | - | |
120507 | caseinase | - | 3.4.21.50 |
120507 | catalase | + | 1.11.1.6 |
120507 | tween esterase | - | |
120507 | gamma-glutamyltransferase | + | 2.3.2.2 |
120507 | lecithinase | - | |
120507 | lipase | - | |
120507 | lysine decarboxylase | - | 4.1.1.18 |
120507 | ornithine decarboxylase | - | 4.1.1.17 |
120507 | urease | - | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120507 | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
7441 | soil | Ibaraki, Tsukuba | Japan | JPN | Asia |
67770 | Soil sample obtained from Tsukuba | Ibaraki Pref. | Japan | JPN | Asia |
120507 | Environment, Soil | Tsukuba, Ibaraki | Japan | JPN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1542.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_880;97_1028;98_1217;99_1542&stattab=map
- Last taxonomy: Alkalihalobacillus krulwichiae
- 16S sequence: AB681754
- Sequence Identity:
- Total samples: 97
- soil counts: 34
- aquatic counts: 14
- animal counts: 40
- plant counts: 9
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7441 | 1 | Risk group (German classification) |
120507 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
7441 | Bacillus krulwichiae gene for 16S rRNA, partial sequence | AB086897 | 1507 | ena | 199441 |
67770 | Bacillus krulwichiae gene for 16S rRNA, partial sequence, strain: NBRC 102362 | AB681754 | 1412 | ena | 199441 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Halalkalibacter krulwichiae AM31D | GCA_002109385 | complete | ncbi | 199441 |
66792 | Bacillus krulwichiae NBRC 102362 | 1220588.3 | wgs | patric | 1220588 |
66792 | Bacillus krulwichiae NBRC 102362 | 2731957674 | draft | img | 1220588 |
66792 | Bacillus krulwichiae NBRC 102362 | 2773857802 | complete | img | 1220588 |
67770 | Halalkalibacter krulwichiae NBRC 102362 | GCA_001591945 | contig | ncbi | 1220588 |
GC content
@ref | GC-content | method |
---|---|---|
7441 | 41.5 | |
67770 | 41.5 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
- trait: spore-forming
- prediction: yes
- confidence: 100
- training_data: no
External links
@ref: 7441
culture collection no.: DSM 18225, IAM 15000, JCM 11691, NCIMB 13904, CIP 108137, NBRC 102362
straininfo link
- @ref: 70908
- straininfo: 127980
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 13130043 | Bacillus krulwichiae sp. nov., a halotolerant obligate alkaliphile that utilizes benzoate and m-hydroxybenzoate. | Yumoto I, Yamaga S, Sogabe Y, Nodasaka Y, Matsuyama H, Nakajima K, Suemori A | Int J Syst Evol Microbiol | 10.1099/ijs.0.02596-0 | 2003 | Bacillus/*classification/genetics/isolation & purification/*metabolism, Benzoates/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Hydroxybenzoates/metabolism, Japan, Microscopy, Electron, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sodium Chloride, Soil Microbiology, Vitamin K 2/analysis | Metabolism |
Phylogeny | 20833886 | Bacillus alkalisediminis sp. nov., an alkaliphilic and moderately halophilic bacterium isolated from sediment of extremely shallow soda ponds. | Borsodi AK, Pollak B, Keki Z, Rusznyak A, Kovacs AL, Sproer C, Schumann P, Marialigeti K, Toth EM | Int J Syst Evol Microbiol | 10.1099/ijs.0.019489-0 | 2010 | Alkalies/*metabolism, Bacillus/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism, *Water Microbiology | Metabolism |
Metabolism | 31126948 | A Pathway for Isethionate Dissimilation in Bacillus krulwichiae. | Tong Y, Wei Y, Hu Y, Ang EL, Zhao H, Zhang Y | Appl Environ Microbiol | 10.1128/AEM.00793-19 | 2019 | Acetaldehyde/*analogs & derivatives/metabolism, Acetyltransferases/*genetics, Bacillus/*metabolism, Bacterial Proteins/*genetics, Isethionic Acid/*metabolism, Multigene Family | |
Enzymology | 34021568 | Molecular and biochemical characteristics of inulosucrase InuBK from Alkalihalobacillus krulwichiae JCM 11691. | Yokoi KJ, Tsutsui S, Arakawa GY, Takaba M, Fujii K, Kaneko S | Biosci Biotechnol Biochem | 10.1093/bbb/zbab094 | 2021 | Bacillaceae/*enzymology/genetics, Chromatography, High Pressure Liquid/methods, Cloning, Molecular, Culture Media, Genes, Bacterial, Hexosyltransferases/genetics/isolation & purification/*metabolism, Inulin/biosynthesis, Magnetic Resonance Spectroscopy/methods, Molecular Weight, Phylogeny, Temperature | Phylogeny |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7441 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18225) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18225 | |||
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 | |||
32895 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5726 | ||||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
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 | |||
70908 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID127980.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120507 | Curators of the CIP | Collection of Institut Pasteur (CIP 108137) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108137 |