Strain identifier
BacDive ID: 11586
Type strain:
Species: Paenibacillus xylanilyticus
Strain Designation: XIL14
Strain history: CIP <- 2005, CECT
NCBI tax ID(s): 248903 (species)
General
@ref: 6856
BacDive-ID: 11586
DSM-Number: 17255
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped
description: Paenibacillus xylanilyticus XIL14 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from air.
NCBI tax id
- NCBI tax id: 248903
- Matching level: species
strain history
@ref | history |
---|---|
6856 | <- E. Velázquez Pérez <- R. Rivas |
40502 | 2005, CECT |
123995 | CIP <- 2005, CECT |
doi: 10.13145/bacdive11586.20230509.8.1
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 xylanilyticus
- full scientific name: Paenibacillus xylanilyticus Rivas et al. 2005
@ref: 6856
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Paenibacillaceae
genus: Paenibacillus
species: Paenibacillus xylanilyticus
full scientific name: Paenibacillus xylanilyticus Rivas et al. 2005
strain designation: XIL14
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
31270 | positive | 3.95 µm | 1.525 µm | rod-shaped | yes |
123995 | positive | rod-shaped | yes |
colony morphology
- @ref: 123995
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6856 | CASO AGAR (MERCK 105458) (DSMZ Medium 220) | yes | https://mediadive.dsmz.de/medium/220 | Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 Distilled water |
40502 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123995 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6856 | positive | growth | 30 | mesophilic |
31270 | positive | optimum | 37 | mesophilic |
40502 | positive | growth | 30 | mesophilic |
culture pH
- @ref: 31270
- ability: positive
- type: optimum
- pH: 7
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31270 | facultative anaerobe |
123995 | facultative anaerobe |
spore formation
- @ref: 31270
- spore formation: yes
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31270 | 22599 | arabinose | + | carbon source |
31270 | 17234 | glucose | + | carbon source |
31270 | 17306 | maltose | + | carbon source |
31270 | 29864 | mannitol | + | carbon source |
31270 | 37684 | mannose | + | carbon source |
31270 | 28053 | melibiose | + | carbon source |
31270 | 506227 | N-acetylglucosamine | + | carbon source |
31270 | 26546 | rhamnose | + | carbon source |
31270 | 17992 | sucrose | + | carbon source |
31270 | 18222 | xylose | + | carbon source |
31270 | 17632 | nitrate | + | reduction |
68371 | Potassium 5-ketogluconate | + | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | + | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | + | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | + | builds acid from |
68371 | 28066 | gentiobiose | + | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | + | builds acid from |
68371 | 28017 | starch | + | builds acid from |
68371 | 16634 | raffinose | + | builds acid from |
68371 | 6731 | melezitose | + | builds acid from |
68371 | 15443 | inulin | + | builds acid from |
68371 | 27082 | trehalose | + | builds acid from |
68371 | 17992 | sucrose | + | builds acid from |
68371 | 28053 | melibiose | + | builds acid from |
68371 | 17716 | lactose | + | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17057 | cellobiose | + | builds acid from |
68371 | 17814 | salicin | + | builds acid from |
68371 | 4853 | esculin | + | builds acid from |
68371 | 18305 | arbutin | + | builds acid from |
68371 | 27613 | amygdalin | + | builds acid from |
68371 | 59640 | N-acetylglucosamine | + | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | + | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | + | builds acid from |
68371 | 16899 | D-mannitol | + | builds acid from |
68371 | 17268 | myo-inositol | + | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | + | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | + | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | + | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | + | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | + | builds acid from |
68371 | 16988 | D-ribose | + | builds acid from |
68371 | 30849 | L-arabinose | + | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | + | builds acid from |
123995 | 17632 | nitrate | + | reduction |
123995 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 123995
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
31270 | catalase | + | 1.11.1.6 |
31270 | gelatinase | + | |
123995 | oxidase | - | |
123995 | alcohol dehydrogenase | - | 1.1.1.1 |
123995 | catalase | + | 1.11.1.6 |
123995 | lysine decarboxylase | - | 4.1.1.18 |
123995 | ornithine decarboxylase | - | 4.1.1.17 |
123995 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | - | |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | + | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123995 | - | + | + | + | - | - | - | - | - | + | + | - | + | + | + | + | + | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123995 | + | - | +/- | + | + | + | - | - | + | + | + | + | + | - | + | - | + | + | +/- | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | - | + | + | - | - | - | + | - | - | + | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
6856 | air | Spain | ESP | Europe | |
123995 | Air in a research laboratory form Salamanca University | Spain | ESP | Europe | Salamanca |
isolation source categories
- Cat1: #Environmental
- Cat2: #Air
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6856 | 1 | Risk group (German classification) |
123995 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 31270
- description: Paenibacillus xylanilyticus strain XIL14 16S ribosomal RNA gene, complete sequence
- accession: AY427832
- length: 1546
- database: nuccore
- NCBI tax ID: 248903
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Paenibacillus xylanilyticus LMG 21957 | GCA_013359935 | contig | ncbi | 248903 |
66792 | Paenibacillus xylanilyticus strain LMG 21957 | 248903.5 | wgs | patric | 248903 |
GC content
- @ref: 31270
- GC-content: 50.5
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 87.244 | no |
gram-positive | yes | 81.135 | no |
anaerobic | no | 97.923 | yes |
aerobic | yes | 88.015 | no |
halophile | no | 79.735 | no |
spore-forming | yes | 95.826 | yes |
glucose-util | yes | 92.225 | no |
flagellated | yes | 79.861 | no |
thermophile | no | 99.733 | yes |
glucose-ferment | no | 82.79 | no |
External links
@ref: 6856
culture collection no.: DSM 17255, CECT 5839, LMG 21957, CIP 109086
straininfo link
- @ref: 80814
- straininfo: 99862
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15653909 | Paenibacillus xylanilyticus sp. nov., an airborne xylanolytic bacterium. | Rivas R, Mateos PF, Martinez-Molina E, Velazquez E | Int J Syst Evol Microbiol | 10.1099/ijs.0.63173-0 | 2005 | *Air Microbiology, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Gram-Positive Endospore-Forming Rods/chemistry/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/genetics, Xylans/*metabolism | Genetics |
Phylogeny | 18319478 | Paenibacillus provencensis sp. nov., isolated from human cerebrospinal fluid, and Paenibacillus urinalis sp. nov., isolated from human urine. | Roux V, Fenner L, Raoult D | Int J Syst Evol Microbiol | 10.1099/ijs.0.65228-0 | 2008 | Adult, Bacterial Typing Techniques, Cerebrospinal Fluid/*microbiology, DNA, Bacterial/analysis, Fatty Acids/analysis, Female, Genes, rRNA, Genotype, Gram-Negative Bacteria/*classification/genetics/*isolation & purification, Gram-Negative Bacterial Infections/*microbiology, Humans, Male, Middle Aged, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Urine/*microbiology | Genetics |
Phylogeny | 26063444 | Paenibacillus enshidis sp. nov., Isolated from the Nodules of Robinia pseudoacacia L. | Yin J, He D, Li X, Zeng X, Tian M, Cheng G | Curr Microbiol | 10.1007/s00284-015-0854-2 | 2015 | Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Locomotion, Microscopy, Electron, Scanning, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/*isolation & purification/physiology, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Robinia/*microbiology, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Spores, Bacterial/cytology, Vitamin K 2/analysis | Transcriptome |
Phylogeny | 28177800 | Diversity of Bacillus-like bacterial community in the sediments of the Bamenwan mangrove wetland in Hainan, China. | Liu M, Cui Y, Chen Y, Lin X, Huang H, Bao S | Can J Microbiol | 10.1139/cjm-2016-0449 | 2016 | Animals, Bacillaceae/classification/*isolation & purification/physiology, *Biodiversity, China, DNA, Bacterial, DNA, Ribosomal/genetics, Geologic Sediments/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Staphylococcus aureus, *Water Microbiology, *Wetlands | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
6856 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17255) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17255 | |||
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 | |||
31270 | 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 | 27590 | 28776041 | |
40502 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6788 | ||||
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) | |||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
80814 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID99862.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123995 | Curators of the CIP | Collection of Institut Pasteur (CIP 109086) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109086 |