Paenibacillus typhae (DSM 25190, CGMCC 1.11012, CIP 110618)

Name: Paenibacillus typhae (DSM 25190, CGMCC 1.11012, CIP 110618)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23180

Type strain

Strain Designation xj7

Culture col. no. DSM 25190 CGMCC 1.11012 CIP 110618 xj7

NCBI tax ID(s) 1174501

Special Collections DSMZ CIP Literature strains

History DSMZ <- Y. Li, Capital Normal University, College of Life Science, Beijing, China; xj7 <- Y. Li and Q. Liu CIP <- 2013, DSMZ <- Y. Li, College of Life Science, Beijing, China: strain xj7

Links

Paenibacillus typhae xj7 is a facultative anaerobe, spore-forming, Gram-positive bacterium that was isolated from roots of narrow-leaved cattail L..

spore-forming Gram-positive motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 387502

CGMCC 1.11012,DSM 25190,CIP 110618

@ref 20215

Last LPSN update 2026-05-29 08:30:23

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Paenibacillaceae

Genus Paenibacillus

Species Paenibacillus typhae

Full scientific name Paenibacillus typhae Kong et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30710	positive	6.25 µm	0.4 µm	rod-shaped
125439					90.033
123701	positive			rod-shaped

Pigmentation

30710

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
19265	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
19265	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
123701	CIP Medium 72	Medium recipe at CIP
123701	CIP Medium 29	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
19265	positive	growth	28
30710	positive	growth	10-40
30710	positive	optimum	29

Culture pH

@ref	Ability	Type	PH	PH range
30710	positive	optimum	7.25
30710	positive	growth	06-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30710	facultative anaerobe
125439	facultative anaerobe	93.33

Spore formation

@ref	Spore formation	Confidence
30710
125439		95.203
125438		91.987

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30710	NaCl	positive	growth	0-3 %
30710	NaCl	positive	optimum	0.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30710	40585 ChEBI	alpha-cyclodextrin	+	carbon source
30710	17057 ChEBI	cellobiose	+	carbon source
30710	23652 ChEBI	dextrin	+	carbon source
30710	4853 ChEBI	esculin	+	hydrolysis
30710	28757 ChEBI	fructose	+	carbon source
30710	28260 ChEBI	galactose	+	carbon source
30710	17234 ChEBI	glucose	+	carbon source
30710	17754 ChEBI	glycerol	+	carbon source
30710	17596 ChEBI	inosine	+	carbon source
30710	17716 ChEBI	lactose	+	carbon source
30710	17306 ChEBI	maltose	+	carbon source
30710	37684 ChEBI	mannose	+	carbon source
30710	28053 ChEBI	melibiose	+	carbon source
30710	37657 ChEBI	methyl D-glucoside	+	carbon source
30710	17632 ChEBI	nitrate	+	reduction
30710	15361 ChEBI	pyruvate	+	carbon source
30710	16634 ChEBI	raffinose	+	carbon source
30710	17814 ChEBI	salicin	+	carbon source
30710	30911 ChEBI	sorbitol	+	carbon source
30710	17992 ChEBI	sucrose	+	carbon source
30710	27082 ChEBI	trehalose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30710	acid phosphatase	+	3.1.3.2
30710	alkaline phosphatase	+	3.1.3.1
30710	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
19265	roots of narrow-leaved cattail (Typha angustifolia) L.	Typha angustifolia	Beijing, Cuihu Wetland Park (106° 10' 55.27'' E 40° 05' 59.24'' N)	China	CHN	Asia	40.411	115.857 40.411/115.857
123701	Plant, Roots of narrow-leaved cattail, Typha angustifolia		Cuihu Wetland Park, Beijing	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence JN256679 (>99% sequence identity) for Paenibacillus typhae from Microbeatlas

Aquatic Samples	76
Soil Samples	186
Animal Samples	152
Plant Samples	121
Total Samples	535

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
19265	1	Risk group (German classification) According to TRBA 466
123701	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2667527451 annotated assembly for Paenibacillus typhae CGMCC 1.11012	scaffold	GCA_900099765	1174501.3	2667527451	1174501	58.54

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
19265	Paenibacillus typhae strain xj7 16S ribosomal RNA gene, partial sequence	JN256679	1509		1174501

GC content

@ref	GC-content (mol%)	Method
19265	47.9	thermal denaturation, midpoint method (Tm)
30710	47.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2667527451 annotated assembly for Paenibacillus typhae CGMCC 1.11012
NCBI: GCA_900099765

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	93.33	no
125439	gram_stain	BacteriaNetⓘ	variable	75.78	no
125439	motility	BacteriaNetⓘ	yes	90.03	no
125439	spore_formation	BacteriaNetⓘ	yes	95.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paenibacillus typhae CGMCC 1.11012
NCBI: GCA_900099765.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	68.78	yes
125438	anaerobic	anaerobicⓘ	no	95.12	yes
125438	aerobic	aerobicⓘ	no	59.93	yes
125438	spore-forming	spore-formingⓘ	yes	91.99	yes
125438	thermophilic	thermophileⓘ	no	96.46	yes
125438	flagellated	motile2+ⓘ	yes	83.54	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus tianjinensis sp. nov., isolated from corridor air.	Liu H, Lu L, Wang S, Yu M, Cao X, Tang S, Bai H, Ma S, Liu R, Liu R, Jiang X, Yao S, Shao J	Int J Syst Evol Microbiol	10.1099/ijsem.0.005158	2021
Phylogeny	Paenibacillus albidus sp. nov., isolated from grassland soil.	Zhuang J, Xin D, Zhang YQ, Guo J, Zhang J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002356	2017
Phylogeny	Paenibacillus typhae sp. nov., isolated from roots of Typha angustifolia L.	Kong BH, Liu QF, Liu M, Liu Y, Liu L, Li CL, Yu R, Li YH	Int J Syst Evol Microbiol	10.1099/ijs.0.042747-0	2012

References

#19265	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25190
#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#27041	IJSEM 1037 2013 ( DOI 10.1099/ijs.0.042747-0 , PubMed 22707528 )
#30710	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27041
#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) .
#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.: MicrobeAtlas 1.0 beta .
#123701	Collection of Institut Pasteur ; Curators of the CIP; CIP 110618
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Paenibacillus typhae (DSM 25190, CGMCC 1.11012, CIP 110618)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900099765

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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