Name: Paenibacillus catalpae D75
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23182

Type strain:

Species: Paenibacillus catalpae

Strain Designation: D75

Culture col. no.: DSM 24714, CGMCC 1.10784

Strain history: <- Y. Ma, Beijing Forestry Univ., College Biological Scs. and Biotechnol.; D75 <- Y. Ma and J. Zhang

NCBI tax ID(s): 1045775 (species)

SI-ID 404930

DSM 24714

Section

Paenibacillus catalpae D75 is an aerobe, spore-forming, mesophilic bacterium that was isolated from rhizosphere soil of Catalpa speciosa.

Gram-positive
motile
rod-shaped
spore-forming
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Paenibacillaceae*
	Genus	*Paenibacillus*
	Species	**Paenibacillus catalpae**
	Full Scientific Name (LPSN)	Paenibacillus catalpae Zhang et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30629]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30629]	Cell length	1.8 µm

[Ref.: #30629]	Cell width	0.65 µm

[Ref.: #30629]	Cell shape	rod-shaped

[Ref.: #30629]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.73

[Ref.: #30629]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19323]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #19323]

Culture medium growth

[Ref.: #19323]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19323]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #19323]	growth	30 °C
[Ref.: #30629]	growth	15-40 °C
[Ref.: #30629]	optimum	26.5 °C

[Ref.: #19323]	Temperature range	mesophilic
[Ref.: #30629]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30629]			optimum	7
[Ref.: #30629]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30629]

Oxygen tolerance

aerobe

[Ref.: #30629]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %99
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30629]		NaCl		growth	0-2	%
[Ref.: #30629]		NaCl		optimum	0.75	%

[Ref.: #30629]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30629]	cellobiose ChEBI	+	carbon source
[Ref.: #30629]	dextrin ChEBI	+	carbon source
[Ref.: #30629]	galactose ChEBI	+	carbon source
[Ref.: #30629]	gluconate ChEBI	+	carbon source
[Ref.: #30629]	glucose ChEBI	+	carbon source
[Ref.: #30629]	glycerol ChEBI	+	carbon source
[Ref.: #30629]	lactose ChEBI	+	carbon source
[Ref.: #30629]	malate ChEBI	+	carbon source
[Ref.: #30629]	maltose ChEBI	+	carbon source
[Ref.: #30629]	mannitol ChEBI	+	carbon source
[Ref.: #30629]	mannose ChEBI	+	carbon source
[Ref.: #30629]	melibiose ChEBI	+	carbon source
[Ref.: #30629]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #30629]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #30629]	raffinose ChEBI	+	carbon source
[Ref.: #30629]	sucrose ChEBI	+	carbon source
[Ref.: #30629]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #30629]	acid phosphatase	+	3.1.3.2
[Ref.: #30629]	alpha-galactosidase	+	3.2.1.22
[Ref.: #30629]	catalase	+	1.11.1.6
[Ref.: #30629]	urease	+	3.5.1.5

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #19323]	Sample type/isolated from	rhizosphere soil of Catalpa speciosa
[Ref.: #19323]	Host species	Catalpa speciosa
[Ref.: #19323]	Geographic location (country and/or sea, region)	Sichuan province, Mianyang
[Ref.: #19323]	Country	China
[Ref.: #19323]	Country ISO 3 Code	CHN
[Ref.: #19323]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Rhizosphere

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ657320 (>99% sequence identity) for Paenibacillus from Microbeatlas

Aquatic Samples	439
Soil Samples	4491
Animal Samples	434
Plant Samples	2361
Total Samples	7725

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #19323]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #19323]	Paenibacillus catalpae strain D75 16S ribosomal RNA gene, partial sequence	HQ657320	1509	ENA	1045775 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paenibacillus catalpae CGMCC 1.10784	GCA_900112695	scaffold	GenBank	1045775 tax ID	*
[Ref.: #66792]	Paenibacillus catalpae strain CGMCC 1.10784	1045775.4	wgs	PATRIC	1045775 tax ID	*
[Ref.: #66792]	Paenibacillus catalpae CGMCC 1.10784	2675903006	draft	JGI IMG/M	1045775 tax ID	*

[Ref.: #19323]	GC-content	51.0 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30629]	GC-content	51 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paenibacillus catalpae CGMCC 1.10784 NCBI: GCA_900112695.1
[Ref.: #69481]	spore-forming	yes	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenibacillus catalpae CGMCC 1.10784 NCBI: GCA_900112695.1
[Ref.: #69480]	motile	yes	89.637	yes
[Ref.: #69480]	flagellated	yes	84.515	no
[Ref.: #69480]	gram-positive	yes	87.111	no
[Ref.: #69480]	anaerobic	no	99.31	yes
[Ref.: #69480]	aerobic	yes	90.582	yes
[Ref.: #69480]	halophile	no	95.364	no
[Ref.: #69480]	spore-forming	yes	93.263	yes
[Ref.: #69480]	glucose-ferment	no	90.892	no
[Ref.: #69480]	thermophile	no	99.159	yes
[Ref.: #69480]	glucose-util	yes	89.974	no

Availability in culture collections External links

[Ref.: #19323]

Culture collection no.

DSM 24714, CGMCC 1.10784

[Ref.: #87414]

SI-ID 404930

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus catalpae sp. nov., isolated from the rhizosphere soil of Catalpa speciosa.	Zhang J, Wang ZT, Yu HM, Ma Y	Int J Syst Evol Microbiol	10.1099/ijs.0.040659-0	2012	*

References

#19323

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24714

#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 )

#30629

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 #26960 (see below)

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: 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: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#87414

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID404930.1 )

#26960

IJSEM 1776 2013 ( DOI 10.1099/ijs.0.040659-0 , PubMed 22941303 )

* These data were automatically processed and therefore are not curated

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Paenibacillus catalpae CGMCC 1.10784

Paenibacillus catalpae CGMCC 1.10784

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