Name: Paenibacillus albidus Q4-3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158574

Type strain:

Species: Paenibacillus albidus

Strain Designation: Q4-3

Culture col. no.: CGMCC 1.16134, KCTC 33911, KCTC 43225, CIP 111608

Strain history: CIP <- 2018, J. Zhang, Beijing Inst. of Technol., Beijing, China: strain Q4-3

NCBI tax ID(s): 2041023 (species)

Section

Paenibacillus albidus Q4-3 is a facultative anaerobe, spore-forming, Gram-positive bacterium that forms circular colonies and was isolated from soil sample.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
facultative anaerobe
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 albidus**
	Full Scientific Name (LPSN)	Paenibacillus albidus Zhuang et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #65279]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #116190]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #65279]	Cell length	4-4.5 µm

[Ref.: #65279]	Cell width	0.8-1 µm

[Ref.: #65279]	Cell shape	rod-shaped
[Ref.: #116190]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #65279]	Motility	yes
[Ref.: #116190]	Motility	no
[Ref.: #67771]	Motility	yes

[Ref.: #65279]	Flagellum arrangement	peritrichous
[Ref.: #67771]	Flagellum arrangement	peritrichous

[Ref.: #65279]	Colony size	1-1.5 mm
[Ref.: #65279]	Colony color	white
[Ref.: #65279]	Colony shape	circular
[Ref.: #65279]	Incubation period	2 days
[Ref.: #65279]	Cultivation medium used	tryptic soy agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65279]

Culture medium

tryptic soy agar

[Ref.: #65279]

Culture medium growth

[Ref.: #116190]

Culture medium

CIP Medium 72

[Ref.: #116190]

Culture medium growth

[Ref.: #116190]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #65279]	growth	4-37 °C
[Ref.: #65279]	optimum	28-30 °C
[Ref.: #67771]	growth	28-30 °C

[Ref.: #65279]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65279]			optimum	7.5
[Ref.: #65279]			growth	6-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65279]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	facultative anaerobe

[Ref.: #65279]	Spore description	subterminal endospores in swollen sporangium
[Ref.: #65279]	Type of spore	endospore
[Ref.: #65279]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65279]		NaCl		growth	0-3	%(w/v)
[Ref.: #65279]		NaCl		optimum	1	%(w/v)

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65279]	acetylene ChEBI	+	reduction
[Ref.: #65279]	adipate ChEBI	-	assimilation
[Ref.: #65279]	amygdalin ChEBI	+	builds acid from
[Ref.: #65279]	arbutin ChEBI	+	builds acid from
[Ref.: #65279]	casein	-	hydrolysis
[Ref.: #65279]	cellobiose ChEBI	+	builds acid from
[Ref.: #65279]	citrate ChEBI	-	carbon source
[Ref.: #65279]	D-arabinose ChEBI	+	builds acid from
[Ref.: #65279]	D-arabitol ChEBI	-	builds acid from
[Ref.: #65279]	D-fructose ChEBI	+	builds acid from
[Ref.: #65279]	D-fucose ChEBI	-	builds acid from
[Ref.: #65279]	D-galactose ChEBI	+	builds acid from
[Ref.: #65279]	D-glucose ChEBI	+	assimilation
[Ref.: #65279]	D-glucose ChEBI	+	builds acid from
[Ref.: #65279]	D-lyxose ChEBI	-	builds acid from
[Ref.: #65279]	D-mannitol ChEBI	+	assimilation
[Ref.: #65279]	D-mannitol ChEBI	+	builds acid from
[Ref.: #65279]	D-mannose ChEBI	-	assimilation
[Ref.: #65279]	D-mannose ChEBI	+	builds acid from
[Ref.: #65279]	D-ribose ChEBI	+	builds acid from
[Ref.: #65279]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #65279]	D-tagatose ChEBI	-	builds acid from
[Ref.: #65279]	D-xylose ChEBI	+	builds acid from
[Ref.: #65279]	decanoate ChEBI	-	assimilation
[Ref.: #65279]	erythritol ChEBI	-	builds acid from
[Ref.: #65279]	esculin ChEBI	+	hydrolysis
[Ref.: #65279]	esculin ferric citrate	+	builds acid from
[Ref.: #65279]	galactitol ChEBI	-	builds acid from
[Ref.: #65279]	gelatin ChEBI	-	hydrolysis
[Ref.: #65279]	gentiobiose ChEBI	+	builds acid from
[Ref.: #65279]	glucose ChEBI	+	fermentation
[Ref.: #65279]	glycerol ChEBI	+	builds acid from
[Ref.: #65279]	glycogen ChEBI	+	builds acid from
[Ref.: #65279]	inulin ChEBI	+	builds acid from
[Ref.: #65279]	L-arabinose ChEBI	-	assimilation
[Ref.: #65279]	L-arabinose ChEBI	+	builds acid from
[Ref.: #65279]	L-arabitol ChEBI	-	builds acid from
[Ref.: #65279]	L-fucose ChEBI	-	builds acid from
[Ref.: #65279]	L-rhamnose ChEBI	+	builds acid from
[Ref.: #65279]	L-sorbose ChEBI	-	builds acid from
[Ref.: #65279]	L-xylose ChEBI	+	builds acid from
[Ref.: #65279]	lactose ChEBI	+	builds acid from
[Ref.: #65279]	malate ChEBI	-	assimilation
[Ref.: #65279]	maltose ChEBI	+	assimilation
[Ref.: #65279]	maltose ChEBI	+	builds acid from
[Ref.: #65279]	melezitose ChEBI	+	builds acid from
[Ref.: #65279]	melibiose ChEBI	+	builds acid from
[Ref.: #65279]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #65279]	methyl alpha-D-mannoside ChEBI	+	builds acid from
[Ref.: #65279]	methyl beta-D-xylopyranoside ChEBI	+	builds acid from
[Ref.: #65279]	myo-inositol ChEBI	-	builds acid from
[Ref.: #65279]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #65279]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #65279]	nitrate ChEBI	+	reduction
[Ref.: #65279]	phenylacetate ChEBI	-	assimilation
[Ref.: #65279]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #65279]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #65279]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #65279]	potassium gluconate ChEBI	+	assimilation
[Ref.: #65279]	raffinose ChEBI	+	builds acid from
[Ref.: #65279]	ribitol ChEBI	+	builds acid from
[Ref.: #65279]	salicin ChEBI	+	builds acid from
[Ref.: #65279]	sodium citrate ChEBI	-	assimilation
[Ref.: #65279]	starch ChEBI	+	builds acid from
[Ref.: #65279]	starch ChEBI	+	hydrolysis
[Ref.: #65279]	sucrose ChEBI	+	builds acid from
[Ref.: #65279]	trehalose ChEBI	+	builds acid from
[Ref.: #65279]	turanose ChEBI	-	builds acid from
[Ref.: #65279]	tween 20 ChEBI	-	hydrolysis
[Ref.: #65279]	tween 80 ChEBI	-	hydrolysis
[Ref.: #65279]	xylitol ChEBI	+	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #65279]		acetoin ChEBI	no

	Metabolite	Voges-Proskauer-test	Methylred-test	Citrate test
[Ref.: #65279]	acetoin ChEBI	-
[Ref.: #65279]	citrate ChEBI			-
[Ref.: #65279]	glucose ChEBI		+

	Enzyme	Enzyme activity	EC number
[Ref.: #65279]	acid phosphatase	-	3.1.3.2
[Ref.: #65279]	alkaline phosphatase	-	3.1.3.1
[Ref.: #65279]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65279]	alpha-galactosidase	+	3.2.1.22
[Ref.: #65279]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65279]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65279]	arginine dihydrolase	-	3.5.3.6
[Ref.: #65279]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #65279]	beta-galactosidase	+	3.2.1.23
[Ref.: #65279]	beta-glucosidase	-	3.2.1.21
[Ref.: #65279]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65279]	catalase	-	1.11.1.6
[Ref.: #65279]	cystine arylamidase	-	3.4.11.3
[Ref.: #65279]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65279]	esterase (C 4)	+
[Ref.: #65279]	esterase Lipase (C 8)	-
[Ref.: #65279]	gelatinase	-
[Ref.: #65279]	leucine arylamidase	+	3.4.11.1
[Ref.: #65279]	lipase (C 14)	-
[Ref.: #65279]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #65279]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65279]	nitrate reductase	+	1.7.99.4
[Ref.: #65279]	trypsin	-	3.4.21.4
[Ref.: #65279]	urease	-	3.5.1.5
[Ref.: #65279]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65279]

Fatty acid	Percentage
C15:0 anteiso	55.5
C16:0 iso	14.5
C16:0	13.3
C17:0 anteiso	4.9
C15:0 iso	3.1
C14:0 iso	2.9
C17:0 iso	2.5
C14:0	1.1
anteiso-C18?:?0/C18?:?2ω6, 9c	0.5
C16:1ω7c and/or C16:1ω6c	0.3

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

[Ref.: #65279]	Sample type/isolated from	soil sample
[Ref.: #65279]	Geographic location (country and/or sea, region)	Qilian grassland, Qinghai province
[Ref.: #65279]	Country	China
[Ref.: #65279]	Country ISO 3 Code	CHN
[Ref.: #65279]	Continent	Asia
[Ref.: #65279]	Geographic location	37.9847°/100.8250°
[Ref.: #65279]	Enrichment culture	starch casein medium
[Ref.: #65279]	Enrichment culture composition	containing 10 g soluble starch, 0.3 g casein enzymatic hydrolysate, 2 g KNO3, 0.05 g MgSO4, 2 g K2HPO4, 0.02 g CaCO3, 10 mg FeSO4 and 20 g agar per litre of distilled water, pH 8.0
[Ref.: #65279]	Enrichment culture duration	3 days
[Ref.: #65279]	Enrichment culture temperature	28 ̊C
[Ref.: #65279]	Isolation/enrichment procedure	soil sample (5 g) was suspended in 45 ml sterile water and stirred for 30 min. Soil particles were allowed to sediment, the liquid was spread by the standard dilution-plating technique on starch casein medium. After 3 days of incubation at 28°C, representative colonies were picked and purified by streaking repeatedly.

[Ref.: #67771]	Sample type/isolated from	From soil sample, Qilian grassland
[Ref.: #67771]	Geographic location (country and/or sea, region)	Qinghai province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia

[Ref.: #116190]	Sample type/isolated from	Environment, Soil
[Ref.: #116190]	Geographic location (country and/or sea, region)	Qilian grassland, Qinghai
[Ref.: #116190]	Country	China
[Ref.: #116190]	Country ISO 3 Code	CHN
[Ref.: #116190]	Continent	Asia
[Ref.: #116190]	Isolation date	2016
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #116190]

Biosafety level

Risk group (French classification)

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.: #65279]	16S rRNA gene sequence	KY674517		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paenibacillus albidus CGMCC 1.16134	GCA_014644435	contig	GenBank	2041023 tax ID	*
[Ref.: #66792]	Paenibacillus albidus strain CGMCC 1.16134	2041023.3	wgs	PATRIC	2041023 tax ID	*

[Ref.: #65279]	GC-content	48.6 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	48.6 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 albidus strain CGMCC 1.16134 PATRIC: 2041023.5
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenibacillus albidus strain CGMCC 1.16134 PATRIC: 2041023.3
[Ref.: #69480]	motile	yes	88.598	no
[Ref.: #69480]	gram-positive	yes	90.238	yes
[Ref.: #69480]	anaerobic	no	97.859	no
[Ref.: #69480]	aerobic	yes	82.23	no
[Ref.: #69480]	halophile	no	94.016	no
[Ref.: #69480]	spore-forming	yes	97.123	yes
[Ref.: #69480]	glucose-util	yes	89.232	yes
[Ref.: #69480]	flagellated	yes	87.053	yes
[Ref.: #69480]	thermophile	no	99.802	no
[Ref.: #69480]	glucose-ferment	no	68.591	yes

Availability in culture collections External links

[Ref.: #65279]

Culture collection no.

CGMCC 1.16134, KCTC 33911, KCTC 43225, CIP 111608

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 bryophyllum sp. nov., a nitrogen-fixing species isolated from Bryophyllum pinnatum.	Liu L, Yuan T, Yang F, Liu Z, Yang M, Peng G, Tan Z	Antonie Van Leeuwenhoek	10.1007/s10482-018-1117-6	2018	*
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	*

References

#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 )

#65279

Junli Zhuang, Di Xin, Yu-Qin Zhang, Jingnan Guo, Jianli Zhang: Paenibacillus albidus sp. nov., isolated from grassland soil. IJSEM 67: 4685 - 4691 2017 ( DOI 10.1099/ijsem.0.002356 , PubMed 28950930 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#116190 Collection of Institut Pasteur ; Curators of the CIP; CIP 111608
* These data were automatically processed and therefore are not curated

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Paenibacillus albidus strain CGMCC 1.16134

Paenibacillus albidus strain CGMCC 1.16134

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