Pseudogracilibacillus auburnensis (DSM 28556, CCM 8509, CIP 110797)

Name: Pseudogracilibacillus auburnensis (DSM 28556, CCM 8509, CIP 110797)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23772

Type strain

Strain Designation P-207

Culture col. no. DSM 28556 CCM 8509 CIP 110797 LMG 28212 P-207

NCBI tax ID(s) 1494959

Special Collections DSMZ CIP

History <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; P207 <- J. Mcinroy CIP <- 2014, P. Kämpfer, Giessen Univ., Giessen, Germany: strain P-207, Ornithinibacillus-like

Links

Pseudogracilibacillus auburnensis P-207 is a mesophilic, Gram-positive, motile prokaryote that was isolated from rhizospere soil of a corn plant Zea mays.

Gram-positive motile rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 392877

LMG 28212,CCM 8509,CIP 110797,DSM 28556

@ref 20215

Last LPSN update 2026-02-09 11:23:48

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Pseudogracilibacillus

Species Pseudogracilibacillus auburnensis

Full scientific name Pseudogracilibacillus auburnensis Glaeser et al. 2014

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
116551	positive	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21343	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
116551	CIP Medium 72		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
21343	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96.4

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ketogluconate metabolism	100	8 of 8
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	cyanate degradation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	propanol degradation	100	7 of 7
66794	L-lactaldehyde degradation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	aspartate and asparagine metabolism	100	9 of 9
66794	denitrification	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	propionate fermentation	100	10 of 10
66794	ppGpp biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	pyrimidine metabolism	91.11	41 of 45
66794	proline metabolism	90.91	10 of 11
66794	Entner Doudoroff pathway	90	9 of 10
66794	alanine metabolism	89.66	26 of 29
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	citric acid cycle	85.71	12 of 14
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	leucine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	purine metabolism	82.98	78 of 94
66794	degradation of sugar alcohols	81.25	13 of 16
66794	flavin biosynthesis	80	12 of 15
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	myo-inositol biosynthesis	80	8 of 10
66794	lipoate biosynthesis	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	tryptophan metabolism	78.95	30 of 38
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	lysine metabolism	78.57	33 of 42
66794	NAD metabolism	77.78	14 of 18
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	isoleucine metabolism	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	methionine metabolism	73.08	19 of 26
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	arginine metabolism	70.83	17 of 24
66794	histidine metabolism	68.97	20 of 29
66794	oxidative phosphorylation	67.03	61 of 91
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	cysteine metabolism	66.67	12 of 18
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	acetoin degradation	66.67	2 of 3
66794	heme metabolism	64.29	9 of 14
66794	non-pathway related	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	3-chlorocatechol degradation	60	3 of 5
66794	starch degradation	60	6 of 10
66794	glycine betaine biosynthesis	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	tyrosine metabolism	57.14	8 of 14
66794	lipid metabolism	54.84	17 of 31
66794	pentose phosphate pathway	54.55	6 of 11
66794	isoprenoid biosynthesis	53.85	14 of 26
66794	degradation of pentoses	53.57	15 of 28
66794	CMP-KDO biosynthesis	50	2 of 4
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	pantothenate biosynthesis	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	phenylmercury acetate degradation	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	quinate degradation	50	1 of 2
66794	resorcinol degradation	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	ascorbate metabolism	50	11 of 22
66794	lactate fermentation	50	2 of 4
66794	degradation of hexoses	50	9 of 18
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	degradation of sugar acids	44	11 of 25
66794	mevalonate metabolism	42.86	3 of 7
66794	glycogen metabolism	40	2 of 5
66794	phenol degradation	40	8 of 20
66794	coenzyme M biosynthesis	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	cholesterol biosynthesis	36.36	4 of 11
66794	arachidonic acid metabolism	33.33	6 of 18
66794	lipid A biosynthesis	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	sulfate reduction	30.77	4 of 13
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	polyamine pathway	30.43	7 of 23
66794	glutathione metabolism	28.57	4 of 14
66794	d-xylose degradation	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	carnitine metabolism	25	2 of 8
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	nitrate assimilation	22.22	2 of 9
66794	vitamin B12 metabolism	20.59	7 of 34

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
21343	rhizospere soil of a corn plant Zea mays	Zea mays	Auburn	USA	USA	North America
116551	Environment, Soil		Pennsylvania	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence KJ490639 (>99% sequence identity) for Pseudogracilibacillus auburnensis subclade from Microbeatlas

Aquatic Samples	4
Soil Samples	30
Animal Samples	38
Plant Samples	8
Total Samples	80

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21343	1	Risk group (German classification)
116551	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM4268212v1 assembly for Pseudogracilibacillus auburnensis CCM 8509	contig	GCA_042682125			1494959	75.01
66792	ASM320197v1 assembly for Pseudogracilibacillus auburnensis DSM 28556	scaffold	GCA_003201975	1494959.3	2770939551	1494959	64.87

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21343	Pseudogracilibacillus auburnensis strain P-207 16S ribosomal RNA gene, partial sequence	KJ490639	1444		1494959
124043	Pseudogracilibacillus auburnensis strain CCM 8509 16S ribosomal RNA gene, partial sequence.	MT760213	1408		1494959

GC content

@ref	GC-content (mol%)	Method
21343	34	fluorimetric

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudogracilibacillus auburnensis DSM 28556
NCBI: GCA_003201975

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	87.40	no
125439	motility	BacteriaNetⓘ	yes	80.10	no
125439	gram_stain	BacteriaNetⓘ	variable	79.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudogracilibacillus auburnensis DSM 28556
NCBI: GCA_003201975.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	69.02	no
125438	anaerobic	anaerobicⓘ	no	93.04	no
125438	aerobic	aerobicⓘ	yes	83.71	no
125438	spore-forming	spore-formingⓘ	yes	86.21	no
125438	thermophilic	thermophileⓘ	no	91.82	yes
125438	flagellated	motile2+ⓘ	yes	81.65	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudogracilibacillus endophyticus sp. nov., a moderately thermophilic and halophilic species isolated from plant root.	Park J, Kim MK, Yun BR, Han JH, Kim SB	Int J Syst Evol Microbiol	10.1099/ijsem.0.002475	2017
Phylogeny	Pseudogracilibacillus auburnensis gen. nov., sp. nov., isolated from the rhizosphere of Zea mays.	Glaeser SP, McInroy JA, Busse HJ, Kampfer P	Int J Syst Evol Microbiol	10.1099/ijs.0.064584-0	2014
Phylogeny	Pseudogracilibacillus marinus sp. nov., isolated from a biofilm formed in coastal seawater.	Verma P, Saravanan N, Jia B, Jeon CO, Dharani G, Somasundaram ST, Kirubagaran R	Int J Syst Evol Microbiol	10.1099/ijsem.0.001212	2016

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 )
#21343	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28556
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#116551	Collection of Institut Pasteur ; Curators of the CIP; CIP 110797
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Pseudogracilibacillus auburnensis (DSM 28556, CCM 8509, CIP 110797)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042682125

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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