Name: Paenochrobactrum gallinarii Sa-25
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 22941

Type strain:

Species: Paenochrobactrum gallinarii

Strain Designation: Sa-25

Culture col. no.: DSM 22336, CCM 7656, CCUG 57736

Strain history: <- P. Kämpfer; Sa-25 <- E. Martin

NCBI tax ID(s): 643673 (species)

SI-ID 403298

DSM 22336, CCUG 57736

Section

Paenochrobactrum gallinarii Sa-25 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from air of a duck barn.

Gram-negative
rod-shaped
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Brucellaceae*
	Genus	*Paenochrobactrum*
	Species	**Paenochrobactrum gallinarii**
	Full Scientific Name (LPSN)	Paenochrobactrum gallinarii Kämpfer et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29559]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.824

[Ref.: #29559]	Cell length	2 µm

[Ref.: #29559]	Cell shape	rod-shaped

[Ref.: #29559]	Motility	no

[Ref.: #19102]	Incubation period	1-2 days

[Ref.: #61434]	Incubation period	1 day

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19102]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #19102]

Culture medium growth

[Ref.: #19102]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19102]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #19102]	growth	28 °C
[Ref.: #29559]	growth	25-30 °C
[Ref.: #61434]	growth	30-37 °C

[Ref.: #19102]	Temperature range	mesophilic
[Ref.: #29559]	Temperature range	mesophilic
[Ref.: #61434]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29559]	Oxygen tolerance	aerobe
[Ref.: #61434]	Oxygen tolerance	aerobe

[Ref.: #29559]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #29559]	alanine ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #29559]	glucose ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #29559]	lactate ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #29559]	propionate ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #29559]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #19102]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	-		* from API zym
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #19102]	23845	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+
[Ref.: #61434]	8519	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	-	-	-	-	+	+

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #61434]	4437	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #19102]	Sample type/isolated from	air of a duck barn
[Ref.: #19102]	Geographic location (country and/or sea, region)	Berlin
[Ref.: #19102]	Country	Germany
[Ref.: #19102]	Country ISO 3 Code	DEU
[Ref.: #19102]	Continent	Europe

[Ref.: #61434]	Sample type/isolated from	Air,duck barn
[Ref.: #61434]	Geographic location (country and/or sea, region)	Berlin
[Ref.: #61434]	Country	Germany
[Ref.: #61434]	Country ISO 3 Code	DEU
[Ref.: #61434]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Livestock (Husbandry)
#Environmental	#Air	#Indoor Air
#Host	#Birds	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FN391023 (>99% sequence identity) for Paenochrobactrum from Microbeatlas

Aquatic Samples	10
Soil Samples	4
Animal Samples	14
Plant Samples	9
Total Samples	37

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

[Ref.: #19102]

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.: #19102]	Paenochrobactrum gallinarii partial 16S rRNA gene, type strain Sa25T	FN391023	1345	ENA	643673 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paenochrobactrum gallinarii DSM 22336	GCA_014205685	scaffold	GenBank	643673 tax ID	*
[Ref.: #66792]	Paenochrobactrum gallinarii strain DSM 22336	643673.3	wgs	PATRIC	643673 tax ID	*
[Ref.: #66792]	Paenochrobactrum gallinarii DSM 22336	2828294024	draft	JGI IMG/M	643673 tax ID	*

[Ref.: #19102]	GC-content	49.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29559]	GC-content	49.7 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: Paenochrobactrum gallinarii DSM 22336 NCBI: GCA_014205685.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenochrobactrum gallinarii DSM 22336 NCBI: GCA_014205685.1
[Ref.: #69480]	flagellated	no	96.55	yes
[Ref.: #69480]	gram-positive	no	97.94	no
[Ref.: #69480]	anaerobic	no	97.812	yes
[Ref.: #69480]	aerobic	yes	92.323	yes
[Ref.: #69480]	halophile	no	83.979	no
[Ref.: #69480]	spore-forming	no	96.624	no
[Ref.: #69480]	glucose-util	yes	86.928	yes
[Ref.: #69480]	thermophile	no	90.037	yes
[Ref.: #69480]	motile	no	89.293	yes
[Ref.: #69480]	glucose-ferment	no	91.681	yes

Availability in culture collections External links

[Ref.: #19102]

Culture collection no.

DSM 22336, CCM 7656, CCUG 57736

[Ref.: #87189]

SI-ID 403298

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenochrobactrum gallinarii gen. nov., sp. nov., isolated from air of a duck barn, and reclassification of Pseudochrobactrum glaciei as Paenochrobactrum glaciei comb. nov.	Kampfer P, Martin E, Lodders N, Jackel U, Huber BE, Schumann P, Langer S, Busse HJ, Scholz H	Int J Syst Evol Microbiol	10.1099/ijs.0.015842-0	2009	*

References

#19102

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22336

#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 )

#29559

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 #25954 (see below)

#61434 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57736

#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) .

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#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 )

#87189

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-ID403298.1 )

#25954

IJSEM 1493 2010 ( DOI 10.1099/ijs.0.015842-0 , PubMed 19684318 )

* These data were automatically processed and therefore are not curated

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Paenochrobactrum gallinarii DSM 22336

Paenochrobactrum gallinarii DSM 22336

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