Name: Mixta gaviniae A18/07
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5013

Type strain:

Species: Mixta gaviniae

Strain Designation: A18/07

Culture col. no.: DSM 22758, LMG 25382

Strain history: <- R. Stephan, Inst. for Food Safety and Hygiene, Univ. Zurich, Switzerland; A18/07

NCBI tax ID(s): 665914 (species)

SI-ID 356253

LMG 25382, DSM 22758, CCUG 76604

Special Collections

Section

Mixta gaviniae A18/07 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from powdered infant formula.

Gram-negative
motile
rod-shaped
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Erwiniaceae*
	Genus	*Mixta*
	Species	**Mixta gaviniae**
	Full Scientific Name (LPSN)	Mixta gaviniae (Popp et al. 2010) Palmer et al. 2018

Synonym

Pantoea gaviniae

Information on morphological and physiological properties Morphology

[Ref.: #29720]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.5

[Ref.: #29720]	Cell length	02-03 µm

[Ref.: #29720]	Cell width	1 µm

[Ref.: #29720]	Cell shape	rod-shaped

[Ref.: #29720]	Motility	yes

[Ref.: #29720]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16498]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16498]

Culture medium growth

[Ref.: #16498]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16498]

Culture medium composition

expand / minimize

[Ref.: #16498]

Culture medium

BHI MEDIUM (DSMZ Medium 215)

[Ref.: #16498]

Culture medium growth

[Ref.: #16498]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16498]

Culture medium composition

expand / minimize

[Ref.: #16498]

Culture medium

COLUMBIA BLOOD AGAR (DSMZ Medium 429)

[Ref.: #16498]

Culture medium growth

[Ref.: #16498]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16498]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16498]	growth	37 °C
[Ref.: #29720]	growth	7-41.5 °C
[Ref.: #29720]	optimum	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29720]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %99

[Ref.: #29720]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #29720]	arabinose ChEBI	+	carbon source
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #29720]	esculin ChEBI	+	hydrolysis
[Ref.: #29720]	fructose ChEBI	+	carbon source
[Ref.: #29720]	galactose ChEBI	+	carbon source
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #29720]	glucose ChEBI	+	carbon source
[Ref.: #68368]	L-arabinose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	+	fermentation	* from API 20E
[Ref.: #29720]	lactose ChEBI	+	carbon source
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #29720]	maltose ChEBI	+	carbon source
[Ref.: #29720]	mannose ChEBI	+	carbon source
[Ref.: #68368]	melibiose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	nitrate ChEBI	-	reduction	* from API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #29720]	raffinose ChEBI	+	carbon source
[Ref.: #29720]	ribose ChEBI	+	carbon source
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #29720]	sucrose ChEBI	+	carbon source
[Ref.: #68368]	sucrose ChEBI	+	fermentation	* from API 20E
[Ref.: #29720]	trehalose ChEBI	+	carbon source
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
[Ref.: #29720]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	dinitrogen ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E
[Ref.: #68368]	nitrite ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #29720]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #16498]	18134	+	-	-	-	+	-	-	-	-	+	+	+	+	+	-	+	+	+	+	+	-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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

[Ref.: #16498]	Sample type/isolated from	powdered infant formula
[Ref.: #16498]	Geographic location (country and/or sea, region)	Zurich
[Ref.: #16498]	Country	Switzerland
[Ref.: #16498]	Country ISO 3 Code	CHE
[Ref.: #16498]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered

#Food production

#Food

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ367483 (>99% sequence identity) for Pantoea from Microbeatlas

Aquatic Samples	20
Soil Samples	7
Animal Samples	91
Plant Samples	36
Total Samples	154

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

[Ref.: #16498]

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.: #16498]	Pantoea gaviniae strain A18/07 16S ribosomal RNA gene, partial sequence	GQ367483	1494	GenBank ENA	665914 tax ID
[Ref.: #124043]	Pantoea gaviniae gene for 16S ribosomal RNA, partial sequence, strain: LMG 25382.	AB907786	1494	GenBank ENA	665914 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Mixta gaviniae DSM 22758	GCA_002953195	complete	GenBank ENA	665914 tax ID	*
[Ref.: #66792]	Mixta gaviniae LMG 25382	GCA_002095455	contig	GenBank ENA	665914 tax ID	*
[Ref.: #66792]	Pantoea gaviniae strain DSM 22758	665914.6	complete	PATRIC	665914 tax ID	*
[Ref.: #66792]	Pantoea gaviniae strain LMG 25382	665914.3	wgs	PATRIC	665914 tax ID	*
[Ref.: #66792]	Mixta gaviniae LMG 25382	2791355167	draft	JGI IMG/M	665914 tax ID	*
[Ref.: #66792]	Mixta gaviniae DSM 22758	2791355151	complete	JGI IMG/M	665914 tax ID	*

[Ref.: #16498]	GC-content	58.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29720]	GC-content	58.4 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Mixta gaviniae DSM 22758 NCBI: GCA_002953195.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	99	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Mixta gaviniae DSM 22758 NCBI: GCA_002953195.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99.5	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.432	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	68.486	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	86.304	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99.25	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	79.775	no

Availability in culture collections External links

[Ref.: #16498]

Culture collection no.

DSM 22758, LMG 25382

[Ref.: #74508]

SI-ID 356253

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete and Assembled Genome Sequences of Pantoea calida DSM 22759(T) and Pantoea gaviniae DSM 22758(T).	Stevens MJA, Zurfluh K, Stephan R	Genome Announc	10.1128/genomeA.00157-18	2018	*
Phylogeny	Pantoea intestinalis sp. nov., isolated from the human gut.	Prakash O, Nimonkar Y, Vaishampayan A, Mishra M, Kumbhare S, Josef N, Shouche YS	Int J Syst Evol Microbiol	10.1099/ijsem.0.000419	2015	*
Phylogeny	Pantoea gaviniae sp. nov. and Pantoea calida sp. nov., isolated from infant formula and an infant formula production environment.	Popp A, Cleenwerck I, Iversen C, De Vos P, Stephan R	Int J Syst Evol Microbiol	10.1099/ijs.0.019430-0	2010	*

References

#16498

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22758

#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 )

#29720

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 #26103 (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) .

#68368

Automatically annotated from API 20E .

#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 )

#74508

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-ID356253.1 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#26103

IJSEM 2786 2010 ( DOI 10.1099/ijs.0.019430-0 , PubMed 20061487 )

* These data were automatically processed and therefore are not curated

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Mixta gaviniae DSM 22758

Mixta gaviniae DSM 22758

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