Name: Sphingobacterium zeae JM-1081
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 139617

Type strain:

Species: Sphingobacterium zeae

Strain Designation: JM-1081

Culture col. no.: CIP 110975, LMG 29191, CCM 8652, DSM 101567

Strain history: CIP <- 2015, P. Kampfer,Giessen Univ., Giessen, Germany: strain JM-1081

NCBI tax ID(s): 1776859 (species)

SI-ID 407878

DSM 101567

Section

Sphingobacterium zeae JM-1081 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies.

colony-forming
Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Sphingobacterium*
	Species	**Sphingobacterium zeae**
	Full Scientific Name (LPSN)	Sphingobacterium zeae Kämpfer et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43625]	Gram stain	negative
[Ref.: #42169]	Gram stain	negative

[Ref.: #43625]	Cell length	2 µm

[Ref.: #43625]	Cell width	1 µm

[Ref.: #43625]	Cell shape	rod-shaped
[Ref.: #42169]	Cell shape	rod-shaped

[Ref.: #43625]	Motility	no
[Ref.: #42169]	Motility	no

[Ref.: #43625]	Colony size	2 mm
[Ref.: #43625]	Colony color	Yellow
[Ref.: #43625]	Colony shape	circular
[Ref.: #43625]	Cultivation medium used	Nutrient Agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #68991]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #68991]

Culture medium growth

[Ref.: #68991]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #42169]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #42169]

Culture medium growth

[Ref.: #42169]

Culture medium composition

expand / minimize

[Ref.: #43625]

Culture medium

Nutrient agar (NA)

[Ref.: #43625]

Culture medium growth

[Ref.: #42169]

Culture medium

CIP Medium 72

[Ref.: #42169]

Culture medium growth

[Ref.: #42169]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #43625]			growth	4-42 °C
[Ref.: #68991]			growth	28 °C

[Ref.: #68991]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43625]			growth	5.5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43625]

Oxygen tolerance

aerobe

[Ref.: #43625]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43625]		NaCl		growth	1-4	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43625]	2-deoxythymidine-5'-4-nitrophenyl phosphate	+	hydrolysis
[Ref.: #43625]	2-oxoglutarate ChEBI	-	carbon source
[Ref.: #43625]	3-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #43625]	3-hydroxybutyrate ChEBI	-	carbon source
[Ref.: #43625]	4-hydroxybenzoate ChEBI	-	carbon source
[Ref.: #43625]	4-nitrophenyl alpha-D-glucopyranoside ChEBI	+	hydrolysis
[Ref.: #43625]	4-nitrophenyl beta-D-galactopyranoside ChEBI	+	hydrolysis
[Ref.: #43625]	4-nitrophenyl beta-D-glucopyranoside ChEBI	+/-	hydrolysis
[Ref.: #43625]	4-nitrophenyl beta-D-glucuronide ChEBI	-	hydrolysis
[Ref.: #43625]	4-nitrophenyl beta-D-xylopyranoside ChEBI	+	hydrolysis
[Ref.: #43625]	acetate ChEBI	+/-	carbon source
[Ref.: #43625]	adipate ChEBI	-	carbon source
[Ref.: #43625]	azelaate ChEBI	-	carbon source
[Ref.: #43625]	beta-alanine ChEBI	-	carbon source
[Ref.: #43625]	bis-4-nitrophenyl phosphate ChEBI	+	hydrolysis
[Ref.: #43625]	bis-4-nitrophenyl-phenyl phosphonate ChEBI	+	hydrolysis
[Ref.: #43625]	bis-4-nitrophenyl-phosphorylcholine ChEBI	+	hydrolysis
[Ref.: #43625]	casein	+	hydrolysis
[Ref.: #43625]	cellobiose ChEBI	+	builds acid from
[Ref.: #43625]	cellobiose ChEBI	+/-	carbon source
[Ref.: #43625]	cis-aconitate ChEBI	-	carbon source
[Ref.: #43625]	citrate ChEBI	-	carbon source
[Ref.: #43625]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43625]	D-fructose ChEBI	+/-	carbon source
[Ref.: #43625]	D-galactose ChEBI	+/-	carbon source
[Ref.: #43625]	D-glucose ChEBI	+	builds acid from
[Ref.: #43625]	D-glucose ChEBI	+/-	carbon source
[Ref.: #43625]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43625]	D-mannitol ChEBI	-	carbon source
[Ref.: #43625]	D-mannose ChEBI	+/-	carbon source
[Ref.: #43625]	D-ribose ChEBI	+/-	carbon source
[Ref.: #43625]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43625]	D-sorbitol ChEBI	-	carbon source
[Ref.: #43625]	D-xylose ChEBI	-	builds acid from
[Ref.: #43625]	D-xylose ChEBI	-	carbon source
[Ref.: #43625]	erythritol ChEBI	-	builds acid from
[Ref.: #43625]	esculin ChEBI	+	hydrolysis
[Ref.: #43625]	fumarate ChEBI	-	carbon source
[Ref.: #43625]	galactitol ChEBI	-	builds acid from
[Ref.: #43625]	gamma-aminobutyric acid ChEBI	-	carbon source
[Ref.: #43625]	gamma-L-glutamate-4-nitroanilide	+	hydrolysis
[Ref.: #43625]	gelatin ChEBI	+	hydrolysis
[Ref.: #43625]	gluconate ChEBI	+/-	carbon source
[Ref.: #43625]	glutaric acid ChEBI	-	carbon source
[Ref.: #43625]	itaconate ChEBI	-	carbon source
[Ref.: #43625]	L-alanine ChEBI	-	carbon source
[Ref.: #43625]	L-alanine 4-nitroanilide	+	hydrolysis
[Ref.: #43625]	L-arabinose ChEBI	+	builds acid from
[Ref.: #43625]	L-arabinose ChEBI	+/-	carbon source
[Ref.: #43625]	L-aspartate ChEBI	-	carbon source
[Ref.: #43625]	L-histidine ChEBI	-	carbon source
[Ref.: #43625]	L-leucine ChEBI	-	carbon source
[Ref.: #43625]	L-ornithine ChEBI	-	carbon source
[Ref.: #43625]	L-phenylalanine ChEBI	-	carbon source
[Ref.: #43625]	L-proline ChEBI	-	carbon source
[Ref.: #43625]	L-proline-4-nitroanilide	+	hydrolysis
[Ref.: #43625]	L-rhamnose ChEBI	+	builds acid from
[Ref.: #43625]	L-rhamnose ChEBI	+/-	carbon source
[Ref.: #43625]	L-serine ChEBI	-	carbon source
[Ref.: #43625]	L-tryptophan ChEBI	-	carbon source
[Ref.: #43625]	lactate ChEBI	-	carbon source
[Ref.: #43625]	lactose ChEBI	+	builds acid from
[Ref.: #43625]	maltitol ChEBI	+/-	carbon source
[Ref.: #43625]	maltose ChEBI	+	builds acid from
[Ref.: #43625]	maltose ChEBI	+/-	carbon source
[Ref.: #43625]	melibiose ChEBI	-	builds acid from
[Ref.: #43625]	melibiose ChEBI	+/-	carbon source
[Ref.: #43625]	mesaconate ChEBI	-	carbon source
[Ref.: #43625]	methyl D-glucoside ChEBI	+	builds acid from
[Ref.: #43625]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43625]	myo-inositol ChEBI	-	carbon source
[Ref.: #43625]	N-acetylgalactosamine ChEBI	-	carbon source
[Ref.: #43625]	N-acetylglucosamine ChEBI	+/-	carbon source
[Ref.: #43625]	phenylacetate ChEBI	-	carbon source
[Ref.: #43625]	putrescine ChEBI	-	carbon source
[Ref.: #43625]	pyruvate ChEBI	-	carbon source
[Ref.: #43625]	raffinose ChEBI	+	builds acid from
[Ref.: #43625]	ribitol ChEBI	-	builds acid from
[Ref.: #43625]	ribitol ChEBI	-	carbon source
[Ref.: #43625]	salicin ChEBI	+	builds acid from
[Ref.: #43625]	salicin ChEBI	+/-	carbon source
[Ref.: #43625]	starch ChEBI	+	hydrolysis
[Ref.: #43625]	suberic acid ChEBI	-	carbon source
[Ref.: #43625]	sucrose ChEBI	+	builds acid from
[Ref.: #43625]	sucrose ChEBI	+/-	carbon source
[Ref.: #43625]	trans-aconitate ChEBI	-	carbon source
[Ref.: #43625]	trehalose ChEBI	+	builds acid from
[Ref.: #43625]	urea ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43625]		hydrogen sulfide ChEBI	no
[Ref.: #43625]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43625]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43625]	beta-galactosidase	+	3.2.1.23
[Ref.: #43625]	catalase	+	1.11.1.6
[Ref.: #43625]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43625]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43625]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #43625]	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43625]

Fatty acid	Percentage
C16:1ω7c / C16:1ω6c	19.8
C15:0 iso	18
C17:0 iso 3OH	11.1
C16:0 iso 3OH	10.4
C15:0 iso 3OH	9.4
C15:1 iso G	7.7
C15:1ω6c	4.1
C17:1ω6c	2.7
C16:0 iso	2
C15:0 3OH	2
C16:1 iso H	1.6
C16:0 3OH	1.2
C14:0 iso	1.1
C17:1 iso ω9c	1.1

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

[Ref.: #43625]	Sample type/isolated from	healthy internal stem tissue of mature maize (Zea mays, cultivar 'Sweet Belle')
[Ref.: #43625]	Geographic location (country and/or sea, region)	E.V. Smith Research Center, Tallassee, Elmore County, AL
[Ref.: #43625]	Country	USA
[Ref.: #43625]	Country ISO 3 Code	USA
[Ref.: #43625]	Continent	North America
[Ref.: #43625]	Isolation date	1990

[Ref.: #42169]	Sample type/isolated from	Stem-enclophic of field-grown maize
[Ref.: #42169]	Geographic location (country and/or sea, region)	Tallassee, Alabama
[Ref.: #42169]	Country	United States of America
[Ref.: #42169]	Country ISO 3 Code	USA
[Ref.: #42169]	Continent	North America
[Ref.: #42169]	Isolation date	1990-06-01

[Ref.: #42169]	Geographic location (country and/or sea, region)	Alabama
[Ref.: #42169]	Country	USA
[Ref.: #42169]	Country ISO 3 Code	USA
[Ref.: #42169]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Stem (Branch)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU201960 (>99% sequence identity) for Sphingobacterium zeae from Microbeatlas

Aquatic Samples	6
Soil Samples	14
Animal Samples	12
Plant Samples	31
Total Samples	63

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

[Ref.: #68991]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #42169]	Biosafety level	1	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.: #43625]	16S rRNA gene sequence	KU201960		GenBank

Availability in culture collections External links

[Ref.: #42169]

Culture collection no.

CIP 110975, LMG 29191, CCM 8652, DSM 101567

[Ref.: #96081]	SI-ID 407878	*
[Ref.: #96082]	SI-ID 413469	*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingobacterium zeae sp. nov., an endophyte of maize.	Kampfer P, Busse HJ, Kleinhagauer T, McInroy JA, Glaeser SP	Int J Syst Evol Microbiol	10.1099/ijsem.0.001100	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 )

#42169 Collection of Institut Pasteur ; Curators of the CIP; CIP 110975

#43625

Peter Kaempfer, Hans-Jürgen Busse, Tanita Kleinhagauer, John A. McInroy, Stefanie P. Glaeser: Sphingobacterium zeae sp. nov., an endophyte of maize. IJSEM 66: 2643 - 2649 2016 ( DOI 10.1099/ijsem.0.001100 , PubMed 27098598 )

#68991

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 101567

#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 .

#96081

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-ID407878.1 )

#96082

* These data were automatically processed and therefore are not curated

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