Stappia stellulata 2M/E, TS101 | Type strain | DSM 5886, ATCC 15215, ICPB 4170, JCM 20692, BCRC 80196, CIP 105977, IAM 12621, IFO 15764, NBRC 15764 | BacDiveID:13838

Strain identifier

BacDive ID: 13838

Type strain:

Species: Stappia stellulata

Strain Designation: 2M/E, TS101

Culture col. no.: DSM 5886, ATCC 15215, ICPB 4170, JCM 20692, BCRC 80196, CIP 105977, IAM 12621, IFO 15764, NBRC 15764

Strain history: CIP <- 1999, IAM <- ATCC <- M.P. Starr: strain TS101 <- Knosel: strain 2M/E

NCBI tax ID(s): 1123294 (strain), 71235 (species)

SI-ID 11530

LMG 8178, ATCC 15215, IAM 12621, IFO 15764, CIP 105977, DSM 5886, NBRC 15764, KCTC 12286, LMG 23382, JCM 20692

Section

Stappia stellulata 2M/E is an obligate aerobe, mesophilic, motile bacterium that was isolated from marine mud.

motile
mesophilic
obligate aerobe
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	*Stappiaceae*
	Genus	*Stappia*
	Species	**Stappia stellulata**
	Full Scientific Name (LPSN)	Stappia stellulata (Rüger and Höfle 1992 ex Stapp and Knösel 1954) Uchino et al. 1999

Synonym

Agrobacterium stellulatum

Information on morphological and physiological properties Morphology

[Ref.: #123308]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.997

[Ref.: #123308]	Cell shape	rod-shaped

[Ref.: #123308]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %94.671

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

MARINE AGAR (DSMZ Medium 123)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

Marine agar (MA)

Culture medium growth

Culture medium composition

expand / minimize

[Ref.: #123308]

Culture medium

CIP Medium 13

[Ref.: #123308]

Culture medium growth

[Ref.: #123308]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #123308]

Culture medium

CIP Medium 308

[Ref.: #123308]

Culture medium growth

[Ref.: #123308]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #2344]			growth	26 °C
[Ref.: #39414]			growth	25 °C
[Ref.: #67770]			growth	25 °C
[Ref.: #123308]			growth	5-37 °C
[Ref.: #123308]		no	growth	41 °C
[Ref.: #123308]		no	growth	45 °C

[Ref.: #2344]	Temperature range	mesophilic
[Ref.: #39414]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #123308]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #123308]

Oxygen tolerance

obligate aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #123308]		NaCl		growth	2-6	%
[Ref.: #123308]		NaCl	no	growth	0	%
[Ref.: #123308]		NaCl	no	growth	8	%
[Ref.: #123308]		NaCl	no	growth	10	%

Observation

quinones: Q-10

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #123308]		citrate ChEBI	-	carbon source
[Ref.: #123308]		esculin ChEBI	-	hydrolysis
[Ref.: #123308]		glucose ChEBI	-	degradation
[Ref.: #123308]		hippurate ChEBI	+	hydrolysis
[Ref.: #123308]		malonate ChEBI	-	assimilation
[Ref.: #123308]		nitrate ChEBI	-	builds gas from
[Ref.: #123308]		nitrate ChEBI	+	reduction
[Ref.: #123308]		nitrate ChEBI	-	respiration
[Ref.: #123308]		nitrite ChEBI	-	builds gas from
[Ref.: #123308]		nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #123308]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #123308]		acetoin ChEBI	-
[Ref.: #123308]		glucose ChEBI		-

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #68382]		acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123308]		alcohol dehydrogenase	-	1.1.1.1
[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.: #123308]		amylase	-
[Ref.: #123308]		beta-galactosidase	-	3.2.1.23
[Ref.: #68382]		beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]		beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]		beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123308]		caseinase	-	3.4.21.50
[Ref.: #123308]		catalase	+	1.11.1.6
[Ref.: #68382]		cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #123308]		DNase	-
[Ref.: #68382]		esterase (C 4)	+		* from API zym
[Ref.: #68382]		esterase lipase (C 8)	+		* from API zym
[Ref.: #123308]		gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #123308]		gelatinase	-
[Ref.: #123308]		lecithinase	-
[Ref.: #68382]		leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #123308]		lipase	-
[Ref.: #68382]		lipase (C 14)	-		* from API zym
[Ref.: #123308]		lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]		N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]		naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123308]		ornithine decarboxylase	-	4.1.1.17
[Ref.: #123308]		oxidase	+
[Ref.: #123308]		phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #123308]		protease	-
[Ref.: #68382]		trypsin	-	3.4.21.4	* from API zym
[Ref.: #123308]		tryptophan deaminase	-
[Ref.: #123308]		tween esterase	-
[Ref.: #123308]		urease	-	3.5.1.5
[Ref.: #68382]		valine arylamidase	-		* from API zym
		Only first 10 entries are displayed. Click here to see all.

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.: #123308]	9138	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #2344]	Sample type/isolated from	marine mud

[Ref.: #67770]	Sample type/isolated from	Marine mud

[Ref.: #123308]	Sample type/isolated from	Environment, Marine mud
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Mud (Sludge)
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

Global distribution of 16S sequence D88525 (>99% sequence identity) for Stappia stellulata from Microbeatlas

Aquatic Samples	2536
Soil Samples	358
Animal Samples	129
Plant Samples	27
Total Samples	3050

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

[Ref.: #2344]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123308]	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.: #20218]	Agrobacterium stellulatum gene for 16S rRNA, partial sequence	D88525	1407	ENA	71235 tax ID	*
[Ref.: #20218]	Stappia stellulata gene for 16S rRNA, partial sequence, strain: NBRC 15764	AB680962	1412	ENA	71235 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Stappia stellulata DSM 5886	GCA_000423705	scaffold	GenBank	1123294 tax ID
[Ref.: #66792]	Stappia stellulata DSM 5886	1123294.3	wgs	PATRIC	1123294 tax ID	*
[Ref.: #66792]	Stappia stellulata DSM 5886	2524614815	draft	JGI IMG/M	1123294 tax ID	*

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: Stappia stellulata DSM 5886 DSM 5886 NCBI: GCA_000423705.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Stappia stellulata DSM 5886 PATRIC: 1123294.3
[Ref.: #69480]	motile	yes	85.353	no
[Ref.: #69480]	flagellated	yes	55.306	no
[Ref.: #69480]	gram-positive	no	98.395	no
[Ref.: #69480]	anaerobic	no	96.738	no
[Ref.: #69480]	aerobic	yes	85.84	no
[Ref.: #69480]	halophile	yes	67.15	no
[Ref.: #69480]	spore-forming	no	95.883	no
[Ref.: #69480]	thermophile	no	96.5	yes
[Ref.: #69480]	glucose-util	yes	90.831	no
[Ref.: #69480]	glucose-ferment	no	90.744	no

Availability in culture collections External links

Culture collection no.

DSM 5886, ATCC 15215, ICPB 4170, JCM 20692, BCRC 80196, CIP 105977, IAM 12621, IFO 15764, NBRC 15764

SI-ID 11530

*

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Stappia sediminis sp. nov., isolated from rhizosphere soil of coastal herb Zoysia matrella within the Beibu Gulf.	Li M, Yi X, Li F, Feng Y, Liu Y, Gao C	Arch Microbiol	10.1007/s00203-021-02674-z	2022	*
Phylogeny	Stappia albiluteola sp. nov., isolated from marine sediment.	Jiang S, Sun YY, Lian FB, Zhang XK, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.004807	2021	*
Phylogeny	Stappia taiwanensis sp. nov., isolated from a coastal thermal spring.	Kampfer P, Arun AB, Frischmann A, Busse HJ, Young CC, Rekha PD, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.044966-0	2012	*
Phylogeny	Stappia aquimarina sp. nov., isolated from seawater.	Chen WM, Sheu FS, Arun AB, Young CC, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijs.0.030643-0	2011	*
Phylogeny	Stappia indica sp. nov., isolated from deep seawater of the Indian Ocean.	Lai Q, Qiao N, Wu C, Sun F, Yuan J, Shao Z	Int J Syst Evol Microbiol	10.1099/ijs.0.013417-0	2009	*
Phylogeny	Reclassification of marine Agrobacterium species: Proposals of Stappia stellulata gen. nov., comb. nov., Stappia aggregata sp. nov., nom. rev., Ruegeria atlantica gen. nov., comb. nov., Ruegeria gelatinovora comb. nov., Ruegeria algicola comb. nov., and Ahrensia kieliense gen. nov., sp. nov., nom. rev.	Uchino Y, Hirata A, Yokota A, Sugiyama J	J Gen Appl Microbiol	10.2323/jgam.44.201	1998	*
Phylogeny	Marine star-shaped-aggregate-forming bacteria: Agrobacterium atlanticum sp. nov.; Agrobacterium meteori sp. nov.; Agrobacterium ferrugineum sp. nov., nom. rev.; Agrobacterium gelatinovorum sp. nov., nom. rev.; and Agrobacterium stellulatum sp. nov., nom. rev.	Ruger HJ, Hofle MG	Int J Syst Bacteriol	10.1099/00207713-42-1-133	1992	*

References

#2344

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5886

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#39414 ; Curators of the CIP;

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#83014

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-ID11530.1 )

#123308 Collection of Institut Pasteur ; Curators of the CIP; CIP 105977
* These data were automatically processed and therefore are not curated

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