Nesterenkonia lutea (DSM 15666, CCTCC AA 203010, CIP 108679)

Name: Nesterenkonia lutea (DSM 15666, CCTCC AA 203010, CIP 108679)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7766

Type strain

Culture col. no. DSM 15666 CCTCC AA 203010 CIP 108679 KCTC 19013 YIM 70081 3 more

NCBI tax ID(s) 272919

Special Collections DSMZ JCM KCTC CIP Literature strains

History <- W.-J. Li KCTC 19013 <-- W.-J. Li YIM 70081. <- W. J. Li CIP <- 2003, W.J. Li, Yunnan Univ., Kunming, China: strain YIM 70081

Links

Nesterenkonia lutea DSM 15666 is an aerobe, Gram-positive, motile bacterium that was isolated from soil.

Gram-positive motile coccus-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 134252

DSM 15666,KCTC 19013,CIP 108679,JCM 13019,CIP 107970

@ref 20215

Last LPSN update 2026-02-09 11:19:33

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Micrococcaceae

Genus Nesterenkonia

Species Nesterenkonia lutea

Full scientific name Nesterenkonia lutea Li et al. 2005

Morphology

Cell morphology

@ref	Gram stain	Cell shape
31313	positive	coccus-shaped
67771	positive
120684	positive	coccus-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6021	MODIFIED ISP5 MEDIUM WITH SODIUM CHLORIDE (DSMZ Medium 993c)	Medium recipe at MediaDive	Name: MODIFIED ISP5 MEDIUM WITH SODIUM CHLORIDE (DSMZ Medium 993c) Composition: NaCl 100.0 g/l Agar 20.0 g/l Glycerol 10.0 g/l L-Asparagine 1.0 g/l K2HPO4 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water
37437	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
120684	CIP Medium 13	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6021	positive	growth	28
37437	positive	growth	30
67770	positive	growth	28
67771	positive	growth	30
120684	positive	growth	10-37
120684	negative	growth	41
120684	negative	growth	45

Culture pH

@ref	Ability	Type	PH	PH range
31313	positive	optimum	7.5
31313	positive	growth	6.5-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
67771	aerobe
120684	microaerophile

Spore formation

@ref	Spore formation	Confidence
31313
125439		96.1

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31313	NaCl	positive	growth	0-20 %
31313	NaCl	positive	optimum	7.5 %

Murein

@ref	Murein short key	Type
6021	A11.42	A4alpha L-Lys-Gly-D-Asp

Observation

@ref	Observation
67770	quinones: MK-8, MK-7
67771	quinones: MK-8, MK-7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31313	22599 ChEBI	arabinose	+	carbon source
31313	17057 ChEBI	cellobiose	+	carbon source
31313	23652 ChEBI	dextrin	+	carbon source
31313	28757 ChEBI	fructose	+	carbon source
31313	28260 ChEBI	galactose	+	carbon source
31313	17234 ChEBI	glucose	+	carbon source
120684	606565 ChEBI	hippurate	-	hydrolysis
31313	17306 ChEBI	maltose	+	carbon source
31313	29864 ChEBI	mannitol	+	carbon source
31313	37684 ChEBI	mannose	+	carbon source
31313	17632 ChEBI	nitrate	+	reduction
120684	17632 ChEBI	nitrate	-	reduction
120684	16301 ChEBI	nitrite	-	reduction
31313	17814 ChEBI	salicin	+	carbon source
31313	17992 ChEBI	sucrose	+	carbon source
31313	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
120684	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
120684	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
120684	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
120684	amylase	-
68382	beta-galactosidase	+	3.2.1.23	from API zym
120684	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
120684	caseinase	-	3.4.21.50
120684	catalase	+	1.11.1.6
120684	coagulase	-
68382	cystine arylamidase	-	3.4.11.3	from API zym
120684	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
120684	gamma-glutamyltransferase	-	2.3.2.2
120684	gelatinase	-
120684	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
120684	lipase	-
68382	lipase (C 14)	-		from API zym
120684	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
120684	ornithine decarboxylase	-	4.1.1.17
120684	oxidase	-
120684	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
120684	tween esterase	-
120684	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
120684	-	-	+	-	-	+	-	-	-	-	-	+	-	+	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
6021	soil	Xinjiang province	China	CHN	Asia
67770	Saline soil	Xinjiang Province	China	CHN	Asia
67771	Saline soil	Xinjiang Province	China	CHN	Asia
120684	Environment, Soil	Xinjiang	China	CHN	Asia	2002

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6021	1	Risk group (German classification) According to TRBA 466
120684	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1487395v1 assembly for Nesterenkonia lutea DSM 15666	contig	GCA_014873955	272919.13	2870870664	272919	71.94
124043	ASM3952821v1 assembly for Nesterenkonia lutea JCM 13019	contig	GCA_039528215			272919	52.28

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
6021	Nesterenkonia luteus strain YIM 70081 16S ribosomal RNA gene, partial sequence	AY588278	1502	272919
124043	Nesterenkonia lutea strain YIM 70081 16S ribosomal RNA gene, partial sequence.	MW111256	601	272919
124043	Nesterenkonia lutea strain YIM 70081 16S ribosomal RNA gene, partial sequence.	PQ248418	599	272919

GC content

@ref	GC-content (mol%)	Method
6021	64.5
67770	64.5	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nesterenkonia lutea DSM 15666
NCBI: GCA_014873955

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.10	no
125439	motility	BacteriaNetⓘ	yes	56.00	no
125439	gram_stain	BacteriaNetⓘ	positive	68.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	77.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nesterenkonia lutea strain DSM 15666
PATRIC: 272919.13

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.78	no
125438	anaerobic	anaerobicⓘ	no	95.87	yes
125438	spore-forming	spore-formingⓘ	no	74.64	no
125438	aerobic	aerobicⓘ	yes	88.33	no
125438	thermophilic	thermophileⓘ	no	87.85	yes
125438	flagellated	motile2+ⓘ	no	76.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative Genomic Analyses of the Genus Nesterenkonia Unravels the Genomic Adaptation to Polar Extreme Environments.	Dai D, Lu H, Xing P, Wu Q.	Microorganisms	10.3390/microorganisms10020233	2022
Genetics	Comparative Genome Analysis of a Novel Alkaliphilic Actinobacterial Species Nesterenkonia haasae.	Wang S, Sun L, Narsing Rao MP, Fang BZ, Li WJ.	Pol J Microbiol	10.33073/pjm-2022-040	2022
	Groups of Geomicrobiological Indicators Are Spread across Gas-Hydrate and Non-Gas-Hydrate Areas in the Northern Part of the Sea of Japan.	Ponomareva AL, Eskova AI, Shakirov RB, Syrbu NS, Legkodimov AA, Grigorov RA.	Biology (Basel)	10.3390/biology11121802	2022
	Atopic keratoconjunctivitis complicated by Kocuria koreensis keratitis: the first case.	Inada N, Shoji J, Yamagami S.	Allergy Asthma Clin Immunol	10.1186/s13223-017-0178-9	2017
	Bacteria Isolated From the Antarctic Sponge Iophon sp. Reveals Mechanisms of Symbiosis in Sporosarcina, Cellulophaga, and Nesterenkonia.	Moreno-Pino M, Ugalde JA, Valdes JH, Rodriguez-Marconi S, Parada-Pozo G, Trefault N.	Front Microbiol	10.3389/fmicb.2021.660779	2021
	Nesterenkonia marinintestina sp. nov., isolated from the fish intestine.	Zhao A, Cai H, Huang Y, Yang Q, Zhu Z, Zhou Y, Jiang M, Jiang Y, Huang W.	Arch Microbiol	10.1007/s00203-023-03825-0	2024
Phylogeny	Nesterenkonia aurantiaca sp. nov., an alkaliphilic actinobacterium isolated from Antarctica.	Finore I, Orlando P, Di Donato P, Leone L, Nicolaus B, Poli A	Int J Syst Evol Microbiol	10.1099/ijsem.0.000917	2016
Phylogeny	Nesterenkonia sandarakina sp. nov. and Nesterenkonia lutea sp. nov., novel actinobacteria, and emended description of the genus Nesterenkonia.	Li WJ, Chen HH, Kim CJ, Zhang YQ, Park DJ, Lee JC, Xu LH, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.63281-0	2005

References

#6021	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15666
#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 )
#27628	IJSEM 463 2005 ( DOI 10.1099/ijs.0.63281-0 , PubMed 15653919 )
#31313	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 #27628
#37437	; 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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68382	Automatically annotated from API zym .
#120684	Collection of Institut Pasteur ; Curators of the CIP; CIP 107970
#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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Nesterenkonia lutea (DSM 15666, CCTCC AA 203010, CIP 108679)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014873955

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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