Nocardia caishijiensis (DSM 44831, AS 4.1728, IFM 10344)

Name: Nocardia caishijiensis (DSM 44831, AS 4.1728, IFM 10344)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10788

Type strain

Strain Designation F829

Culture col. no. DSM 44831 AS 4.1728 IFM 10344 JCM 11508 F829 5 more

NCBI tax ID(s) 1210070 184756

Special Collections DSMZ JCM CIP Wink compendium

History <- CGMCC <- Z. Liu; F829 Z. Liu F829. CIP <- 2003, JCM <- 2002, Z. Liu, Chinese Acad. Sci., Beijing, China: strain F829

Links

Nocardia caishijiensis F829 is an obligate aerobe, Gram-positive, rod-shaped bacterium that builds an aerial mycelium and was isolated from soil.

Gram-positive rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 111741

JCM 11508,NBRC 108228,AS 4.1728,DSM 44831,BCRC 16365,CCRC 16365,CIP 108001,CGMCC 4.1728,CIP 108101

@ref 20215

Last LPSN update 2026-02-09 11:20:21

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Nocardia

Species Nocardia caishijiensis

Full scientific name Nocardia caishijiensis Zhang et al. 2003

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
117096	positive	rod-shaped
125439			94.2
125439	positive		99.6

Colony morphology

@ref	Colony color	Medium used
69364	Colourless	ISP 3
69364	Colourless	ISP 4
69364	Colourless	ISP 6
69364	Beige red (3012)	ISP 2
69364	Grey brown (8019)	ISP 5
69364	Olive drab (6022)	ISP 7
69364	Olive drab (6022)	suter with tyrosine
69364	Olive drab (6022)	suter without tyrosine
117096

Multicellular morphology

@ref	Complex name	Complex color	Medium name
69364	Aerial mycelium		ISP 2
69364	Aerial mycelium		ISP 3
69364	Aerial mycelium		ISP 4
69364	Aerial mycelium	Cream (9001)	ISP 5
69364	Aerial mycelium		ISP 6
69364	Aerial mycelium	Oyster white (1013)	ISP 7
69364	Aerial mycelium	Pure white (9010)	suter with tyrosine
69364	Aerial mycelium	Pure white (9010)	suter without tyrosine

Pigmentation

@ref	Production	Color	Name
69364			melanin pigment
69364		Green beige (1000), beige grey (7006), ochre yellow (1024)	soluble pigment

Multimedia

@ref:	12013
multimedia content:	DSM_44831.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44831.jpg
caption:	Medium 553 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	69364
multimedia content:	DSM_44831_image3.jpeg
multimedia.multimedia content:	DSM_44831_image3.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

@ref:	69364
multimedia content:	DSM_44831_image4.jpeg
multimedia.multimedia content:	DSM_44831_image4.jpeg
caption:	Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)
intellectual property rights:	Helmholtz-Zentrum für Infektionsforschung GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12013	GPHF-MEDIUM (DSMZ Medium 553)	Medium recipe at MediaDive	Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
12013	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
39981	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
117096	CIP Medium 166	Medium recipe at CIP
117096	CIP Medium 72	Medium recipe at CIP
33189	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
12013	positive	growth	28
39981	positive	growth	30
67770	positive	growth	28
117096	positive	growth	25-37
117096	negative	growth	10
117096	negative	growth	41
117096	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
117096	obligate aerobe
125439	obligate aerobe	96.7

Spore formation

@ref	Spore formation	Confidence
125439		90.6

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69364	NaCl	positive	growth	0-2.5 %
117096	NaCl	positive	growth	0-4 %
117096	NaCl		growth	6 %
117096	NaCl		growth	8 %
117096	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-8(H₆, ω-cycl)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69364	22599 ChEBI	arabinose	-	growth
69364	62968 ChEBI	cellulose	-	growth
117096	16947 ChEBI	citrate	-	carbon source
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
117096	4853 ChEBI	esculin	-	hydrolysis
69364	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69364	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
117096	606565 ChEBI	hippurate	+	hydrolysis
69364	17268 ChEBI	inositol	-	growth
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69364	37684 ChEBI	mannose	-	growth
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
117096	17632 ChEBI	nitrate	+	reduction
117096	17632 ChEBI	nitrate	-	respiration
117096	16301 ChEBI	nitrite	-	reduction
69364	16634 ChEBI	raffinose	-	growth
69364	26546 ChEBI	rhamnose	-	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69364	17992 ChEBI	sucrose	+/-	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69364	18222 ChEBI	xylose	-	growth

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
117096	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
117096	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
117096	15688 ChEBI	acetoin	-
117096	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
117096	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
117096	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
117096	beta-galactosidase	+	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
117096	caseinase	-	3.4.21.50
117096	catalase	+	1.11.1.6
117096	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
117096	gamma-glutamyltransferase	+	2.3.2.2
117096	gelatinase	+/-
68379	gelatinase	-		from API Coryne
117096	lecithinase	-
117096	lipase	-
117096	lysine decarboxylase	+	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
117096	ornithine decarboxylase	-	4.1.1.17
117096	oxidase	-
117096	phenylalanine ammonia-lyase	-	4.3.1.24
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
117096	tryptophan deaminase	-
117096	tween esterase	-
117096	urease	+	3.5.1.5
68379	urease	-	3.5.1.5	from API Coryne

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69364	-	-	-	+	-	-	+	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

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
69364	not determinedn.d.	+	+	+	+/-	+/-	+/-	+/-	+/-	+/-	+	+	-	-	-	+	+/-	-	-	+/-
117096	-	+	+	+	-	+	-	-	-	-	+	-	-	-	-	+	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
117096	not determinedn.d.	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	+	-	-	-	+	-	-	-	+	-	+	+	-	-	-	-	+	-	-

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
12013	soil	Anhui Province	China	CHN	Asia
67770	Soil	Caishiji, Anhui Province	China	CHN	Asia
117096	Environment, Soil	Caishiji, Anhui	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence GQ376163 (>99% sequence identity) for Nocardia caishijiensis subclade from Microbeatlas

Aquatic Samples	5
Soil Samples	30
Animal Samples	19
Plant Samples	1
Total Samples	55

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12013	1	Risk group (German classification) According to TRBA 466
117096	2	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
67770	ASM985825v1 assembly for Nocardia caishijiensis DSM 44831	scaffold	GCA_009858255	184756.3	2770939494	184756	71.54
67770	ASM161282v1 assembly for Nocardia caishijiensis NBRC 108228	contig	GCA_001612825	1210070.4	2731957730	1210070	66.04

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Nocardia caishijiensis 16S ribosomal RNA gene, partial sequence	GQ376163	1441	184756
20218	Nocardia caishijiensis strain DSM 44831 16S ribosomal RNA gene, partial sequence	JN041450	462	184756
12013	Nocardia caishijiensis 16S ribosomal RNA gene, partial sequence	AF459443	1426	184756

GC content

@ref	GC-content (mol%)	Method
12013	69.4
67770	69.4	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: Nocardia caishijiensis DSM 44831
NCBI: GCA_009858255

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.70	no
125439	gram_stain	BacteriaNetⓘ	positive	99.60	no
125439	motility	BacteriaNetⓘ	no	94.20	no
125439	spore_formation	BacteriaNetⓘ	yes	90.60	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil.	Sazak A, Sahin N, Camas M	Int J Syst Evol Microbiol	10.1099/ijs.0.031559-0	2011
Phylogeny	Nocardia caishijiensis sp. nov., a novel soil actinomycete.	Zhang J, Liu Z, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.02397-0	2003

References

#12013	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44831
#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 )
#33189	Collection of Institut Pasteur ; Curators of the CIP; CIP 108001
#39981	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69364	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 .
#117096	Collection of Institut Pasteur ; Curators of the CIP; CIP 108101
#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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Nocardia caishijiensis (DSM 44831, AS 4.1728, IFM 10344)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API coryne

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_009858255

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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