Nocardioides houyundeii (DSM 106424, CGMCC 4.7461, 78)

Name: Nocardioides houyundeii (DSM 106424, CGMCC 4.7461, 78)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158314

Type strain

Strain Designation 78

Culture col. no. DSM 106424 CGMCC 4.7461 78

NCBI tax ID(s) 2045452

Special Collections DSMZ Literature strains

History DSMZ <- X. Wang, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infections Disease Prevention and Control, Beijing, P.R. China; 78

Links

Nocardioides houyundeii 78 is an aerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from feces of the Tibetan antelope.

Gram-positive rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 399542

DSM 106424

@ref 20215

Last LPSN update 2026-05-29 08:43:56

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides houyundeii

Full scientific name Nocardioides houyundeii Wang et al. 2018

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
66779	positive	1.0-2.5 µm	0.6-1.2 µm	rod-shaped
125439					92.877
125439	positive				99.731

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
66779	1-2 mm	cream	circular	5 days	BHI-5% sheep blood agar

Multimedia

@ref:	64990
multimedia content:	DSM_106424.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_106424.jpg
caption:	Medium 215 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
64990	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
64990	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
64990	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
64990	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
66779	BHI-5% sheep blood agar
66779	BHI agar
66779	Reasoner's 2A agar (R2A)
66779	tryptic soy agar (TSA)

Culture temp

@ref	Growth	Type	Temperature (°C)
64990	positive	growth	28
66779	positive	optimum	28
66779	positive	growth	14-32

Culture pH

@ref	Ability	Type	PH
66779	positive	optimum	7
66779	positive	growth	6.5-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
66779	aerobe
125439	facultative anaerobe	97.671

Halophily

@ref	Salt	Growth	Tested relation	Concentration
66779	NaCl	positive	growth	0.5-1.5 %(w/v)

Observation

66779

ObservationThe predominant menaquinone is MK-8 (H4) and the polar lipids include diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, an unidentified phospholipid and an unidentified lipid.

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
66779	27613 ChEBI	amygdalin	-	builds acid from
66779	22605 ChEBI	arabinitol	-	builds acid from
66779	18305 ChEBI	arbutin	-	builds acid from
66779	17057 ChEBI	cellobiose	-	builds acid from
66779	17108 ChEBI	D-arabinose	-	builds acid from
66779	15824 ChEBI	D-fructose	-	builds acid from
66779	28847 ChEBI	D-fucose	-	builds acid from
66779	12936 ChEBI	D-galactose	-	builds acid from
66779	17634 ChEBI	D-glucose	-	builds acid from
66779	16899 ChEBI	D-mannitol	-	builds acid from
66779	16024 ChEBI	D-mannose	-	builds acid from
66779	16988 ChEBI	D-ribose	+	builds acid from
66779	17924 ChEBI	D-sorbitol	-	builds acid from
66779	65327 ChEBI	D-xylose	-	builds acid from
66779	17113 ChEBI	erythritol	-	builds acid from
66779		esculin ferric citrate	+	builds acid from
66779	16813 ChEBI	galactitol	-	builds acid from
66779	17754 ChEBI	glycerol	-	builds acid from
66779	28087 ChEBI	glycogen	-	builds acid from
66779	15443 ChEBI	inulin	-	builds acid from
66779	30849 ChEBI	L-arabinose	-	builds acid from
66779	18287 ChEBI	L-fucose	-	builds acid from
66779	62345 ChEBI	L-rhamnose	-	builds acid from
66779	17266 ChEBI	L-sorbose	-	builds acid from
66779	17716 ChEBI	lactose	-	builds acid from
66779	17306 ChEBI	maltose	-	builds acid from
66779	6731 ChEBI	melezitose	-	builds acid from
66779	28053 ChEBI	melibiose	-	builds acid from
66779	320061 ChEBI	methyl alpha-D-glucopyranoside	+	builds acid from
66779	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
66779	17268 ChEBI	myo-inositol	-	builds acid from
66779	59640 ChEBI	N-acetylglucosamine	-	builds acid from
66779	32032 ChEBI	potassium gluconate	-	builds acid from
66779	16634 ChEBI	raffinose	-	builds acid from
66779	15963 ChEBI	ribitol	-	builds acid from
66779	17814 ChEBI	salicin	-	builds acid from
66779	17992 ChEBI	sucrose	-	builds acid from
66779	27082 ChEBI	trehalose	-	builds acid from
66779	18222 ChEBI	xylose	-	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
66779	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
66779	acid phosphatase	-	3.1.3.2
66779	alkaline phosphatase	+	3.1.3.1
66779	alpha-chymotrypsin	-	3.4.21.1
66779	alpha-fucosidase	-	3.2.1.51
66779	alpha-galactosidase	-	3.2.1.22
66779	alpha-glucosidase	+	3.2.1.20
66779	beta-galactosidase	-	3.2.1.23
66779	beta-glucosidase	-	3.2.1.21
66779	beta-glucuronidase	-	3.2.1.31
66779	beta-mannosidase	-	3.2.1.25
66779	catalase	+	1.11.1.6
66779	cystine arylamidase	-	3.4.11.3
66779	cytochrome oxidase	-	1.9.3.1
66779	esterase (C 4)	+
66779	esterase Lipase (C 8)	+
66779	gelatinase	-
66779	leucine arylamidase	+	3.4.11.1
66779	lipase (C 14)	-
66779	N-acetyl-beta-glucosaminidase	-	3.2.1.52
66779	naphthol-AS-BI-phosphohydrolase	+
66779	nitrate reductase	-	1.7.99.4
66779	trypsin	-	3.4.21.4
66779	urease	-	3.5.1.5
66779	valine arylamidase	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Caprinae (Sheep/Goat)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
64990	feces of the Tibetan antelope		qinghai province, haixi city, Kekexili (35° 21' 55.7'' N, 93° 26' 38'' E)	China	CHN	Asia	35.3655	93.4439 35.3655/93.4439
66779	faecal sample of Tibetan antelope	2014	Hoh Xil Nature Reserve, Qinghai-Tibet Plateau	China	CHN	Asia	35.3655	93.4439 35.3655/93.4439	brain-heart infusion (BHI) agar	supplemented with 5% sheep blood (per litre: 12.5 g brain infusion solids, 5 g beefheart infusion solids, 10 g proteose peptone, 5 g NaCl, 2 g glucose, 2.5 g disodium phosphate, 10 g agar and 50 ml sterile defibrinated sheep blood; pH 7.4)	7 days	28	The faecal samples were processed as follows: the sample (1 g) was suspended in 200 µl of sterile water, 100 µl of the suspension was spread on brain-heart infusion (BHI) agar

Taxonmaps

69479

Global distribution of 16S sequence MG209819 (>99% sequence identity) for Nocardioides houyundeii subclade from Microbeatlas

Aquatic Samples	162
Soil Samples	2082
Animal Samples	286
Plant Samples	170
Total Samples	2700

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM286558v1 assembly for Nocardioides houyundeii 78	complete	GCA_002865585	2045452.4	2775506984	2045452	96.2

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66779	Nocardioides houyundeii 16S ribosomal RNA gene, partial sequence	MG209819	1480		35761

GC content

@ref	GC-content (mol%)	Method
66779	71.2	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM286558v1 assembly for Nocardioides houyundeii 78
NCBI: GCA_002865585

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	positive	99.73	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	97.67	no
125439	motility	BacteriaNetⓘ	no	92.88	no
125439	spore_formation	BacteriaNetⓘ	yes	42.76	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides houyundeii 78
NCBI: GCA_002865585.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	87.39	yes
125438	anaerobic	anaerobicⓘ	no	95.37	yes
125438	aerobic	aerobicⓘ	yes	86.15	no
125438	spore-forming	spore-formingⓘ	no	56.47	no
125438	thermophilic	thermophileⓘ	no	95.49	yes
125438	flagellated	motile2+ⓘ	no	61.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides houyundeii sp. nov., isolated from Tibetan antelope faeces.	Wang X, Yang J, Lu S, Lai XH, Jin D, Pu J, Zhang G, Huang Y, Zhu W, Wu X, Liang H, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003076	2018

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 )
#64990	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106424
#66779	Xiaoxia Wang, Jing Yang, Shan Lu, Xin-He Lai, Dong Jin, Ji Pu, Gui Zhang, Ying Huang, Wentao Zhu, Xiaomin Wu, Hao Liang and Jianguo Xu: Nocardioides houyundeii sp. nov., isolated from Tibetan antelope faeces. IJSEM 68: 3874 - 3880 2018 ( DOI 10.1099/ijsem.0.003076 , PubMed 30362934 )
#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) .
#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 .
#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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Nocardioides houyundeii (DSM 106424, CGMCC 4.7461, 78)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002865585

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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