Jonesia quinghaiensis (DSM 15701, CGMCC 1.3459, CIP 108595)

Name: Jonesia quinghaiensis (DSM 15701, CGMCC 1.3459, CIP 108595)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6315

Type strain

Strain Designation QH3A7

Culture col. no. DSM 15701 CGMCC 1.3459 CIP 108595 QH3A7 JCM 13009

NCBI tax ID(s) 1122130 262806

Special Collections DSMZ JCM CIP Wink compendium Literature strains

History <- X. Cui; QH3A7 CGMCC 1.3459 <-- X. Cui QH3A7. CIP <- 2004, DSMZ <- X. Cui: strain QH3A7

Links

Jonesia quinghaiensis QH3A7 is an obligate aerobe, Gram-positive, rod-shaped bacterium that was isolated from mud sample from Quinghai lake.

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

Name and taxonomic classification

SI-ID 128642

DSM 15701,CGMCC 1.3459,CIP 108595,JCM 13009

@ref 20215

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

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Jonesiaceae

Genus Jonesia

Species Jonesia quinghaiensis

Full scientific name Jonesia quinghaiensis Schumann et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31289	positive	1.75 µm	0.5 µm	rod-shaped
122110	positive			rod-shaped
125439	positive				99.8
125439					99.5

Colony morphology

@ref	Colony color	Incubation period	Medium used
18524	Pale yellow	10-14 days	ISP 4
122110

Multicellular morphology

@ref	Forms multicellular complex	Medium name
18524		ISP 4

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6067	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)	Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
6067	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
18524	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
40033	Marine agar (MA)		Distilled water make up to (1000.000 ml);Marine agar (55.100 g)
122110	CIP Medium 13	Medium recipe at CIP
122110	CIP Medium 338	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6067	positive	growth	28
18524	positive	optimum	28
31289	positive	growth	20-30
31289	positive	optimum	25
40033	positive	growth	30
67770	positive	growth	28
122110	positive	growth	10-37
122110	negative	growth	5
122110	negative	growth	41
122110	negative	growth	45

Culture pH

@ref	Ability	Type	PH	PH range
31289	positive	optimum	8
31289	positive	growth	07-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
122110	obligate aerobe
125439	facultative anaerobe	97.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31289	NaCl	positive	growth	2-7.5 %
31289	NaCl	positive	optimum	4.75 %

Observation

67770

Observationquinones: MK-9, MK-8, MK-7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31289	22599 ChEBI	arabinose	+	carbon source
31289	17057 ChEBI	cellobiose	+	carbon source
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
122110	4853 ChEBI	esculin	+	hydrolysis
31289	28757 ChEBI	fructose	+	carbon source
31289	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
31289	24265 ChEBI	gluconate	+	carbon source
31289	17234 ChEBI	glucose	+	carbon source
31289	17754 ChEBI	glycerol	+	carbon source
31289	28087 ChEBI	glycogen	+	carbon source
31289	17716 ChEBI	lactose	+	carbon source
31289	37684 ChEBI	mannose	+	carbon source
31289	28053 ChEBI	melibiose	+	carbon source
122110	17632 ChEBI	nitrate	+	reduction
122110	17632 ChEBI	nitrate	-	respiration
122110	16301 ChEBI	nitrite	-	reduction
31289	17814 ChEBI	salicin	+	carbon source
31289	17992 ChEBI	sucrose	+	carbon source
68379	17992 ChEBI	sucrose	+	fermentation	from API Coryne
31289	27082 ChEBI	trehalose	+	carbon source
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
31289	18222 ChEBI	xylose	+	carbon source

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
122110	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122110	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
122110	15688 ChEBI	acetoin	-
122110	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
122110	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-fucosidase	-	3.2.1.51	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
68382	beta-galactosidase	+	3.2.1.23	from API zym
122110	beta-galactosidase	+	3.2.1.23
68379	beta-galactosidase	+	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
122110	catalase	+	1.11.1.6
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	+		from API Coryne
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	+		from API zym
122110	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
122110	ornithine decarboxylase	-	4.1.1.17
122110	oxidase	+
68379	pyrazinamidase	+	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	+	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
122110	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
18524	not determinedn.d.	+	+	-	-	+	+	+	+	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	+	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
18524	not determinedn.d.	-	+	+	+	+	+	+	-	+	-	-	+	+	+	+	+	+	-	-
122110	-	-	+	+	+	+	-	-	-	-	-	+	-	+	-	+	+	+	-	-

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
122110	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Terrestrial	#Mud (Sludge)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6067	mud sample from Quinghai lake	Qinghai, Qinghai lake	China	CHN	Asia
67770	Mud sample of a soda lake		China	CHN	Asia
122110	Environment, Mud sample	Quinghai lake	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AJ626896 (>99% sequence identity) for Jonesia from Microbeatlas

Aquatic Samples	252
Soil Samples	187
Animal Samples	473
Plant Samples	65
Total Samples	977

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6067	1	Risk group (German classification) According to TRBA 466
122110	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
67770	ASM42320v1 assembly for Jonesia quinghaiensis DSM 15701	scaffold	GCA_000423205	1122130.4	2524614800	1122130	74.9

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31289	Jonesia qinghaiensis 16S rRNA gene, type strain DSM 15701	AJ626896	1535		262806

GC content

@ref	GC-content (mol%)	Method
31289	57
67770	57.3	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: Jonesia quinghaiensis DSM 15701
NCBI: GCA_000423205

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	84.50	no
125439	motility	BacteriaNetⓘ	no	99.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	97.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Jonesia quinghaiensis DSM 15701
PATRIC: 1122130.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.03	yes
125438	anaerobic	anaerobicⓘ	no	89.32	yes
125438	spore-forming	spore-formingⓘ	no	71.63	no
125438	aerobic	aerobicⓘ	yes	63.78	no
125438	thermophilic	thermophileⓘ	no	93.49	no
125438	flagellated	motile2+ⓘ	no	58.87	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	A persistent and diverse airway microbiota present during chronic obstructive pulmonary disease exacerbations.	Huang YJ, Kim E, Cox MJ, Brodie EL, Brown R, Wiener-Kronish JP, Lynch SV.	OMICS	10.1089/omi.2009.0100	2010
Phylogeny	Jonesia luteola sp. nov., a bacterium isolated from Xinjiang Province, China.	Li Y, Zhang YJ, Ma YC, Gong ZL, Jia M, Tian F, Klenk HP, Tang SK	Antonie Van Leeuwenhoek	10.1007/s10482-015-0516-1	2015
Phylogeny	Jonesia quinghaiensis sp. nov., a new member of the suborder Micrococcineae.	Schumann P, Cui X, Stackebrandt E, Kroppenstedt RM, Xu L, Jiang C	Int J Syst Evol Microbiol	10.1099/ijs.0.63223-0	2004

References

#6067	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15701
#18524	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#27608	IJSEM 2181 2004 ( DOI 10.1099/ijs.0.63223-0 , PubMed 15545455 )
#31289	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 #27608
#40033	; 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 .
#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 .
#122110	Collection of Institut Pasteur ; Curators of the CIP; CIP 108595
#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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Jonesia quinghaiensis (DSM 15701, CGMCC 1.3459, CIP 108595)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

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_000423205

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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