Hoyosella rhizosphaerae (DSM 101985, CGMCC 1.15478, J12GA03)

Name: Hoyosella rhizosphaerae (DSM 101985, CGMCC 1.15478, J12GA03)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132659

Type strain

Strain Designation J12GA03

Culture col. no. DSM 101985 CGMCC 1.15478 J12GA03 JCM 32492

NCBI tax ID(s) 1755582

Special Collections DSMZ JCM Literature strains

History DSMZ <- Xiao-Jun Li, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences, Beijing, China; J12GA03 JCM <-- CGMCC 1.15478 <-- X.-J. Li; Inst. of Med. Biotechnol., Chin. Acad. of Med. Sci. & Peking Union Med. Coll., China; J12GA03.

Links

Hoyosella rhizosphaerae J12GA03 is an aerobe, halotolerant, Gram-positive bacterium that forms circular colonies and was isolated from rhizosphere soil sample of Suaeda salsa collected from a dried saline lake.

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

Name and taxonomic classification

SI-ID 398310

DSM 101985

@ref 20215

Last LPSN update 2026-05-29 08:37:55

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Hoyosella

Species Hoyosella rhizosphaerae

Full scientific name Hoyosella rhizosphaerae Li et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape	Confidence
24975	positive	0.7-0.9 µm	coccus-shaped
125438	positive			91.756
125438				93

Colony morphology

@ref	Colony color	Colony shape	Medium used
24975	moderate or light yellowish-pink	circular	BHI agar
24975	moderate or light yellowish-pink		Yeast extract-malt extract agar (ISP2)
24975	moderate or light yellowish-pink		Bennett’s agar
24975	pinkish-white		TSA (Trypticase soy agar)
24975	pinkish-white		ASW agar

Multimedia

@ref:	24448
multimedia content:	DSM_101985.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_101985.jpg
caption:	Medium 535 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	24448
multimedia content:	DSM_101985-1.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_101985-1.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
24975	BHI agar
24975	TSA (Trypticase soy agar)
24975	Yeast extract-malt extract agar (ISP2)
24975	Bennett’s agar
24975	ASW agar
24448	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

Culture temp

@ref	Growth	Type	Temperature (°C)
24448	positive	growth	37
24975	positive	optimum	28.0-37.0
24975	positive	growth	20.0-42.0
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
24975	positive	optimum	6.5-7.5
24975	positive	growth	5.5-9.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
24975	aerobe
125439	obligate aerobe	98.877

Spore formation

@ref	Spore formation	Confidence
24975
125439		97.344

Halophily

@ref	Halophily level	Salt	Tested relation	Concentration	Growth
24975	halotolerant	NaCl	optimum	0.0-3.0 %(w/v)
24975		NaCl	growth	0.0-8.0 %(w/v)	positive

Murein

@ref	Murein short key	Type
24975	A31	A1gamma m-Dpm-direct

Observation

67770

Observationquinones: MK-8, MK-7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
24975	58143 ChEBI	5-dehydro-D-gluconate	+	builds acid from
24975	30089 ChEBI	acetate	+	carbon source
24975	17925 ChEBI	alpha-D-glucose	+	carbon source
24975	36219 ChEBI	alpha-lactose	+	carbon source
24975	17057 ChEBI	cellobiose	-	builds acid from
24975	17057 ChEBI	cellobiose	+	carbon source
24975	62968 ChEBI	cellulose	-	hydrolysis
24975	16947 ChEBI	citrate	+	carbon source
24975	17108 ChEBI	D-arabinose	-	builds acid from
24975	18333 ChEBI	D-arabitol	-	builds acid from
24975	18333 ChEBI	D-arabitol	+	carbon source
24975	15824 ChEBI	D-fructose	+	carbon source
24975	78697 ChEBI	D-fructose 6-phosphate	+	carbon source
24975	28847 ChEBI	D-fucose	+	carbon source
24975	12936 ChEBI	D-galactose	+	carbon source
24975	17634 ChEBI	D-glucose	-	builds acid from
24975	17634 ChEBI	D-glucose	+	builds acid from
24975	14314 ChEBI	D-glucose 6-phosphate	+	carbon source
24975	16899 ChEBI	D-mannitol	+	carbon source
24975	16024 ChEBI	D-mannose	+	carbon source
24975	16988 ChEBI	D-ribose	+	builds acid from
24975	17924 ChEBI	D-sorbitol	+	carbon source
24975	16443 ChEBI	D-tagatose	+	builds acid from
24975	23652 ChEBI	dextrin	+	carbon source
24975	4853 ChEBI	esculin	-	builds acid from
24975	28066 ChEBI	gentiobiose	+	carbon source
24975	17754 ChEBI	glycerol	+	carbon source
24975	17754 ChEBI	glycerol	+	builds acid from
24975	17596 ChEBI	inosine	-	carbon source
24975	30849 ChEBI	L-arabinose	-	builds acid from
24975	18287 ChEBI	L-fucose	+	carbon source
24975	62345 ChEBI	L-rhamnose	+	carbon source
24975	25115 ChEBI	malate	+	carbon source
24975	17306 ChEBI	maltose	-	builds acid from
24975	17306 ChEBI	maltose	+	carbon source
24975	6731 ChEBI	melezitose	-	builds acid from
24975	28053 ChEBI	melibiose	+	carbon source
24975	17268 ChEBI	myo-inositol	+	carbon source
24975	63154 ChEBI	N-acetyl-beta-D-mannosamine	+	carbon source
24975	506227 ChEBI	N-acetylglucosamine	+	carbon source
24975	17632 ChEBI	nitrate	+	reduction
24975	17309 ChEBI	pectin	+	carbon source
24975	17272 ChEBI	propionate	+	carbon source
24975	16634 ChEBI	raffinose	-	carbon source
24975	17814 ChEBI	salicin	-	carbon source
24975	17814 ChEBI	salicin	-	builds acid from
24975	17164 ChEBI	stachyose	-	carbon source
24975	28017 ChEBI	starch	-	hydrolysis
24975	17992 ChEBI	sucrose	-	carbon source
24975	17992 ChEBI	sucrose	-	builds acid from
24975	27082 ChEBI	trehalose	+	carbon source
24975	27082 ChEBI	trehalose	+	builds acid from
24975	32528 ChEBI	turanose	-	builds acid from
24975	32528 ChEBI	turanose	+	carbon source
24975	53424 ChEBI	tween 20	-	hydrolysis
24975	53423 ChEBI	tween 40	+	hydrolysis
24975	53426 ChEBI	tween 80	-	hydrolysis
24975	17151 ChEBI	xylitol	-	builds acid from

Antibiotic resistance

@ref	ChEBI	Group ID	Metabolite	Sensitivity conc.
24975	2637		amikacin
24975	2676		amoxicillin
24975	2676	10	amoxicillin
24975	28971		ampicillin
24975	124991		cefalotin
24975	478164		cefepime
24975	204928		cefotaxime
24975	3508		ceftazidime
24975	29007		ceftriaxone
24975	17698		chloramphenicol
24975	100241		ciprofloxacin
24975	3732		clarithromycin
24975	48947	10	clavulanic acid
24975	48947	18	clavulanic acid
24975	3745		clindamycin
24975	3770		co-trimoxazole
24975	48923		erythromycin
24975	17833		gentamicin
24975	43968		meropenem
24975	17334		penicillin
24975	28077		rifampicin
24975	9332		sulfamethoxazole	300 µg
24975	9587	18	ticarcillin
24975	28001		vancomycin

Metabolite production

@ref	Chebi-ID	Metabolite	Production
24975	16136 ChEBI	hydrogen sulfide

Enzymes

@ref	Value	Activity	Ec
24975	acid phosphatase	+	3.1.3.2
24975	alkaline phosphatase	+	3.1.3.1
24975	alpha-chymotrypsin	-	3.4.21.1
24975	alpha-fucosidase	-	3.2.1.51
24975	alpha-galactosidase	-	3.2.1.22
24975	alpha-glucosidase	+	3.2.1.20
24975	alpha-mannosidase	-	3.2.1.24
24975	beta-galactosidase	-	3.2.1.23
24975	beta-glucosidase	-	3.2.1.21
24975	beta-glucuronidase	-	3.2.1.31
24975	catalase	+	1.11.1.6
24975	cystine arylamidase	+	3.4.11.3
24975	cytochrome oxidase	-	1.9.3.1
24975	esterase (C 4)	+
24975	esterase Lipase (C 8)	+
24975	leucine arylamidase	+	3.4.11.1
24975	lipase (C 14)	+
24975	N-acetyl-beta-glucosaminidase	-	3.2.1.52
24975	naphthol-AS-BI-phosphohydrolase	+
24975	trypsin	-	3.4.21.4
24975	urease	+	3.5.1.5
24975	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Condition	#Saline	-
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature
24448	rhizosphere soil sample of Suaeda salsa collected from a dried saline lake	Suaeda salsa	Hebei Province, Jiuliancheng Nur (41° 33' 58.94'' N 115° 00' 19.86'' E)	China	CHN	Asia	41.5664	115.006 41.5664/115.006
24975	rhizosphere soil sample of Suaeda salsa		Jiuliancheng Nur, a dried saline lake located in Hebei Province						Gauzeâ??s medium no. one agar	containing l-1: 20.0 g soluble starch, 1.0 g KNO3 , 0.5 g K2HPO4 ,0.24 g MgSO4 , 0.5 g NaCl, 0.01 g FeSO4 , 18.0 g agar supplemented with cycloheximide (45.0 mg l-1), nalidixic acid (25.0mg l-1) and potassium dichromate (45.0 mg l-1)	35 days	28
67770	Rhizosphere soil of Suaeda salsa in Jiuliancheng Nur (a dried saline lake)	Suaeda salsa	Hebei Province	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence KU051698 (>99% sequence identity) for Hoyosella rhizosphaerae subclade from Microbeatlas

Aquatic Samples	212
Soil Samples	400
Animal Samples	190
Plant Samples	64
Total Samples	866

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24448	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1464317v1 assembly for Hoyosella rhizosphaerae CGMCC 1.15478	contig	GCA_014643175	1755582.3	2995059827	1755582	74.99
66792	ASM1715202v1 assembly for Hoyosella rhizosphaerae J12GA03	scaffold	GCA_017152025	1755582.4	8117758641	1755582	73.95

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24448	Hoyosella rhizosphaerae strain J12GA03 16S ribosomal RNA gene, partial sequence	KU051698	1483		1755582

GC content

@ref	GC-content (mol%)	Method
24975	55.8	Thermal denaturation, fluorometry
24448	55.8	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: ASM1464317v1 assembly for Hoyosella rhizosphaerae CGMCC 1.15478
NCBI: GCA_014643175

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.88	no
125439	motility	BacteriaNetⓘ	no	89.90	no
125439	gram_stain	BacteriaNetⓘ	positive	87.69	no
125439	spore_formation	BacteriaNetⓘ	no	97.34	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Hoyosella rhizosphaerae J12GA03
NCBI: GCA_017152025.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.76	no
125438	anaerobic	anaerobicⓘ	no	98.31	no
125438	aerobic	aerobicⓘ	yes	87.00	yes
125438	spore-forming	spore-formingⓘ	no	55.99	yes
125438	thermophilic	thermophileⓘ	no	96.47	no
125438	flagellated	motile2+ⓘ	no	93.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hoyosella suaedae sp. nov., a novel bacterium isolated from rhizosphere soil of Suaeda aralocaspica (Bunge) Freitag & Schutze.	Liu DF, Chen SQ, Wang HF, Xie YG, Gao R, Song JQ, Gao YL, Xiao M, Li QL, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.005117	2021
Phylogeny	Hoyosella rhizosphaerae sp. nov., a halotolerant actinobacterium isolated from rhizosphere soil of Suaeda salsa, and emended description of the genus Hoyosella.	Li XJ, Liu SW, Jiang ZK, Wu G, Sun CH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001416	2016

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 )
#24448	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 101985
#24975	X.-J. L. Li, Shao-Wei,Jiang, Zhong-Ke,Wu, Gang,Sun, Cheng-Hang: Hoyosella rhizosphaerae sp. nov., a halotolerant actinobacterium isolated from rhizosphere soil of Suaeda salsa, and emended description of the genus Hoyosella. IJSEM 66: 4716 - 4722 2016 ( DOI 10.1099/ijsem.0.001416 , PubMed 27515094 )
#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;
#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 )

Content

About us

Hoyosella rhizosphaerae (DSM 101985, CGMCC 1.15478, J12GA03)

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

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014643175

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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