Name: Hoyosella rhizosphaerae J12GA03
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132659

Type strain:

Species: Hoyosella rhizosphaerae

Strain Designation: J12GA03

Culture col. no.: DSM 101985, CGMCC 1.15478, JCM 32492

Strain history: CGMCC 1.15478 <-- X.-J. Li; Inst. of Med. Biotechnol., Chin. Acad. of Med. Sci. & Peking Union Med. Coll., China; J12GA03.

NCBI tax ID(s): 1755582 (species)

SI-ID 398310

DSM 101985

Special Collections

Section

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.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Hoyosella*
	Species	**Hoyosella rhizosphaerae**
	Full Scientific Name (LPSN)	Hoyosella rhizosphaerae Li et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #24975]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %91.756

[Ref.: #24975]	Cell length	0.7-0.9 µm

[Ref.: #24975]	Cell shape	coccus-shaped

[Ref.: #24975]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %93

[Ref.: #24975]	Colony color	moderate or light yellowish-pink
[Ref.: #24975]	Colony shape	circular
[Ref.: #24975]	Cultivation medium used	BHI agar

[Ref.: #24975]	Colony color	moderate or light yellowish-pink
[Ref.: #24975]	Cultivation medium used	Yeast extract-malt extract agar (ISP2)

[Ref.: #24975]	Colony color	moderate or light yellowish-pink
[Ref.: #24975]	Cultivation medium used	Bennett’s agar

[Ref.: #24975]	Colony color	pinkish-white
[Ref.: #24975]	Cultivation medium used	TSA (Trypticase soy agar)

[Ref.: #24975]	Colony color	pinkish-white
[Ref.: #24975]	Cultivation medium used	ASW agar

Multimedia content

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Caption:

Medium 535 37°C

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Intellectual property rights:

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

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Culture medium

BHI agar

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Culture medium growth

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Culture medium

TSA (Trypticase soy agar)

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Culture medium growth

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Culture medium

Yeast extract-malt extract agar (ISP2)

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Culture medium growth

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Culture medium

Bennett’s agar

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Culture medium growth

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Culture medium

ASW agar

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Culture medium growth

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Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #24448]	growth	37 °C
[Ref.: #24975]	optimum	28.0-37.0 °C
[Ref.: #24975]	growth	20.0-42.0 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #24975]			optimum	6.5-7.5
[Ref.: #24975]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #24975]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

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Halophily / tolerance level

halotolerant

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #24975]		NaCl		optimum	0.0-3.0	%(w/v)
[Ref.: #24975]		NaCl		growth	0.0-8.0	%(w/v)

[Ref.: #24975]	Murein short key	A31
[Ref.: #24975]	Murein types	A1gamma m-Dpm-direct

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Observation

quinones: MK-8, MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24975]	5-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #24975]	acetate ChEBI	+	carbon source
[Ref.: #24975]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #24975]	alpha-lactose ChEBI	+	carbon source
[Ref.: #24975]	cellobiose ChEBI	-	builds acid from
[Ref.: #24975]	cellobiose ChEBI	+	carbon source
[Ref.: #24975]	cellulose ChEBI	-	hydrolysis
[Ref.: #24975]	citrate ChEBI	+	carbon source
[Ref.: #24975]	D-arabinose ChEBI	-	builds acid from
[Ref.: #24975]	D-arabitol ChEBI	-	builds acid from
[Ref.: #24975]	D-arabitol ChEBI	+	carbon source
[Ref.: #24975]	D-fructose ChEBI	+	carbon source
[Ref.: #24975]	D-fructose 6-phosphate ChEBI	+	carbon source
[Ref.: #24975]	D-fucose ChEBI	+	carbon source
[Ref.: #24975]	D-galactose ChEBI	+	carbon source
[Ref.: #24975]	D-glucose ChEBI	-	builds acid from
[Ref.: #24975]	D-glucose ChEBI	+	builds acid from
[Ref.: #24975]	D-glucose 6-phosphate ChEBI	+	carbon source
[Ref.: #24975]	D-mannitol ChEBI	+	carbon source
[Ref.: #24975]	D-mannose ChEBI	+	carbon source
[Ref.: #24975]	D-ribose ChEBI	+	builds acid from
[Ref.: #24975]	D-sorbitol ChEBI	+	carbon source
[Ref.: #24975]	D-tagatose ChEBI	+	builds acid from
[Ref.: #24975]	dextrin ChEBI	+	carbon source
[Ref.: #24975]	esculin ChEBI	-	builds acid from
[Ref.: #24975]	gentiobiose ChEBI	+	carbon source
[Ref.: #24975]	glycerol ChEBI	+	carbon source
[Ref.: #24975]	glycerol ChEBI	+	builds acid from
[Ref.: #24975]	inosine ChEBI	-	carbon source
[Ref.: #24975]	L-arabinose ChEBI	-	builds acid from
[Ref.: #24975]	L-fucose ChEBI	+	carbon source
[Ref.: #24975]	L-rhamnose ChEBI	+	carbon source
[Ref.: #24975]	malate ChEBI	+	carbon source
[Ref.: #24975]	maltose ChEBI	-	builds acid from
[Ref.: #24975]	maltose ChEBI	+	carbon source
[Ref.: #24975]	melezitose ChEBI	-	builds acid from
[Ref.: #24975]	melibiose ChEBI	+	carbon source
[Ref.: #24975]	myo-inositol ChEBI	+	carbon source
[Ref.: #24975]	N-acetyl-beta-D-mannosamine ChEBI	+	carbon source
[Ref.: #24975]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #24975]	nitrate ChEBI	+	reduction
[Ref.: #24975]	pectin ChEBI	+	carbon source
[Ref.: #24975]	propionate ChEBI	+	carbon source
[Ref.: #24975]	raffinose ChEBI	-	carbon source
[Ref.: #24975]	salicin ChEBI	-	carbon source
[Ref.: #24975]	salicin ChEBI	-	builds acid from
[Ref.: #24975]	stachyose ChEBI	-	carbon source
[Ref.: #24975]	starch ChEBI	-	hydrolysis
[Ref.: #24975]	sucrose ChEBI	-	carbon source
[Ref.: #24975]	sucrose ChEBI	-	builds acid from
[Ref.: #24975]	trehalose ChEBI	+	carbon source
[Ref.: #24975]	trehalose ChEBI	+	builds acid from
[Ref.: #24975]	turanose ChEBI	-	builds acid from
[Ref.: #24975]	turanose ChEBI	+	carbon source
[Ref.: #24975]	tween 20 ChEBI	-	hydrolysis
[Ref.: #24975]	tween 40 ChEBI	+	hydrolysis
[Ref.: #24975]	tween 80 ChEBI	-	hydrolysis
[Ref.: #24975]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance
[Ref.: #24975]	amikacin ChEBI	yes
[Ref.: #24975]	amoxicillin ChEBI	yes
[Ref.: #24975]	ampicillin ChEBI	yes
[Ref.: #24975]	cefalotin ChEBI	yes
[Ref.: #24975]	cefepime ChEBI	yes
[Ref.: #24975]	cefotaxime ChEBI	yes
[Ref.: #24975]	ceftazidime ChEBI	yes
[Ref.: #24975]	ceftriaxone ChEBI	yes
[Ref.: #24975]	chloramphenicol ChEBI	yes
[Ref.: #24975]	ciprofloxacin ChEBI	yes
[Ref.: #24975]	clarithromycin ChEBI	yes
[Ref.: #24975]	clindamycin ChEBI				yes
[Ref.: #24975]	co-trimoxazole ChEBI	yes
[Ref.: #24975]	erythromycin ChEBI	yes
[Ref.: #24975]	gentamicin ChEBI	yes
[Ref.: #24975]	meropenem ChEBI	yes
[Ref.: #24975]	penicillin ChEBI	yes
[Ref.: #24975]	rifampicin ChEBI	yes
[Ref.: #24975]	sulfamethoxazole ChEBI	yes	300	µg
[Ref.: #24975]	vancomycin ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Group ID of combined antibiotics	Metabolite	Antibiotic sensitivity
[Ref.: #24975]	10	amoxicillin ChEBI	yes
[Ref.: #24975]	10	clavulanic acid ChEBI	yes
[Ref.: #24975]	18	clavulanic acid ChEBI	yes
[Ref.: #24975]	18	ticarcillin ChEBI	yes

	Metabolite production	Metabolite	Production
[Ref.: #24975]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #24975]	acid phosphatase	+	3.1.3.2
[Ref.: #24975]	alkaline phosphatase	+	3.1.3.1
[Ref.: #24975]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #24975]	alpha-fucosidase	-	3.2.1.51
[Ref.: #24975]	alpha-galactosidase	-	3.2.1.22
[Ref.: #24975]	alpha-glucosidase	+	3.2.1.20
[Ref.: #24975]	alpha-mannosidase	-	3.2.1.24
[Ref.: #24975]	beta-galactosidase	-	3.2.1.23
[Ref.: #24975]	beta-glucosidase	-	3.2.1.21
[Ref.: #24975]	beta-glucuronidase	-	3.2.1.31
[Ref.: #24975]	catalase	+	1.11.1.6
[Ref.: #24975]	cystine arylamidase	+	3.4.11.3
[Ref.: #24975]	cytochrome oxidase	-	1.9.3.1
[Ref.: #24975]	esterase (C 4)	+
[Ref.: #24975]	esterase Lipase (C 8)	+
[Ref.: #24975]	leucine arylamidase	+	3.4.11.1
[Ref.: #24975]	lipase (C 14)	+
[Ref.: #24975]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #24975]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #24975]	trypsin	-	3.4.21.4
[Ref.: #24975]	urease	+	3.5.1.5
[Ref.: #24975]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #24448]	Sample type/isolated from	rhizosphere soil sample of Suaeda salsa collected from a dried saline lake
[Ref.: #24448]	Host species	Suaeda salsa
[Ref.: #24448]	Geographic location (country and/or sea, region)	Hebei Province, Jiuliancheng Nur (41° 33' 58.94'' N 115° 00' 19.86'' E)
[Ref.: #24448]	Country	China
[Ref.: #24448]	Country ISO 3 Code	CHN
[Ref.: #24448]	Continent	Asia
[Ref.: #24448]	Geographic location	41.5664°/115.0060°

[Ref.: #24975]	Sample type/isolated from	rhizosphere soil sample of Suaeda salsa
[Ref.: #24975]	Geographic location (country and/or sea, region)	Jiuliancheng Nur, a dried saline lake located in Hebei Province
[Ref.: #24975]	Enrichment culture	Gauzeâ??s medium no. one agar
[Ref.: #24975]	Enrichment culture composition	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)
[Ref.: #24975]	Enrichment culture duration	35 days
[Ref.: #24975]	Enrichment culture temperature	28 ̊C

[Ref.: #67770]	Sample type/isolated from	Rhizosphere soil of Suaeda salsa in Jiuliancheng Nur (a dried saline lake)
[Ref.: #67770]	Host species	Suaeda salsa
[Ref.: #67770]	Geographic location (country and/or sea, region)	Hebei Province
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

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Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #24448]	Hoyosella rhizosphaerae strain J12GA03 16S ribosomal RNA gene, partial sequence	KU051698	1483	GenBank ENA	1755582 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Hoyosella rhizosphaerae CGMCC 1.15478	GCA_014643175	contig	GenBank ENA	1755582 tax ID	*
[Ref.: #66792]	Hoyosella rhizosphaerae J12GA03	GCA_017152025	scaffold	GenBank ENA	1755582 tax ID	*
[Ref.: #66792]	Hoyosella rhizosphaerae strain CGMCC 1.15478	1755582.3	wgs	PATRIC	1755582 tax ID	*

[Ref.: #24975]	GC-content	55.8 mol%	Thermal denaturation, fluorometry
[Ref.: #24448]	GC-content	55.8 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Hoyosella rhizosphaerae strain CGMCC 1.15478 PATRIC: 1755582.4
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Hoyosella rhizosphaerae J12GA03 NCBI: GCA_017152025.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	91.756	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.311	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.998	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	55.988	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.466	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	93	no

Availability in culture collections External links

[Ref.: #24448]

Culture collection no.

DSM 101985, CGMCC 1.15478, JCM 32492

[Ref.: #90970]

SI-ID 398310

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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#90970

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID398310.1 )

* These data were automatically processed and therefore are not curated

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Hoyosella rhizosphaerae strain CGMCC 1.15478

Hoyosella rhizosphaerae J12GA03

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