Name: Hoyosella altamirensis DSM 45258
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17886

Type strain:

Species: Hoyosella altamirensis

Culture col. no.: DSM 45258, CIP 109864, NBRC 109631, OFN S31, JCM 18112

Strain history: CIP <- 2008, OFN, V. Rodriguez-Nava, Lyon Univ., Lyon, France

NCBI tax ID(s): 616997 (species)

SI-ID 364832

CIP 109864, DSM 45258, JCM 18112

Section

Hoyosella altamirensis DSM 45258 is an aerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from white colonization from complex biofilm.

coccus-shaped
colony-forming
Gram-positive
aerobe
mesophilic
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 altamirensis**
	Full Scientific Name (LPSN)	Hoyosella altamirensis Jurado et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #24974]	Gram stain	positive
[Ref.: #29208]	Gram stain	positive
[Ref.: #116266]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #24974]	Cell length	1.1-1.2 µm

[Ref.: #24974]	Cell shape	coccus-shaped
[Ref.: #29208]	Cell shape	coccus-shaped
[Ref.: #116266]	Cell shape	coccus-shaped

[Ref.: #29208]	Motility	no
[Ref.: #116266]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95.082

[Ref.: #24974]	Colony color	cream
[Ref.: #24974]	Colony shape	circular
[Ref.: #24974]	Incubation period	2 days
[Ref.: #24974]	Cultivation medium used	BHI agar plate

Multimedia content

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Caption:

Medium 65 28°C

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16009]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16009]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #16009]

Culture medium composition

expand / minimize

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #16009]

Culture medium growth

[Ref.: #16009]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16009]

Culture medium composition

expand / minimize

[Ref.: #24974]

Culture medium

BHI agar plate

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Culture medium growth

[Ref.: #42193]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #42193]

Culture medium growth

[Ref.: #42193]

Culture medium composition

expand / minimize

[Ref.: #116266]

Culture medium

CIP Medium 72

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #16009]		growth	28 °C
[Ref.: #24974]		optimum	28.0-37.0 °C
[Ref.: #24974]	no	growth	60 °C
[Ref.: #24974]	no	growth	45 °C
[Ref.: #24974]	no	growth	5.0-15.0 °C
[Ref.: #24974]		growth	20.0-37.0 °C
[Ref.: #29208]		growth	20-37 °C
[Ref.: #29208]		optimum	28 °C
[Ref.: #42193]		growth	30 °C
[Ref.: #67770]		growth	28 °C

[Ref.: #16009]	Temperature range	mesophilic
[Ref.: #24974]	Temperature range	mesophilic
[Ref.: #24974]	Temperature range	thermophilic
[Ref.: #24974]	Temperature range	psychrophilic
[Ref.: #29208]	Temperature range	mesophilic
[Ref.: #42193]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #24974]			optimum	7.0-9.0
[Ref.: #24974]			growth	6.0-11.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #24974]	Oxygen tolerance	aerobe
[Ref.: #29208]	Oxygen tolerance	aerobe
[Ref.: #116266]	Oxygen tolerance	obligate aerobe

[Ref.: #24974]	Ability of spore formation	no
[Ref.: #29208]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.907

	Salt	Tested relation		Salt conc.
[Ref.: #24974]	NaCl		growth	0.0-10.0	%(w/v)
[Ref.: #24974]	NaCl	no	growth	15	%(w/v)
[Ref.: #29208]	NaCl		growth	0-6	%
[Ref.: #29208]	NaCl		optimum	02-04	%

[Ref.: #24974]	Murein short key	A31
[Ref.: #24974]	Murein types	A1gamma m-Dpm-direct

[Ref.: #67770]

Observation

quinones: MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #24974]	D-fructose ChEBI	-	assimilation
[Ref.: #24974]	D-glucose ChEBI	+	assimilation
[Ref.: #24974]	D-mannitol ChEBI	+	assimilation
[Ref.: #29208]	esculin ChEBI	+	hydrolysis
[Ref.: #29208]	glucose ChEBI	+	carbon source
[Ref.: #24974]	L-arabinose ChEBI	+	assimilation
[Ref.: #29208]	maltose ChEBI	+	carbon source
[Ref.: #24974]	myo-inositol ChEBI	+	assimilation
[Ref.: #29208]	myo-inositol ChEBI	+	carbon source
[Ref.: #116266]	nitrate ChEBI	+	reduction
[Ref.: #116266]	nitrite ChEBI	-	reduction
[Ref.: #29208]	rhamnose ChEBI	+	carbon source
[Ref.: #29208]	sorbitol ChEBI	+	carbon source
[Ref.: #29208]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #116266]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #24974]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #24974]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29208]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #24974]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #24974]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #24974]	alpha-galactosidase	-	3.2.1.22
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #24974]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #24974]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #24974]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #24974]	beta-glucosidase	+	3.2.1.21
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #24974]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #24974]	catalase	+	1.11.1.6
[Ref.: #29208]	catalase	+	1.11.1.6
[Ref.: #116266]	catalase	+	1.11.1.6
[Ref.: #24974]	cystine arylamidase	+	3.4.11.3
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #24974]	cytochrome oxidase	-	1.9.3.1
[Ref.: #24974]	esterase (C 4)	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #24974]	esterase Lipase (C 8)	+
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #24974]	leucine arylamidase	+	3.4.11.1
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #24974]	lipase (C 14)	+
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #24974]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #24974]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #116266]	oxidase	-
[Ref.: #24974]	phosphatidate phosphatase	-	3.1.3.4
[Ref.: #24974]	trypsin	-	3.4.21.4
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #29208]	urease	+	3.5.1.5
[Ref.: #116266]	urease	+	3.5.1.5
[Ref.: #24974]	valine arylamidase	-
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #116266]	12171	-	+	+	+	+	+	+	+	+	-	+	+	-	-	-	+	+	-	-	-

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

[Ref.: #16009]	Sample type/isolated from	white colonization from complex biofilm
[Ref.: #16009]	Geographic location (country and/or sea, region)	Cave of Altamira
[Ref.: #16009]	Country	Spain
[Ref.: #16009]	Country ISO 3 Code	ESP
[Ref.: #16009]	Continent	Europe

[Ref.: #24974]	Sample type/isolated from	cave biofilm (white colony)

[Ref.: #67770]	Sample type/isolated from	Biofilm in the Altamira Cave
[Ref.: #67770]	Country	Spain
[Ref.: #67770]	Country ISO 3 Code	ESP
[Ref.: #67770]	Continent	Europe

[Ref.: #116266]	Sample type/isolated from	Cellar
[Ref.: #116266]	Geographic location (country and/or sea, region)	Altamira, Cantabria
[Ref.: #116266]	Country	Spain
[Ref.: #116266]	Country ISO 3 Code	ESP
[Ref.: #116266]	Continent	Europe
[Ref.: #116266]	Isolation date	1999
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Geologic
#Environmental	#Biofilm	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KX146464 (>99% sequence identity) for Hoyosella from Microbeatlas

Aquatic Samples	567
Soil Samples	948
Animal Samples	1015
Plant Samples	155
Total Samples	2685

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

[Ref.: #16009]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116266]	Biosafety level	1	Risk group (French classification)

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.: #16009]	Hoyosella altamirensis strain OFN S31 16S ribosomal RNA gene, partial sequence	FJ179485	1333	ENA	616997 tax ID
[Ref.: #67770]	Hoyosella altamirensis strain DSM 45258 16S ribosomal RNA gene, partial sequence	KX146464	1483	ENA	616997 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Hoyosella altamirensis NBRC 109631	GCA_001653095	contig	GenBank	616997 tax ID
[Ref.: #66792]	Hoyosella altamirensis DSM 45258	GCA_014191505	contig	GenBank	616997 tax ID	*
[Ref.: #66792]	Hoyosella altamirensis strain DSM 45258	616997.7	wgs	PATRIC	616997 tax ID	*
[Ref.: #66792]	Hoyosella altamirensis strain NBRC 109631	616997.4	wgs	PATRIC	616997 tax ID	*
[Ref.: #66792]	Hoyosella altamirensis NBRC 109631	2832161093	draft	JGI IMG/M	616997 tax ID	*
[Ref.: #66792]	Hoyosella altamirensis DSM 45258	2824239402	draft	JGI IMG/M	616997 tax ID	*

[Ref.: #16009]	GC-content	49.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #24974]	GC-content	61.8 mol%	genome sequence analysis
[Ref.: #29208]	GC-content	49.3 mol%
[Ref.: #16009]	GC-content	61.8 mol%	sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Hoyosella altamirensis strain NBRC 109631 PATRIC: 616997.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Hoyosella altamirensis strain DSM 45258 PATRIC: 616997.7
[Ref.: #69480]	gram-positive	yes	91.037	yes
[Ref.: #69480]	anaerobic	no	99.317	no
[Ref.: #69480]	halophile	no	55.587	no
[Ref.: #69480]	spore-forming	no	85.31	yes
[Ref.: #69480]	glucose-util	yes	88.691	yes
[Ref.: #69480]	thermophile	no	98.918	no
[Ref.: #69480]	flagellated	no	98.053	yes
[Ref.: #69480]	aerobic	yes	93.168	yes
[Ref.: #69480]	motile	no	94.147	no
[Ref.: #69480]	glucose-ferment	no	86.699	no

Availability in culture collections External links

[Ref.: #16009]

Culture collection no.

DSM 45258, CIP 109864, NBRC 109631, OFN S31, JCM 18112

[Ref.: #86875]

SI-ID 364832

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	*
Phylogeny	Reclassification of Amycolicicoccus subflavus as Hoyosella subflava comb. nov. and emended descriptions of the genus Hoyosella and Hoyosella altamirensis.	Hamada M, Shibata C, Sakurai K, Hosoyama A, Oji S, Teramoto K, Tamura T	Int J Syst Evol Microbiol	10.1099/ijsem.0.001415	2016	*
Phylogeny	Hoyosella altamirensis gen. nov., sp. nov., a new member of the order Actinomycetales isolated from a cave biofilm.	Jurado V, Kroppenstedt RM, Saiz-Jimenez C, Klenk HP, Mouniee D, Laiz L, Couble A, Potter G, Boiron P, Rodriguez-Nava V	Int J Syst Evol Microbiol	10.1099/ijs.0.008664-0	2009	*
Phylogeny	Hoyosella lacisalsi sp. nov., a halotolerant actinobacterium isolated from the Lake Gudzhirganskoe.	Yang Q, Guo PY, Abidueva EY, Li FN, Xue CM, Liu SW, Sun CH	Int J Syst Evol Microbiol	10.1099/ijsem.0.005145	2021	*

References

#16009

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45258

#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 )

#24974

M. S. Hamada, Chiyo,Sakurai, Kenta,Hosoyama, Akira,Oji, Syoko,Teramoto, Kanae,Tamura, Tomohiko: Reclassification of Amycolicicoccus subflavus as Hoyosella subflava comb. nov. and emended descriptions of the genus Hoyosella and Hoyosella altamirensis. IJSEM 66: 4711 - 4715 2016 ( DOI 10.1099/ijsem.0.001415 , PubMed 27514929 )

#29208

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 #25629 (see below)

#42193 ; Curators of the CIP;

#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;

#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 .

#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 )

#86875

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-ID364832.1 )

#116266 Collection of Institut Pasteur ; Curators of the CIP; CIP 109864

#25629

IJSEM 3105 2009 ( DOI 10.1099/ijs.0.008664-0 , PubMed 19643882 )

* These data were automatically processed and therefore are not curated

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Hoyosella altamirensis strain NBRC 109631

Hoyosella altamirensis strain DSM 45258

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