Name: Lentzea atacamensis C68
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13306

Type strain:

Species: Lentzea atacamensis

Strain Designation: C68

Culture col. no.: DSM 45480, CGMCC 4.5535, NRRL B-24707, JCM 17493

Strain history: CGMCC 4.5535 <-- M. Goodfellow C68.

NCBI tax ID(s): 531938 (species)

Special Collections

Other strains from Lentzea atacamensis

Section

When using BacDive for research please cite our paper

Lentzea atacamensis C68 is an aerobe, Gram-positive bacterium that was isolated from desert soil.

Gram-positive
aerobe
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Pseudonocardiales*
	Family	*Pseudonocardiaceae*
	Genus	*Lentzea*
	Species	**Lentzea atacamensis**
	Full Scientific Name (LPSN)	Lentzea atacamensis (Okoro et al. 2010) Nouioui et al. 2018

	Synonym	Lechevalieria deserti
	Synonym	Lentzea deserti
	Synonym	Lechevalieria atacamensis

Information on morphological and physiological properties Morphology

[Ref.: #29271]	Gram stain	positive
[Ref.: #125439]	Gram stain	positive Confidence in %99.3

[Ref.: #29271]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %90.5

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29271]	growth	20-40 °C
[Ref.: #29271]	optimum	30 °C
[Ref.: #67770]	growth	28 °C

	pH	Kind of pH		pH
[Ref.: #29271]			optimum	7.5
[Ref.: #29271]			growth	05-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29271]	Oxygen tolerance	aerobe
[Ref.: #125438]	Oxygen tolerance	aerobe Confidence in %90.459
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %97.8

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29271]		NaCl		growth	04-05	%

[Ref.: #67770]

Observation

quinones: MK-9(H₄)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29271]	citrate ChEBI	+	carbon source
[Ref.: #29271]	esculin ChEBI	+	hydrolysis
[Ref.: #29271]	glycerol ChEBI	+	carbon source
[Ref.: #29271]	L-arabitol ChEBI	+	carbon source
[Ref.: #29271]	raffinose ChEBI	+	carbon source
[Ref.: #29271]	rhamnose ChEBI	+	carbon source
[Ref.: #29271]	ribitol ChEBI	+	carbon source
[Ref.: #29271]	sorbitol ChEBI	+	carbon source
[Ref.: #29271]	succinate ChEBI	+	carbon source
[Ref.: #29271]	xylitol ChEBI	+	carbon source
[Ref.: #29271]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29271]		catalase	+	1.11.1.6

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

[Ref.: #17321]	Sample type/isolated from	desert soil
[Ref.: #17321]	Geographic location (country and/or sea, region)	Atacama Desert, Salar de Atacama
[Ref.: #17321]	Country	Chile
[Ref.: #17321]	Country ISO 3 Code	CHL
[Ref.: #17321]	Continent	Middle and South America

[Ref.: #67770]	Sample type/isolated from	Hyperarid soil from the Salar de Atacama region of the Atacama Desert
[Ref.: #67770]	Country	Chile
[Ref.: #67770]	Country ISO 3 Code	CHL
[Ref.: #67770]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Desert
#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU551682 (>99% sequence identity) for Lentzea from Microbeatlas

Aquatic Samples	2
Soil Samples	55
Animal Samples	4
Plant Samples	60
Total Samples	121

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

[Ref.: #17321]

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.: #17321]	Lechevalieria deserti strain C68 16S ribosomal RNA gene, partial sequence	EU551682	1463	GenBank ENA	531939 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Lentzea atacamensis DSM 45480	GCA_003148865	scaffold	GenBank ENA	531938 tax ID
[Ref.: #66792]	Lechevalieria deserti strain DSM 45480	531939.3	wgs	PATRIC	531939 tax ID	*
[Ref.: #66792]	Lechevalieria deserti DSM 45480	2756170278	draft	JGI IMG/M	531939 tax ID	*

[Ref.: #67770]

GC-content

68.8 mol%

genome sequence analysis

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lechevalieria deserti strain DSM 45480 PATRIC: 531939.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	85.046	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	97.438	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	80.991	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	90.459	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97.991	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	90.5	yes

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lentzea atacamensis DSM 45480 NCBI: GCA_003148865
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	66.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	87.2
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	99.3
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	97.8

Availability in culture collections External links

[Ref.: #17321]

Culture collection no.

DSM 45480, CGMCC 4.5535, NRRL B-24707, JCM 17493

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lechevalieria atacamensis sp. nov., Lechevalieria deserti sp. nov. and Lechevalieria roselyniae sp. nov., isolated from hyperarid soils.	Okoro CK, Bull AT, Mutreja A, Rong X, Huang Y, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.009985-0	2009	*

References

#17321

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45480

#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 )

#29271

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 #25688 (see below)

#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 .

#25688

IJSEM 296 2010 ( DOI 10.1099/ijs.0.009985-0 , PubMed 19651742 )

* These data were automatically processed and therefore are not curated

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Lechevalieria deserti strain DSM 45480

Lentzea atacamensis DSM 45480

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