Name: Kocuria arsenatis CM1E1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140923

Type strain:

Species: Kocuria arsenatis

Strain Designation: CM1E1

Culture col. no.: HAMBI 3625, LMG 28671, CCBAU 101092

NCBI tax ID(s): 1578757 (species)

Section

Kocuria arsenatis CM1E1 is an aerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from Lateral root tissue of heavy-metal resistant plants grown on a mine tailing at Villa de la Paz.

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

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	*Micrococcales*
	Family	*Micrococcaceae*
	Genus	*Kocuria*
	Species	**Kocuria arsenatis**
	Full Scientific Name (LPSN)	Kocuria arsenatis Román-Ponce et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43794]	Gram stain	positive

[Ref.: #43794]	Cell length	0.2-0.6 µm

[Ref.: #43794]	Cell shape	coccus-shaped

[Ref.: #43794]	Motility	no

[Ref.: #43794]	Colony size	1.5-2.5 mm
[Ref.: #43794]	Colony color	Yellow, opaque
[Ref.: #43794]	Colony shape	circular
[Ref.: #43794]	Incubation period	2 days
[Ref.: #43794]	Cultivation medium used	TSA agar

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Czapek's agar

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Culture medium growth

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Culture medium

ISP 1

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Culture medium growth

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Culture medium

ISP 5

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Trypticase Soy Agar (TSA)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43794]			growth	20-44 °C
[Ref.: #43794]			optimum	28-37 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43794]			optimum	6
[Ref.: #43794]			growth	4-11

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #43794]	Type of spore	endospore
[Ref.: #43794]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43794]		NaCl		growth	0-10	%(w/v)
[Ref.: #43794]		NaCl		optimum	1-3	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43794]	(S)-lactate ChEBI	+	carbon source
[Ref.: #43794]	2,2-dimethylsuccinic acid ChEBI	+	carbon source
[Ref.: #43794]	2-deoxyadenosine ChEBI	+	carbon source
[Ref.: #43794]	2-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #43794]	2-oxoglutarate ChEBI	+	carbon source
[Ref.: #43794]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #43794]	4-hydroxyphenylacetic acid ChEBI	+	carbon source
[Ref.: #43794]	acetate ChEBI	+	carbon source
[Ref.: #43794]	adenosine ChEBI	+	carbon source
[Ref.: #43794]	adenosine 5'-monophosphate ChEBI	+	carbon source
[Ref.: #43794]	adenosine 5'-monophosphate ChEBI	+/-	carbon source
[Ref.: #43794]	alpha-cyclodextrin ChEBI	+/-	carbon source
[Ref.: #43794]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #43794]	amygdalin ChEBI	+/-	carbon source
[Ref.: #43794]	beta-cyclodextrin ChEBI	+/-	carbon source
[Ref.: #43794]	beta-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #43794]	citrate ChEBI	+	assimilation
[Ref.: #43794]	D-alanine ChEBI	+	carbon source
[Ref.: #43794]	D-fructose ChEBI	+	carbon source
[Ref.: #43794]	D-fructose 6-phosphate ChEBI	+	carbon source
[Ref.: #43794]	D-gluconate ChEBI	+	carbon source
[Ref.: #43794]	D-glucose 6-phosphate ChEBI	+	carbon source
[Ref.: #43794]	D-psicose ChEBI	+	carbon source
[Ref.: #43794]	D-tagatose ChEBI	+	carbon source
[Ref.: #43794]	D-xylose ChEBI	+	carbon source
[Ref.: #43794]	gamma-cyclodextrin ChEBI	+	carbon source
[Ref.: #43794]	glucose 1-phosphate ChEBI	+/-	carbon source
[Ref.: #43794]	glycerol ChEBI	+	carbon source
[Ref.: #43794]	glycerol 1-phosphate ChEBI	+	carbon source
[Ref.: #43794]	glycogen ChEBI	+	carbon source
[Ref.: #43794]	inosine ChEBI	+	carbon source
[Ref.: #43794]	L-alaninamide ChEBI	+	carbon source
[Ref.: #43794]	L-alanine 4-nitroanilide	+	carbon source
[Ref.: #43794]	L-alanylglycine ChEBI	+	carbon source
[Ref.: #43794]	L-arabinose ChEBI	+	carbon source
[Ref.: #43794]	L-asparagine ChEBI	+	carbon source
[Ref.: #43794]	L-glutamate ChEBI	+	carbon source
[Ref.: #43794]	L-malate ChEBI	+	carbon source
[Ref.: #43794]	L-pyroglutamic acid ChEBI	+	carbon source
[Ref.: #43794]	L-rhamnose ChEBI	+/-	carbon source
[Ref.: #43794]	L-serine ChEBI	+	carbon source
[Ref.: #43794]	lactamide ChEBI	+	carbon source
[Ref.: #43794]	maltose ChEBI	+	carbon source
[Ref.: #43794]	maltotriose ChEBI	+	carbon source
[Ref.: #43794]	melezitose ChEBI	+	carbon source
[Ref.: #43794]	melibiose ChEBI	+	carbon source
[Ref.: #43794]	methyl (R)-lactate ChEBI	+	carbon source
[Ref.: #43794]	methyl beta-D-glucopyranoside ChEBI	+/-	carbon source
[Ref.: #43794]	methyl D-glucoside ChEBI	+/-	carbon source
[Ref.: #43794]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #43794]	monomethyl succinate ChEBI	+	carbon source
[Ref.: #43794]	N-acetyl-L-glutamate ChEBI	+	carbon source
[Ref.: #43794]	nitrate ChEBI	+	reduction
[Ref.: #43794]	palatinose ChEBI	+/-	carbon source
[Ref.: #43794]	propionate ChEBI	+	carbon source
[Ref.: #43794]	pyruvate ChEBI	+	carbon source
[Ref.: #43794]	ribose ChEBI	+	carbon source
[Ref.: #43794]	salicin ChEBI	+/-	carbon source
[Ref.: #43794]	sodium chloride ChEBI	-	required for growth
[Ref.: #43794]	starch ChEBI	-	hydrolysis
[Ref.: #43794]	succinamate ChEBI	+	carbon source
[Ref.: #43794]	sucrose ChEBI	+	carbon source
[Ref.: #43794]	thymidine ChEBI	+	carbon source
[Ref.: #43794]	thymidine 5'-monophosphate ChEBI	+	carbon source
[Ref.: #43794]	trehalose ChEBI	+	carbon source
[Ref.: #43794]	turanose ChEBI	+	carbon source
[Ref.: #43794]	tween 40 ChEBI	+	carbon source
[Ref.: #43794]	tween 80 ChEBI	+	carbon source
[Ref.: #43794]	uridine ChEBI	+	carbon source
[Ref.: #43794]	uridine 5'-monophosphate ChEBI	+	carbon source
[Ref.: #43794]	xylitol ChEBI	+/-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43794]	gentamicin ChEBI	yes	10	µg/mL
[Ref.: #43794]	neomycin ChEBI				yes	30	µg/mL
[Ref.: #43794]	streptomycin ChEBI				yes	10	µg/mL
[Ref.: #43794]	tetracycline ChEBI				yes	5	µg/mL

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #43794]		catalase	+	1.11.1.6
[Ref.: #43794]		urease	+	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C15:0 anteiso	45
C17:0 anteiso	20.5
C15:0 iso	12.5
C16:0 iso	6.1
C16:0	5.8
C18:0	1.8
C17:0 iso	1.6
C17:1ω8c	1.3
C14:0	1.2
C14:0 iso	0.9
C13:0 anteiso	0.6
C16:0 anteiso	0.5
C13:0 iso	0.4
C17:0	0.3
iso-C18:0H	0.3
C19:1ω7c / C19:1ω6c	0.3
C18:1ω9c	0.3
C16:0 iso 3OH	0.2
C18:1ω7c	0.2
C16:1ω7c / C16:1ω6c	0.2
C14:0 3OH / C16:1 iso I	0.1
C12-aldehyde	0.1

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

[Ref.: #43794]	Sample type/isolated from	Lateral root tissue of heavy-metal resistant plants (Prosopis laevigata) grown on a mine tailing at Villa de la Paz
[Ref.: #43794]	Geographic location (country and/or sea, region)	San Luis Potosi
[Ref.: #43794]	Country	Mexico
[Ref.: #43794]	Country ISO 3 Code	MEX
[Ref.: #43794]	Continent	North America
[Ref.: #43794]	Geographic location	23.6830°/-100.7000°
* marker position based on {}

Isolation sources categories

#Engineered	#Other	#Mine
#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

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Global distribution of 16S sequence KM874399 (>99% sequence identity) for Kocuria from Microbeatlas

Aquatic Samples	947
Soil Samples	468
Animal Samples	9694
Plant Samples	153
Total Samples	11262

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.: #43794]	16S rRNA gene sequence	KM874399		GenBank

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GC-content

74.5 mol%

thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

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Culture collection no.

HAMBI 3625, LMG 28671, CCBAU 101092

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Kocuria arsenatis sp. nov., an arsenic-resistant endophytic actinobacterium associated with Prosopis laegivata grown on high-arsenic-polluted mine tailing.	Roman-Ponce B, Wang D, Soledad Vasquez-Murrieta M, Feng Chen W, Estrada-de Los Santos P, Hua Sui X, Tao Wang E	Int J Syst Evol Microbiol	10.1099/ijsem.0.000830	2015	*

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 )

#43794

Brenda Román-Ponce, Dan Wang, María Soledad Vásquez-Murrieta, Wen Feng Chen, Paulina Estrada-de los Santos, Xin Hua Sui, En Tao Wang: Kocuria arsenatis sp. nov., an arsenic-resistant endophytic actinobacterium associated with Prosopis laegivata grown on high-arsenic-polluted mine tailing. IJSEM 66: 1027 - 1033 2016 ( DOI 10.1099/ijsem.0.000830 , PubMed 26647141 )

#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 .

* These data were automatically processed and therefore are not curated

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