Barrientosiimonas humi (DSM 24617, CGMCC 4.6864, 39)

Name: Barrientosiimonas humi (DSM 24617, CGMCC 4.6864, 39)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3935

Type strain

Strain Designation 39

Culture col. no. DSM 24617 CGMCC 4.6864 39 JCM 19663

NCBI tax ID(s) 999931

Special Collections DSMZ JCM Literature strains

History <- L.-H. Lee, Universiti Putra Malaysia, Dept. Biomedical Science, Faculty Medicine and Health Scs.; strain 39 CGMCC 4.6864 <-- L.-H. Lee 39.

Links

Barrientosiimonas humi 39 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from Antarctic soil, upper top soil layer.

Gram-positive coccus-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 401745

DSM 24617

@ref 20215

Last LPSN update 2026-02-09 11:18:36

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermacoccaceae

Genus Barrientosiimonas

Species Barrientosiimonas humi

Full scientific name Barrientosiimonas humi Lee et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30533	positive	1.25 µm	0.315 µm	coccus-shaped
125438					91
125438	positive				90.794
125439	positive				99.5

Pigmentation

30533

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17717	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
17717	positive	growth	28
30533	positive	growth	24-40
30533	positive	optimum	32
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
30533	positive	optimum	8
30533	positive	growth	06-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30533	aerobe
125438	aerobe	92.16
125439	obligate aerobe	99.3

Spore formation

30533

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30533	NaCl	positive	growth	0-14 %
30533	NaCl	positive	optimum	2 %

Murein

@ref	Murein short key	Type
17717	A11.36	A4alpha L-Lys-L-Ser-D-Asp

Observation

@ref	Observation
30533	aggregates in chains
67770	quinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30533	30089 ChEBI	acetate	+	carbon source
30533	16449 ChEBI	alanine	+	carbon source
30533	22599 ChEBI	arabinose	+	carbon source
30533	29016 ChEBI	arginine	+	carbon source
30533	16296 ChEBI	D-tryptophan	+	carbon source
30533	23652 ChEBI	dextrin	+	carbon source
30533	4853 ChEBI	esculin	+	hydrolysis
30533	28757 ChEBI	fructose	+	carbon source
30533	28260 ChEBI	galactose	+	carbon source
30533	24265 ChEBI	gluconate	+	carbon source
30533	17234 ChEBI	glucose	+	carbon source
30533	29987 ChEBI	glutamate	+	carbon source
30533	17754 ChEBI	glycerol	+	carbon source
30533	27570 ChEBI	histidine	+	carbon source
30533	17306 ChEBI	maltose	+	carbon source
30533	37684 ChEBI	mannose	+	carbon source
30533	28053 ChEBI	melibiose	+	carbon source
30533	51850 ChEBI	methyl pyruvate	+	carbon source
30533	28044 ChEBI	phenylalanine	+	carbon source
30533	16634 ChEBI	raffinose	+	carbon source
30533	33942 ChEBI	ribose	+	carbon source
30533	17814 ChEBI	salicin	+	carbon source
30533	17822 ChEBI	serine	+	carbon source
30533	17992 ChEBI	sucrose	+	carbon source
30533	53423 ChEBI	tween 40	+	carbon source
30533	53426 ChEBI	tween 80	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30533	catalase	+	1.11.1.6
30533	gelatinase	+

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	vitamin K metabolism	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	resorcinol degradation	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	starch degradation	100	10 of 10
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	glycogen metabolism	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	acetate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	Entner Doudoroff pathway	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	allantoin degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	flavin biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	purine metabolism	85.11	80 of 94
66794	leucine metabolism	84.62	11 of 13
66794	phenylalanine metabolism	84.62	11 of 13
66794	pentose phosphate pathway	81.82	9 of 11
66794	metabolism of disaccharids	81.82	9 of 11
66794	3-chlorocatechol degradation	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	myo-inositol biosynthesis	80	8 of 10
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	citric acid cycle	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	pyrimidine metabolism	77.78	35 of 45
66794	d-mannose degradation	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	histidine metabolism	75.86	22 of 29
66794	sulfopterin metabolism	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	proline metabolism	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	urea cycle	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	tryptophan metabolism	68.42	26 of 38
66794	methane metabolism	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	nitrate assimilation	66.67	6 of 9
66794	cyanate degradation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	IAA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	glutathione metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	isoleucine metabolism	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	methionine metabolism	61.54	16 of 26
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	lipid metabolism	61.29	19 of 31
66794	non-pathway related	60.53	23 of 38
66794	lipoate biosynthesis	60	3 of 5
66794	oxidative phosphorylation	59.34	54 of 91
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	propanol degradation	57.14	4 of 7
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	lysine metabolism	52.38	22 of 42
66794	pantothenate biosynthesis	50	3 of 6
66794	coenzyme M biosynthesis	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	arginine metabolism	50	12 of 24
66794	phenylmercury acetate degradation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	butanoate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	sulfate reduction	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	lipid A biosynthesis	44.44	4 of 9
66794	polyamine pathway	43.48	10 of 23
66794	bacilysin biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	3-phenylpropionate degradation	40	6 of 15
66794	arachidonate biosynthesis	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	phenol degradation	40	8 of 20
66794	arachidonic acid metabolism	38.89	7 of 18
66794	ascorbate metabolism	36.36	8 of 22
66794	degradation of hexoses	33.33	6 of 18
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	vitamin B12 metabolism	29.41	10 of 34
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	degradation of pentoses	28.57	8 of 28
66794	degradation of sugar acids	28	7 of 25
66794	d-xylose degradation	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	vitamin E metabolism	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	catecholamine biosynthesis	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	daunorubicin biosynthesis	22.22	2 of 9
66794	4-hydroxymandelate degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Condition	#Psychrophilic (<10°C)	-
#Climate	#Cold	#Polar

Isolation

@ref	Sample type	Geographic location	Continent	Latitude	Longitude
17717	Antarctic soil, upper top soil layer	Barrientos Island (62°24' 26.0'' S 59° 44' 49.1'' W)	Australia and Oceania	-62.4072	-59.747 -62.4072/-59.747
67770	Soil from Barrientos Island in the Antarctic

Taxonmaps

69479

Global distribution of 16S sequence JF346171 (>99% sequence identity) for Barrientosiimonas from Microbeatlas

Aquatic Samples	155
Soil Samples	161
Animal Samples	1304
Plant Samples	46
Total Samples	1666

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17717	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM671609v1 assembly for Barrientosiimonas humi DSM 24617	contig	GCA_006716095	999931.3	2814122977	999931	75.78

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17717	Barrientosiimonas humi strain 39 16S ribosomal RNA gene, partial sequence	JF346171	1495		999931

GC content

@ref	GC-content (mol%)	Method
17717	68.4	high performance liquid chromatography (HPLC)
30533	68.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Barrientosiimonas humi DSM 24617
NCBI: GCA_006716095

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	65.70	no
125439	motility	BacteriaNetⓘ	no	67.60	no
125439	gram_stain	BacteriaNetⓘ	positive	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Barrientosiimonas humi strain DSM 24617
PATRIC: 999931.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.79	yes
125438	anaerobic	anaerobicⓘ	no	95.25	no
125438	aerobic	aerobicⓘ	yes	92.16	yes
125438	spore-forming	spore-formingⓘ	no	60.67	no
125438	thermophilic	thermophileⓘ	no	96.00	yes
125438	flagellated	motile2+ⓘ	no	91.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Nematicidal Metabolites from the Actinomycete Micromonospora sp. WH06.	Ran Y, Zhang Y, Wang X, Li G.	Microorganisms	10.3390/microorganisms10112274	2022
Genetics	Whole genome sequence and annotation dataset of rare actinobacteria, Barrientosiimonas humi gen. nov., sp. nov. 39^T from Antarctica.	Chong SY, Azmi AA, Cheah YK.	Data Brief	10.1016/j.dib.2023.109657	2023
Phylogeny	Allobranchiibius huperziae gen. nov., sp. nov., a member of Dermacoccaceae isolated from the root of a medicinal plant Huperzia serrata (Thunb.).	Ai MJ, Sun Y, Sun HM, Liu HY, Yu LY, Zhang YQ.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002284	2017
Phylogeny	Barrientosiimonas endolithica sp. nov., isolated from pebbles, reclassification of the only species of the genus Tamlicoccus, Tamlicoccus marinus Lee 2013, as Barrientosiimonas marina comb. nov. and emended description of the genus Barrientosiimonas.	Parag B, Sasikala C, Ramana CV	Int J Syst Evol Microbiol	10.1099/ijs.0.000374	2015
Phylogeny	Barrientosiimonas humi gen. nov., sp. nov., an actinobacterium of the family Dermacoccaceae.	Lee LH, Cheah YK, Sidik SM, Xie QY, Tang YL, Lin HP, Mutalib NA, Hong K	Int J Syst Evol Microbiol	10.1099/ijs.0.038232-0	2012

References

#17717	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24617
#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 )
#26865	IJSEM 241 2013 ( DOI 10.1099/ijs.0.038232-0 , PubMed 22389286 )
#30533	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 #26865
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 )

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Barrientosiimonas humi (DSM 24617, CGMCC 4.6864, 39)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_006716095

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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