Mycobacterium chitae (DSM 44633, ATCC 19627, CIP 105383)

Name: Mycobacterium chitae (DSM 44633, ATCC 19627, CIP 105383)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8219

Type strain

Strain Designation 2502, 14 116 0001

Culture col. no. DSM 44633 ATCC 19627 CIP 105383 CCUG 39504 NCTC 10485 3 more

NCBI tax ID(s) 1792

Special Collections DSMZ CCUG JCM CIP Wink compendium

History DSMZ <- ATCC <- M. Tsukamura JCM <-- CIP 105383 <-- V. Vincent <-- ATCC 19627 <-- M. Tsukamura 2502. CIP <- 1998, V. Vincent, Inst. Pasteur, Paris, France: strain 14 116 0001 <- ATCC <- M. Tsukamura: strain 2502

Links

Mycobacterium chitae 2502 is a microaerophile, rod-shaped bacterium that was isolated from soil.

rod-shaped microaerophile genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 37040

ATCC 19627,CCUG 39504,CIP 105383,DSM 44633,NCTC 10485,JCM 12403,CNCTC 7263

@ref 20215

Last LPSN update 2026-05-29 08:26:49

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium chitae

Full scientific name Mycobacterium chitae Tsukamura 1967 (Approved Lists 1980)

Synonyms (1)

Mycolicibacterium chitae

BacDive ID	Other strains from **Mycobacterium chitae** (3)	Type strain
8215	M. chitae 2503, DSM 43238, ATCC 19628, NCTC 10495, ...
8217	M. chitae DSM 43534, SN 2302
8218	M. chitae DSM 43535, SN 2303

Morphology

Cell morphology

@ref	Cell shape	Confidence	Gram stain
118235	rod-shaped
125438		90
125438		91.4	positive
125439		91.77
125439		98.317	positive

Colony morphology

@ref	Colony color	Incubation period	Medium used
19871	Cream	10-14 days	5006
19871	Cream	10-14 days	BUG
19871	Cream	10-14 days	MB7H9

Multimedia

@ref:	11942
multimedia content:	DSM_44633.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44633.jpg
caption:	Medium 645 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11942	LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354)	Medium recipe at MediaDive	Name: LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354) Composition: Potato flour 18.6104 g/l L-Asparagin 2.23325 g/l KH2PO4 1.55087 g/l Mg-citrate 0.372208 g/l Malachite green 0.248139 g/l MgSO4 0.148883 g/l Glycerol Fresh egg mixture Distilled water
11942	MIDDLEBROOK MEDIUM (DSMZ Medium 645)	Medium recipe at MediaDive	Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
19871	BUG
19871	5006		Medium: 5006 Name: Composition (g/l) Sucrose 3,0 Dextrin 15,0 Meat extract 1,0 Yeast extract 2,0 Tryptone soy broth (Oxoid) 5,0 NaCl 0,5 K2HPO4 0,5 MgSO4 x 7 H2O 0,5 FeSO4 x 7 H2O 0,01 Agar 20,0 Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7,3 Usage: Maintenance Organisms: All Actinomycetes
19871	MB7H9		Name: Middlebrook 7H9 (MB7H9) Broth Base Composition: Middelbrook 7H9 Broth Base 4.7 g/l Glycerol 2.0 g/l Casaminoacids 11.0 g/l Yeast extract 5.5 g/l Tween80 (20%) 2.5 g/l OADC-Enrichment 100 ml Agar 15.0 g/l Preparation: Dissolve in Milli-Q-H2O. Before Use add 10% OADC stock solution Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Maintenance and revitalization Organisms: Mycobacteria OADC stock solution old broth-name: OADC-Stock Composition: Bovine Serum Albumin, fraction V 5 % 1% Oleic Acid in 0.2N NaOH 5ml Glucose 2 % NaCl 0.85 % Comments: Melt 1% Oleic Acid in 65°C water bath. Dissolve all ingredients in 700ml of ddH2O. Adjust volume to 1L. Filter sterilize and store at 4°C. -To make 1% Oleic Acid in 0.2N NaOH: Dissolve 5g oleic acid (ampule) in 500ml 0.2N NaOH (300ml ddH2O + 20ml NaOH + adjust volume to 500ml). Heat solution to 55°C for oleic acid to melt. Store at -20°C in 50ml aliquots. There is no need to sterilize this. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria
32690	MEDIUM 55 - for Mycobacterium
118235	CIP Medium 55	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
11942	positive	growth	37
19871	positive	optimum	37
32690	positive	growth	37
54825	positive	growth	37
67770	positive	growth	37
118235	positive	growth	22-37
118235	negative	growth	10
118235	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
54825	microaerophile
118235	obligate aerobe
125439	obligate aerobe	98.801

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
118235	606565 ChEBI	hippurate	-	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
118235	17632 ChEBI	nitrate	+	reduction
118235	17632 ChEBI	nitrate	-	respiration
118235	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68379	17992 ChEBI	sucrose	+	fermentation	from API Coryne
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
118235	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
118235	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
118235	beta-galactosidase	+	3.2.1.23
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	+	3.2.1.31	from API zym
68379	beta-glucuronidase	+	3.2.1.31	from API Coryne
118235	caseinase	-	3.4.21.50
118235	catalase	+	1.11.1.6
118235	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
118235	gelatinase	-
68379	gelatinase	-		from API Coryne
118235	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
118235	lipase	-
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
118235	oxidase	-
118235	protease	-
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
118235	tryptophan deaminase	-
118235	tween esterase	-
118235	urease	+	3.5.1.5
68379	urease	+	3.5.1.5	from API Coryne

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	suberin monomers biosynthesis	100	2 of 2
66794	cyanate degradation	100	3 of 3
66794	L-lactaldehyde degradation	100	3 of 3
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	enterobactin biosynthesis	100	3 of 3
66794	ethanol fermentation	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	chorismate metabolism	100	9 of 9
66794	propanol degradation	100	7 of 7
66794	methylglyoxal degradation	100	5 of 5
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	cardiolipin biosynthesis	100	7 of 7
66794	threonine metabolism	100	10 of 10
66794	butanoate fermentation	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	photosynthesis	100	14 of 14
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	cis-vaccenate biosynthesis	100	2 of 2
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	acetate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	adipate degradation	100	2 of 2
66794	vitamin K metabolism	100	5 of 5
66794	flavin biosynthesis	93.33	14 of 15
66794	citric acid cycle	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	propionate fermentation	90	9 of 10
66794	starch degradation	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	ketogluconate metabolism	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	heme metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	urea cycle	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	purine metabolism	82.98	78 of 94
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	pentose phosphate pathway	81.82	9 of 11
66794	3-chlorocatechol degradation	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	serine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	alanine metabolism	75.86	22 of 29
66794	pyrimidine metabolism	75.56	34 of 45
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	toluene degradation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	lactate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	degradation of aromatic, nitrogen containing compounds	75	9 of 12
66794	isoleucine metabolism	75	6 of 8
66794	metabolism of disaccharids	72.73	8 of 11
66794	glutathione metabolism	71.43	10 of 14
66794	lipid metabolism	70.97	22 of 31
66794	myo-inositol biosynthesis	70	7 of 10
66794	phenol degradation	70	14 of 20
66794	sulfate reduction	69.23	9 of 13
66794	non-pathway related	68.42	26 of 38
66794	tryptophan metabolism	68.42	26 of 38
66794	oxidative phosphorylation	68.13	62 of 91
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	sphingosine metabolism	66.67	4 of 6
66794	IAA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	methionine metabolism	65.38	17 of 26
66794	bile acid biosynthesis, neutral pathway	64.71	11 of 17
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	proline metabolism	63.64	7 of 11
66794	degradation of sugar alcohols	62.5	10 of 16
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	lysine metabolism	61.9	26 of 42
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	cysteine metabolism	61.11	11 of 18
66794	lipoate biosynthesis	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	gallate degradation	60	3 of 5
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	d-mannose degradation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	cholesterol biosynthesis	54.55	6 of 11
66794	carnitine metabolism	50	4 of 8
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	resorcinol degradation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	tyrosine metabolism	50	7 of 14
66794	CMP-KDO biosynthesis	50	2 of 4
66794	grixazone biosynthesis	50	1 of 2
66794	degradation of pentoses	46.43	13 of 28
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	ascorbate metabolism	45.45	10 of 22
66794	lipid A biosynthesis	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	elloramycin biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	polyamine pathway	39.13	9 of 23
66794	degradation of hexoses	38.89	7 of 18
66794	carotenoid biosynthesis	36.36	8 of 22
66794	d-xylose degradation	36.36	4 of 11
66794	chlorophyll metabolism	33.33	6 of 18
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	arachidonic acid metabolism	27.78	5 of 18
66794	methanogenesis from CO2	25	3 of 12
66794	degradation of sugar acids	24	6 of 25
66794	allantoin degradation	22.22	2 of 9
66794	daunorubicin biosynthesis	22.22	2 of 9

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
19871	-	-	-	-	+	-	-	-	-	+	-	not determinedn.d.	-	-	-	-	-	-	+	-	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
19871	not determinedn.d.	-	+	+	-	+	+	+	+	-	+	-	-	-	+	-	-	-	-	-
118235	-	-	+	+	-	+	-	-	-	-	+	+	-	-	+	-	-	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
118235	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
118235	not determinedn.d.	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
11942	soil	Japan	JPN	Asia
67770	Soil (after injection to hen)
118235	Environment, Soil	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11942	1	Risk group (German classification) According to TRBA 466
19871	1	Risk group (German classification) According to TRBA 466
118235	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	50279_G01 assembly for Mycolicibacterium chitae NCTC10485	complete	GCA_900637205	1792.7	2867052265	1792	96.05
66792	ASM1072772v1 assembly for Mycolicibacterium chitae JCM 12403	complete	GCA_010727725	1792.9	8112715459	1792	95.61
66792	ASM2582172v1 assembly for Mycolicibacterium chitae DSM 44633	scaffold	GCA_025821725	1792.12	8113869742	1792	33.9

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Mycolicibacterium chitae 16S ribosomal RNA, complete sequence	M29560	1359	1792
20218	M.chitae 16S ribosomal RNA, part	X55603	1457	1792
20218	M.chitae 16S rRNA	X67874	1437	1792
20218	Mycobacterium chitae strain CIP 105383 16S ribosomal RNA gene, partial sequence	AF547910	540	1792

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: 50279_G01 assembly for Mycolicibacterium chitae NCTC10485
BV-BRC: 1792.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.80	no
125439	gram_stain	BacteriaNetⓘ	positive	98.32	no
125439	motility	BacteriaNetⓘ	no	91.77	no
125439	spore_formation	BacteriaNetⓘ	yes	48.09	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycolicibacterium chitae NCTC10485
NCBI: GCA_900637205.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.40	no
125438	anaerobic	anaerobicⓘ	no	98.06	no
125438	aerobic	aerobicⓘ	yes	88.15	no
125438	spore-forming	spore-formingⓘ	no	64.31	no
125438	thermophilic	thermophileⓘ	no	95.97	no
125438	flagellated	motile2+ⓘ	no	90.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	A novel real-time PCR assay for specific detection and quantification of Mycobacterium avium subsp. paratuberculosis in milk with the inherent possibility of differentiation between viable and dead cells.	Dzieciol M, Volgger P, Khol J, Baumgartner W, Wagner M, Hein I.	BMC Res Notes	10.1186/1756-0500-3-251	2010
Phylogeny	Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera.	Gupta RS, Lo B, Son J.	Front Microbiol	10.3389/fmicb.2018.00067	2018
	In Vitro Activity of the Sudapyridine (WX-081) against Non-Tuberculous Mycobacteria Isolated in Beijing, China.	Zhu R, Shang Y, Chen S, Xiao H, Ren R, Wang F, Xue Y, Li L, Li Y, Chu N, Huang H.	Microbiol Spectr	10.1128/spectrum.01372-22	2022
	In Vitro Antimicrobial Activities of Tigecycline, Eravacycline, Omadacycline, and Sarecycline against Rapidly Growing Mycobacteria.	Zhang T, Du J, Dong L, Wang F, Zhao L, Jia J, Wang C, Cheng M, Yu X, Huang H.	Microbiol Spectr	10.1128/spectrum.03238-22	2023
	In vitro and intracellular inhibitory activities of nosiheptide against Mycobacterium abscessus.	Zhu R, Yu X, Zhang T, Kong Y, Wang F, Jia J, Xue Y, Huang H.	Front Microbiol	10.3389/fmicb.2022.926361	2022
Pathogenicity	In Vitro Activities of Bedaquiline and Delamanid against Nontuberculous Mycobacteria Isolated in Beijing, China.	Yu X, Gao X, Li C, Luo J, Wen S, Zhang T, Ma Y, Dong L, Wang F, Huang H.	Antimicrob Agents Chemother	10.1128/aac.00031-19	2019
	Compilation of small ribosomal subunit RNA structures.	Neefs JM, Van de Peer Y, De Rijk P, Chapelle S, De Wachter R.	Nucleic Acids Res	10.1093/nar/21.13.3025	1993
	Growth of group IV mycobacteria on medium containing various saturated and unsaturated fatty acids.	Saito H, Tomioka H, Yoneyama T.	Antimicrob Agents Chemother	10.1128/aac.26.2.164	1984
Phylogeny	The division between fast- and slow-growing species corresponds to natural relationships among the mycobacteria.	Stahl DA, Urbance JW.	J Bacteriol	10.1128/jb.172.1.116-124.1990	1990
Enzymology	Presence of Mycobacterium avium subspecies and hepatitis E virus in raw meat products.	Lorencova A, Vasickova P, Makovcova J, Slana I.	J Food Prot	10.4315/0362-028x.jfp-13-252	2014
Pathogenicity	Cutibacterium avidum resists surgical skin antisepsis in the groin-a potential risk factor for periprosthetic joint infection: a quality control study.	Maurer SM, Kursawe L, Rahm S, Prinz J, Zinkernagel AS, Moter A, Kuster SP, Zbinden R, Zingg PO, Achermann Y.	Antimicrob Resist Infect Control	10.1186/s13756-021-00883-1	2021
	Distribution of non-tuberculosis mycobacteria strains from suspected tuberculosis patients by heat shock protein 65 PCR-RFLP.	Nour-Neamatollahie A, Ebrahimzadeh N, Siadat SD, Vaziri F, Eslami M, Akhavan Sepahi A, Khanipour S, Masoumi M, Sakhaee F, Ghazanfari Jajin M, Bahrmand A, Fateh A.	Saudi J Biol Sci	10.1016/j.sjbs.2016.02.001	2017
	Inteins invading mycobacterial RecA proteins.	Saves I, Laneelle MA, Daffe M, Masson JM.	FEBS Lett	10.1016/s0014-5793(00)01944-x	2000
	A novel class of antimicrobial drugs selectively targets a Mycobacterium tuberculosis PE-PGRS protein.	Seo H, Kim S, Mahmud HA, Islam MI, Yoon Y, Cho HD, Nam KW, Choi J, Gil YS, Lee BE, Song HY.	PLoS Biol	10.1371/journal.pbio.3001648	2022
	Skin-test sensitisation by tubercle bacilli and by other mycobacteria in Ethiopian school-children.	Lema E, Stanford J.	Tubercle	10.1016/0041-3879(84)90038-2	1984
	Mycolic acid patterns of some rapidly-growing species of Mycobacterium.	Minnikin DE, Minnikin SM, Parlett JH, Goodfellow M.	Zentralbl Bakteriol Mikrobiol Hyg A	10.1016/s0176-6724(85)80076-6	1985
	Characterization of temperate phage Che12 and construction of a new tool for diagnosis of tuberculosis.	Kumar V, Loganathan P, Sivaramakrishnan G, Kriakov J, Dusthakeer A, Subramanyam B, Chan J, Jacobs WR, Paranji Rama N.	Tuberculosis (Edinb)	10.1016/j.tube.2008.02.007	2008
Enzymology	Reverse transcription-PCR detection of Mycobacterium leprae in clinical specimens.	Kurabachew M, Wondimu A, Ryon JJ.	J Clin Microbiol	10.1128/jcm.36.5.1352-1356.1998	1998
Enzymology	Ribosomal DNA sequencing for identification of aerobic gram-positive rods in the clinical laboratory (an 18-month evaluation).	Bosshard PP, Abels S, Zbinden R, Bottger EC, Altwegg M.	J Clin Microbiol	10.1128/jcm.41.9.4134-4140.2003	2003
Enzymology	Determination of the etiology of presumptive feline leprosy by 16S rRNA gene analysis.	Hughes MS, Ball NW, Beck LA, de Lisle GW, Skuce RA, Neill SD.	J Clin Microbiol	10.1128/jcm.35.10.2464-2471.1997	1997
Metabolism	Two new Mycobacterium strains and their role in toluene degradation in a contaminated stream.	Tay ST, Hemond HF, Polz MF, Polz MF, Cavanaugh CM, Dejesus I, Krumholz LR.	Appl Environ Microbiol	10.1128/aem.64.5.1715-1720.1998	1998
Metabolism	Effect of model sorptive phases on phenanthrene biodegradation: molecular analysis of enrichments and isolates suggests selection based on bioavailability.	Friedrich M, Grosser RJ, Kern EA, Inskeep WP, Ward DM.	Appl Environ Microbiol	10.1128/aem.66.7.2703-2710.2000	2000
Metabolism	Characterization of Mycobacterium leprae RecA intein, a LAGLIDADG homing endonuclease, reveals a unique mode of DNA binding, helical distortion, and cleavage compared with a canonical LAGLIDADG homing endonuclease.	Singh P, Tripathi P, Silva GH, Pingoud A, Muniyappa K.	J Biol Chem	10.1074/jbc.m109.042861	2009
Enzymology	Multicenter evaluation of mycobacteria identification by PCR restriction enzyme analysis in laboratories from Latin America and the Caribbean.	Leao SC, Bernardelli A, Cataldi A, Zumarraga M, Robledo J, Realpe T, Mejia GI, da Silva Telles MA, Chimara E, Velazco M, Fernandez J, Rodrigues PA, Guerrero MI, Leon CI, Porras TB, Rastogi N, Goh KS, Suffys P, da Silva Rocha A, dos Santos Netto D, Ritacco V, Lopez B, Barrera L, Palomino JC, Martin A, Portaels F	J Microbiol Methods	10.1016/j.mimet.2004.11.015	2004

References

#11942	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44633
#19871	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#32690	; Curators of the CIP;
#54825	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 39504
#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) .
#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;
#68371	Automatically annotated from API 50CH acid .
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#118235	Collection of Institut Pasteur ; Curators of the CIP; CIP 105383
#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 )

Content

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Mycobacterium chitae (DSM 44633, ATCC 19627, CIP 105383)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Enzymes

Pathway annotation

API coryne

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900637205

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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