Rhodococcus rhodnii (DSM 43336, ATCC 35071, KCC A-0203)

Name: Rhodococcus rhodnii (DSM 43336, ATCC 35071, KCC A-0203)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10893

Type strain

Strain Designation B/O, N 445, A-0203, N445

Culture col. no. DSM 43336 ATCC 35071 KCC A-0203 NCIB 11279 B/O 19 more

NCBI tax ID(s) 1219023 38312

Special Collections DSMZ CCUG JCM KCTC CIP Wink compendium

History <- M. Goodfellow, N 445 <- P. Hill, B/O (Nocardia rhodnii) KCC A-0203 <-- M. Goodfellow N445 <-- P. Hill B/O. CIP <- 1994, JCM <- KCC: strain A-0203 <- M. Goodfellow: strain N445 <- P. Hill: strain B/O, Nocardia rhodnii

Links

Rhodococcus rhodnii B/O is an obligate aerobe, spore-forming, Gram-positive bacterium that was isolated from reduviid bug.

spore-forming Gram-positive rod-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 13835

LMG 5363,ATCC 35071,JCM 3203,NCIB 11279,NRRL B-16535,CCUG 23604,CIP 104181,NCIMB 11279,VKM Ac-1187,CCRC 13390,KCTC 9805,CECT 5750,NBRC 100604,BCRC 13390,ATCC 35701,CGMCC 4.1816,DSM 43336,CCUG 51068

@ref 20215

Last LPSN update 2026-02-09 11:20:23

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Rhodococcus

Species Rhodococcus rhodnii

Full scientific name Rhodococcus rhodnii Goodfellow and Alderson 1979 (Approved Lists 1980)

BacDive ID	Other strains from **Rhodococcus rhodnii** (4)	Type strain
10894	R. rhodnii A1, N 443, DSM 43337, CIP 104627
10895	R. rhodnii A/O, Gdf N444, Hill A/O, N 444, DSM 43959, ...
10896	R. rhodnii B/I, Gdf N446, Hill B/I, N 446, B/l, DSM ...
103560	R. rhodnii ST033348(HKI),

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
122220	positive	rod-shaped
125438			92.5
125438	positive		90.541
125439	positive		99

Colony morphology

@ref	Incubation period	Medium used
19567	10-14 days	ISP 2
19567	10-14 days	ISP 3
19567	10-14 days	ISP 4
19567	10-14 days	ISP 5
19567	10-14 days	ISP 6
19567	10-14 days	ISP 7
122220

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19567		ISP 2
19567		ISP 3
19567		ISP 4
19567		ISP 5
19567		ISP 6
19567		ISP 7

Multimedia

@ref:	10962
multimedia content:	DSM_43336.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43336.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10962	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
19567	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19567	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19567	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19567	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19567	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19567	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
41037	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
122220	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
10962	positive	growth	28
19567	positive	optimum	28
41037	positive	growth	30
67770	positive	growth	28
122220	positive	growth	25-37
122220	negative	growth	10
122220	negative	growth	41
122220	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
122220	obligate aerobe
125438	aerobe	90.261
125439	obligate aerobe	98

Spore formation

@ref	Spore description	Type of spore	Spore formation
19567	Formation of spores, spore surface smooth, fragmentation	spore
122220

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19567	NaCl	positive	maximum	5 %
122220	NaCl	positive	growth	0-8 %
122220	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-8(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
19567	22599 ChEBI	arabinose	-
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
19567	62968 ChEBI	cellulose	-
122220	16947 ChEBI	citrate	-	carbon source
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68371	17108 ChEBI	D-arabinose	-	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
68371	16899 ChEBI	D-mannitol	-	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
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
122220	4853 ChEBI	esculin	-	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
19567	28757 ChEBI	fructose	-
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
19567	17234 ChEBI	glucose	-
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
122220	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	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68368	25094 ChEBI	lysine	+	degradation	from API 20E
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
19567	29864 ChEBI	mannitol	-
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
19567	17268 ChEBI	myo-inositol	-
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
122220	17632 ChEBI	nitrate	+	reduction
122220	17632 ChEBI	nitrate	-	respiration
122220	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
19567	16634 ChEBI	raffinose	-
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
19567	26546 ChEBI	rhamnose	-
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
19567	17992 ChEBI	sucrose	-
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid
19567	18222 ChEBI	xylose	-

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
122220	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
122220	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test	Indole test
122220	15688 ChEBI	acetoin	-
68368	15688 ChEBI	acetoin	-			from API 20E
122220	17234 ChEBI	glucose		-
68368	35581 ChEBI	indole			-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
122220	alcohol dehydrogenase	-	1.1.1.1
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
68382	alpha-mannosidase	-	3.2.1.24	from API zym
122220	amylase	+
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
122220	beta-galactosidase	-	3.2.1.23
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
122220	caseinase	-	3.4.21.50
122220	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
122220	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
122220	gamma-glutamyltransferase	-	2.3.2.2
122220	gelatinase	-
68368	gelatinase	-		from API 20E
122220	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
122220	lipase	-
68382	lipase (C 14)	+		from API zym
122220	lysine decarboxylase	-	4.1.1.18
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
122220	ornithine decarboxylase	-	4.1.1.17
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
122220	oxidase	+
122220	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
122220	tryptophan deaminase	-
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
122220	tween esterase	-
122220	urease	+	3.5.1.5
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
19567	-	+	+	+	-	-	+	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	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
19567	not determinedn.d.	+	+	+	+	+	+	-	-	+	+	-	-	-	-	-	-	-	-	-
122220	-	-	+	+	+	+	+	-	-	-	+	-	-	-	-	-	-	-	-	-

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
122220	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
122220	not determinedn.d.	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Arthropoda	#Insecta

Isolation

@ref	Sample type	Host species
10962	reduviid bug
67770	Reduviid bug (Rhodnius prolixus)	Rhodnius prolixus
122220	Reduviid bug, Rhodnius prolixus

Taxonmaps

69479

Global distribution of 16S sequence X80621 (>99% sequence identity) for Rhodococcus rhodnii subclade from Microbeatlas

Aquatic Samples	89
Soil Samples	172
Animal Samples	101
Plant Samples	19
Total Samples	381

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10962	1	Risk group (German classification) According to TRBA 466
19567	1	Risk group (German classification) According to TRBA 466
122220	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
67770	ASM801191v1 assembly for Rhodococcus rhodnii ATCC 35071	scaffold	GCA_008011915	38312.5		38312	74.38
67770	ASM189492v1 assembly for Rhodococcus rhodnii NBRC 100604	contig	GCA_001894925	1219023.3		1219023	58.94
67770	ASM72037v1 assembly for Rhodococcus rhodnii NRRL B-16535	contig	GCA_000720375	38312.3	2772190761	38312	2.03

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	R.rhodnii 16S rRNA gene (ATCC 35071T)	X81935	1369	38312
20218	Rhodococcus rhodnii strain DSM 43336 16S ribosomal RNA gene, partial sequence	KF410352	1360	38312
20218	Rhodococcus rhodnii 16S rRNA gene, strain DSM43336T	X80621	1476	38312

GC content

@ref	GC-content (mol%)	Method
67770	69.7	genome sequence analysis
67770	70.2	high performance liquid chromatography (HPLC)
67770	72.3	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus rhodnii ATCC 35071
NCBI: GCA_008011915

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.00	no
125439	gram_stain	BacteriaNetⓘ	positive	99.00	no
125439	motility	BacteriaNetⓘ	no	75.40	no
125439	spore_formation	BacteriaNetⓘ	no	69.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus rhodnii NBRC 100604
PATRIC: 1219023.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.54	no
125438	anaerobic	anaerobicⓘ	no	98.19	yes
125438	spore-forming	spore-formingⓘ	yes	58.34	yes
125438	aerobic	aerobicⓘ	yes	90.26	no
125438	thermophilic	thermophileⓘ	no	96.50	yes
125438	flagellated	motile2+ⓘ	no	92.50	no

Literature

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Phylogeny	Candidates for symbiotic control of sugarcane white leaf disease.	Wangkeeree J, Miller TA, Hanboonsong Y.	Appl Environ Microbiol	10.1128/aem.01439-12	2012
	Use of whole genome sequences to develop a molecular phylogenetic framework for Rhodococcus fascians and the Rhodococcus genus.	Creason AL, Davis EW, Putnam ML, Vandeputte OM, Chang JH.	Front Plant Sci	10.3389/fpls.2014.00406	2014
Genetics	Genome of Rhodnius prolixus, an insect vector of Chagas disease, reveals unique adaptations to hematophagy and parasite infection.	Mesquita RD, Vionette-Amaral RJ, Lowenberger C, Rivera-Pomar R, Monteiro FA, Minx P, Spieth J, Carvalho AB, Panzera F, Lawson D, Torres AQ, Ribeiro JM, Sorgine MH, Waterhouse RM, Montague MJ, Abad-Franch F, Alves-Bezerra M, Amaral LR, Araujo HM, Araujo RN, Aravind L, Atella GC, Azambuja P, Berni M, Bittencourt-Cunha PR, Braz GR, Calderon-Fernandez G, Carareto CM, Christensen MB, Costa IR, Costa SG, Dansa M, Daumas-Filho CR, De-Paula IF, Dias FA, Dimopoulos G, Emrich SJ, Esponda-Behrens N, Fampa P, Fernandez-Medina RD, da Fonseca RN, Fontenele M, Fronick C, Fulton LA, Gandara AC, Garcia ES, Genta FA, Giraldo-Calderon GI, Gomes B, Gondim KC, Granzotto A, Guarneri AA, Guigo R, Harry M, Hughes DS, Jablonka W, Jacquin-Joly E, Juarez MP, Koerich LB, Lange AB, Latorre-Estivalis JM, Lavore A, Lawrence GG, Lazoski C, Lazzari CR, Lopes RR, Lorenzo MG, Lugon MD, Majerowicz D, Marcet PL, Mariotti M, Masuda H, Masuda H, Megy K, Melo AC, Melo AC, Missirlis F, Mota T, Noriega FG, Nouzova M, Nunes RD, Oliveira RL, Oliveira-Silveira G, Ons S, Orchard I, Pagola L, Paiva-Silva GO, Pascual A, Pavan MG, Pedrini N, Peixoto AA, Pereira MH, Pike A, Polycarpo C, Prosdocimi F, Ribeiro-Rodrigues R, Robertson HM, Salerno AP, Salmon D, Santesmasses D, Schama R, Seabra-Junior ES, Silva-Cardoso L, Silva-Neto MA, Souza-Gomes M, Sterkel M, Taracena ML, Tojo M, Tu ZJ, Tubio JM, Ursic-Bedoya R, Venancio TM, Walter-Nuno AB, Wilson D, Warren WC, Wilson RK, Huebner E, Dotson EM, Oliveira PL.	Proc Natl Acad Sci U S A	10.1073/pnas.1506226112	2015
Enzymology	Ribosome display of combinatorial antibody libraries derived from mice immunized with heat-killed Xylella fastidiosa and the selection of MopB-specific single-chain antibodies.	Azizi A, Arora A, Markiv A, Lampe DJ, Miller TA, Kang AS.	Appl Environ Microbiol	10.1128/aem.07807-11	2012
Phylogeny	16S rRNA gene-based identification of midgut bacteria from field-caught Anopheles gambiae sensu lato and A. funestus mosquitoes reveals new species related to known insect symbionts.	Lindh JM, Terenius O, Faye I.	Appl Environ Microbiol	10.1128/aem.71.11.7217-7223.2005	2005
Genetics	Genome Wide Mapping of Peptidases in Rhodnius prolixus: Identification of Protease Gene Duplications, Horizontally Transferred Proteases and Analysis of Peptidase A1 Structures, with Considerations on Their Role in the Evolution of Hematophagy in Triatominae.	Henriques BS, Gomes B, da Costa SG, Moraes CDS, Mesquita RD, Dillon VM, Garcia ES, Azambuja P, Dillon RJ, Genta FA.	Front Physiol	10.3389/fphys.2017.01051	2017
Transcriptome	Pyrosequencing-based analysis of the microbiome associated with the horn fly, Haematobia irritans.	Palavesam A, Guerrero FD, Heekin AM, Wang J, Dowd SE, Sun Y, Foil LD, Perez de Leon AA.	PLoS One	10.1371/journal.pone.0044390	2012
Pathogenicity	The Drosophila melanogaster Gut Microbiota Provisions Thiamine to Its Host.	Sannino DR, Dobson AJ, Edwards K, Angert ER, Buchon N.	mBio	10.1128/mbio.00155-18	2018
	Antibiotic treatment of the tick vector Amblyomma americanum reduced reproductive fitness.	Zhong J, Jasinskas A, Barbour AG.	PLoS One	10.1371/journal.pone.0000405	2007
Genetics	Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome.	Panfilio KA, Vargas Jentzsch IM, Benoit JB, Erezyilmaz D, Suzuki Y, Colella S, Robertson HM, Poelchau MF, Waterhouse RM, Ioannidis P, Weirauch MT, Hughes DST, Murali SC, Werren JH, Jacobs CGC, Duncan EJ, Armisen D, Vreede BMI, Baa-Puyoulet P, Berger CS, Chang CC, Chao H, Chen MM, Chen YT, Childers CP, Chipman AD, Cridge AG, Crumiere AJJ, Dearden PK, Didion EM, Dinh H, Doddapaneni HV, Dolan A, Dugan S, Extavour CG, Febvay G, Friedrich M, Ginzburg N, Han Y, Heger P, Holmes CJ, Horn T, Hsiao YM, Jennings EC, Johnston JS, Jones TE, Jones JW, Khila A, Koelzer S, Kovacova V, Leask M, Lee SL, Lee CY, Lovegrove MR, Lu HL, Lu Y, Moore PJ, Munoz-Torres MC, Muzny DM, Palli SR, Parisot N, Pick L, Porter ML, Qu J, Refki PN, Richter R, Rivera-Pomar R, Rosendale AJ, Roth S, Sachs L, Santos ME, Seibert J, Sghaier E, Shukla JN, Stancliffe RJ, Tidswell O, Traverso L, van der Zee M, Viala S, Worley KC, Zdobnov EM, Gibbs RA, Richards S.	Genome Biol	10.1186/s13059-019-1660-0	2019
Metabolism	Characterization of mycolic acids from the pathogen Rhodococcus equi by tandem mass spectrometry with electrospray ionization.	Hsu FF, Soehl K, Turk J, Haas A.	Anal Biochem	10.1016/j.ab.2010.10.006	2011
	RNA Interference in Insects: Protecting Beneficials and Controlling Pests.	Vogel E, Santos D, Mingels L, Verdonckt TW, Broeck JV.	Front Physiol	10.3389/fphys.2018.01912	2018
Metabolism	Microcosm enrichment of biphenyl-degrading microbial communities from soils and sediments.	Wagner-Dobler I, Bennasar A, Vancanneyt M, Strompl C, Brummer I, Eichner C, Grammel I, Moore ER.	Appl Environ Microbiol	10.1128/aem.64.8.3014-3022.1998	1998
Enzymology	Characterization of a truncated lipoarabinomannan from the Actinomycete Turicella otitidis.	Gilleron M, Garton NJ, Nigou J, Brando T, Puzo G, Sutcliffe IC.	J Bacteriol	10.1128/jb.187.3.854-861.2005	2005
	RNAi in Arthropods: Insight into the Machinery and Applications for Understanding the Pathogen-Vector Interface.	Barnard AC, Nijhof AM, Fick W, Stutzer C, Maritz-Olivier C.	Genes (Basel)	10.3390/genes3040702	2012
	Capsule-transmitted gut symbiotic bacterium of the Japanese common plataspid stinkbug, Megacopta punctatissima.	Fukatsu T, Hosokawa T.	Appl Environ Microbiol	10.1128/aem.68.1.389-396.2002	2002
	Trypanosoma cruzi: adaptation to its vectors and its hosts.	Noireau F, Diosque P, Jansen AM.	Vet Res	10.1051/vetres/2009009	2009
Transcriptome	An insight into the transcriptome of the digestive tract of the bloodsucking bug, Rhodnius prolixus.	Ribeiro JM, Genta FA, Sorgine MH, Logullo R, Mesquita RD, Paiva-Silva GO, Majerowicz D, Medeiros M, Koerich L, Terra WR, Ferreira C, Pimentel AC, Bisch PM, Leite DC, Diniz MM, da S G V Junior JL, Da Silva ML, Araujo RN, Gandara AC, Brosson S, Salmon D, Bousbata S, Gonzalez-Caballero N, Silber AM, Alves-Bezerra M, Gondim KC, Silva-Neto MA, Atella GC, Araujo H, Dias FA, Polycarpo C, Vionette-Amaral RJ, Fampa P, Melo AC, Tanaka AS, Balczun C, Oliveira JH, Goncalves RL, Lazoski C, Rivera-Pomar R, Diambra L, Schaub GA, Garcia ES, Azambuja P, Braz GR, Oliveira PL.	PLoS Negl Trop Dis	10.1371/journal.pntd.0002594	2014
	Molecular strategies for interrupting arthropod-borne virus transmission by mosquitoes.	Blair CD, Adelman ZN, Olson KE.	Clin Microbiol Rev	10.1128/cmr.13.4.651	2000
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
	Genetics of mosquito vector competence.	Beerntsen BT, James AA, Christensen BM.	Microbiol Mol Biol Rev	10.1128/mmbr.64.1.115-137.2000	2000
Phylogeny	Phylogenetic analysis of the salinipostin gamma-butyrolactone gene cluster uncovers new potential for bacterial signalling-molecule diversity.	Creamer KE, Kudo Y, Moore BS, Jensen PR.	Microb Genom	10.1099/mgen.0.000568	2021
Genetics	Defining mycobacteria: Shared and specific genome features for different lifestyles.	Vissa VD, Sakamuri RM, Li W, Brennan PJ.	Indian J Microbiol	10.1007/s12088-009-0006-0	2009
Phylogeny	A chemotaxonomic study of the lipoglycans of Rhodococcus rhodnii N445 (NCIMB 11279).	Flaherty C, Minnikin DE, Sutcliffe IC	Zentralbl Bakteriol	10.1016/s0934-8840(96)80017-x	1996
	Speluncibacter jeojiensis gen. nov. sp. nov., a novel bacterium of the order Mycobacteriales isolated from a cave and a proposal of Speluncibacteraceae fam. nov.	Lee SD, Yang HL, Han JH, Kim IS.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006267	2024
Phylogeny	Rhodococcus aerolatus sp. nov., isolated from subarctic rainwater.	Hwang CY, Lee I, Cho Y, Lee YM, Baek K, Jung YJ, Yang YY, Lee T, Rhee TS, Lee HK.	Int J Syst Evol Microbiol	10.1099/ijs.0.070086-0	2015
Phylogeny	Rhodococcus triatomae sp. nov., isolated from a blood-sucking bug.	Yassin AF.	Int J Syst Evol Microbiol	10.1099/ijs.0.63571-0	2005

References

#10962	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43336
#19567	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 )
#41037	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68368	Automatically annotated from API 20E .
#68371	Automatically annotated from API 50CH acid .
#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 .
#122220	Collection of Institut Pasteur ; Curators of the CIP; CIP 104181
#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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Rhodococcus rhodnii (DSM 43336, ATCC 35071, KCC A-0203)

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