Pseudonocardia autotrophica (DSM 43083, IMRU 543, 543)

Name: Pseudonocardia autotrophica (DSM 43083, IMRU 543, 543)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13326

Type strain

Strain Designation 543

Culture col. no. DSM 43083 IMRU 543 543

NCBI tax ID(s) 2074

Special Collections DSMZ

Links

Pseudonocardia autotrophica 543 is a mesophilic prokaryote of the family Pseudonocardiaceae.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 50149

DSM 43083,KCTC 9446,CGMCC 4.1295

@ref 20215

Last LPSN update 2025-12-16 09:50:04

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Pseudonocardia

Species Pseudonocardia autotrophica

Full scientific name Pseudonocardia autotrophica (Takamiya and Tubaki 1956) Warwick et al. 1994

Synonyms (4)

Nocardia autotrophica
"Proactinomyces autotrophicus"
"Streptomyces autotrophicus"
Amycolata autotrophica

BacDive ID	Other strains from **Pseudonocardia autotrophica** (29)	Type strain
13324	P. autotrophica 394, Kodai, DSM 535, ATCC 19727, CBS 466.68, ... (type strain)
13325	P. autotrophica DSM 43082, IMRU 418, NRRL B-1365
13327	P. autotrophica DSM 43084, IMRU 703
13328	P. autotrophica 9964 A, DSM 43085, IMRU 704
13329	P. autotrophica DSM 43086, IMRU 1105
13330	P. autotrophica A 588, DSM 43087, IMRU 1124
13331	P. autotrophica 3300, DSM 43088, IMRU 1299, NRRL B-16063
13332	P. autotrophica F354, DSM 43090, IMRU 1309
13333	P. autotrophica 8 (unidentified isolate), DSM 43091, IMRU ...
13334	P. autotrophica U4, DSM 43093, IMRU 1334
13335	P. autotrophica 7-34, DSM 43094, IMRU 1335
13336	P. autotrophica Boots Pure Drug Co., strain 116, 116, Boots ...
13337	P. autotrophica DSM 43096, DSM 43190, IMRU 1338, NCIB 9574
13338	P. autotrophica B-831a, DSM 43097, IMRU 1357
13339	P. autotrophica DSM 43098, DSM 652, IMRU 1398
13340	P. autotrophica DSM 43099, IMRU 1446, NRRL B-16065, RM 66A
13341	P. autotrophica 147, DSM 43100, IMRU 1523
13342	P. autotrophica G-216, DSM 43101, IMRU 1528
13343	P. autotrophica W 1961, DSM 43102, IMRU 1576
13344	P. autotrophica W 1962, DSM 43103, DSM 43211, DSM 651, IMRU ...
13345	P. autotrophica W 1963, DSM 43104, IMRU 1578
13346	P. autotrophica W 1995, DSM 43105, IMRU 1579
13347	P. autotrophica N 37, DSM 43106, IMRU 1597
13348	P. autotrophica CM 1512, DSM 43107, IMRU 1598
13349	P. autotrophica DSM 43108, IMRU 3520
13350	P. autotrophica DSM 43128, LBG A 3006, ETH 24301
13351	P. autotrophica DSM 43558, CBS 605.67, SN 6600
105408	P. autotrophica ST033331(HKI),
164922	P. autotrophica JCM 4010, KCTC 9567, VKM Ac-1067

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	positive	93.382
125439	positive	99.9

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
10746	GYM+S MEDIUM (DSMZ Medium 214)		Medium recipe at MediaDive	Name: GYM+S MEDIUM (DSMZ Medium 214) Composition: Starch 20.0 g/l Agar 12.0 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)	Range
10746	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	91.758
125439	obligate aerobe	98.7

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	valine metabolism	100	9 of 9
66794	adipate degradation	100	2 of 2
66794	gallate degradation	100	5 of 5
66794	methylglyoxal degradation	100	5 of 5
66794	CMP-KDO biosynthesis	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	Entner Doudoroff pathway	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	ethanol fermentation	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	enterobactin biosynthesis	100	3 of 3
66794	phenylmercury acetate degradation	100	2 of 2
66794	resorcinol degradation	100	2 of 2
66794	IAA biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	photosynthesis	100	14 of 14
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	glycine betaine biosynthesis	100	5 of 5
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	cyanate degradation	100	3 of 3
66794	taurine degradation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	formaldehyde oxidation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	citric acid cycle	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	propionate fermentation	90	9 of 10
66794	myo-inositol biosynthesis	90	9 of 10
66794	phenol degradation	90	18 of 20
66794	threonine metabolism	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	ketogluconate metabolism	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	propanol degradation	85.71	6 of 7
66794	purine metabolism	84.04	79 of 94
66794	NAD metabolism	83.33	15 of 18
66794	degradation of aromatic, nitrogen containing compounds	83.33	10 of 12
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	pentose phosphate pathway	81.82	9 of 11
66794	methionine metabolism	80.77	21 of 26
66794	3-phenylpropionate degradation	80	12 of 15
66794	factor 420 biosynthesis	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	starch degradation	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	tryptophan metabolism	78.95	30 of 38
66794	heme metabolism	78.57	11 of 14
66794	glutathione metabolism	78.57	11 of 14
66794	pyrimidine metabolism	77.78	35 of 45
66794	vitamin B1 metabolism	76.92	10 of 13
66794	urea cycle	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	non-pathway related	76.32	29 of 38
66794	butanoate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	lactate fermentation	75	3 of 4
66794	toluene degradation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	oxidative phosphorylation	73.63	67 of 91
66794	proline metabolism	72.73	8 of 11
66794	cysteine metabolism	72.22	13 of 18
66794	degradation of sugar acids	72	18 of 25
66794	aclacinomycin biosynthesis	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	degradation of pentoses	71.43	20 of 28
66794	tyrosine metabolism	71.43	10 of 14
66794	4-hydroxyphenylacetate degradation	70	7 of 10
66794	coenzyme M biosynthesis	70	7 of 10
66794	histidine metabolism	68.97	20 of 29
66794	alanine metabolism	68.97	20 of 29
66794	degradation of sugar alcohols	68.75	11 of 16
66794	androgen and estrogen metabolism	68.75	11 of 16
66794	methane metabolism	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	metabolism of disaccharids	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	carotenoid biosynthesis	63.64	14 of 22
66794	sulfate reduction	61.54	8 of 13
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	arginine metabolism	58.33	14 of 24
66794	degradation of hexoses	55.56	10 of 18
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	glycine metabolism	50	5 of 10
66794	sphingosine metabolism	50	3 of 6
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	vitamin E metabolism	50	2 of 4
66794	carnitine metabolism	50	4 of 8
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	cholesterol biosynthesis	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	allantoin degradation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	ascorbate metabolism	36.36	8 of 22
66794	polyamine pathway	34.78	8 of 23
66794	chlorophyll metabolism	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	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	catecholamine biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
10746	yes, in single cases	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
66792	ASM190261v1 assembly for Pseudonocardia autotrophica DSM 43083	scaffold	GCA_001902615	2074.5	2856658706	2074	44.08

Genome browser: GCA_001902615

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudonocardia autotrophica DSM 43083
NCBI: GCA_001902615

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	60.20	no
125439	motility	BacteriaNetⓘ	no	82.20	no
125439	gram_stain	BacteriaNetⓘ	positive	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudonocardia autotrophica DSM 43083
NCBI: GCA_001902615.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.38	no
125438	anaerobic	anaerobicⓘ	no	97.68	no
125438	aerobic	aerobicⓘ	yes	91.76	no
125438	spore-forming	spore-formingⓘ	yes	69.82	no
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	89.10	no

Literature

Title	Authors	Journal	DOI	Year
Update of the list of QPS-recommended microbiological agents intentionally added to food or feed as notified to EFSA 16: suitability of taxonomic units notified to EFSA until March 2022.	EFSA Panel on Biological Hazards (BIOHAZ), Koutsoumanis K, Allende A, Alvarez-Ordonez A, Bolton D, Bover-Cid S, Chemaly M, Davies R, De Cesare A, Hilbert F, Lindqvist R, Nauta M, Peixe L, Ru G, Simmons M, Skandamis P, Suffredini E, Cocconcelli PS, Fernandez Escamez PS, Maradona MP, Querol A, Sijtsma L, Suarez JE, Sundh I, Vlak J, Barizzone F, Hempen M, Correia S, Herman L.	EFSA J	10.2903/j.efsa.2022.7408	2022
Bioprospecting Microbial Diversity for Lignin Valorization: Dry and Wet Screening Methods.	Goncalves CC, Bruce T, Silva COG, Fillho EXF, Noronha EF, Carlquist M, Parachin NS.	Front Microbiol	10.3389/fmicb.2020.01081	2020
Fatty acid characterization of rapidly growing pathogenic aerobic actinomycetes as a means of identification.	McNabb A, Shuttleworth R, Behme R, Colby WD.	J Clin Microbiol	10.1128/jcm.35.6.1361-1368.1997	1997
Draft Genome Sequence of Pseudonocardia autotrophica Strain DSM 43083, an Efficient Producer of Peroxidases for Lignin Modification.	Grumaz C, Rais D, Kirstahler P, Vainshtein Y, Rupp S, Zibek S, Sohn K	Genome Announc	10.1128/genomeA.01562-16	2017

References

#10746	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43083
#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 )
#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 )
#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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Pseudonocardia autotrophica (DSM 43083, IMRU 543, 543)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001902615

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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