Segniliparus rugosus (DSM 45345, ATCC BAA-974, CCUG 50838)

Name: Segniliparus rugosus (DSM 45345, ATCC BAA-974, CCUG 50838)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14052

Type strain

Culture col. no. DSM 45345 ATCC BAA-974 CCUG 50838 CDC 945 CIP 108380 1 more

NCBI tax ID(s) 679197 286804

Special Collections DSMZ CCUG JCM CIP Literature strains

History DSMZ <- JCM/RIKEN <- CIP; CIP 108380 <- W. R. Butler; CDC 945 JCM <-- CIP 108380 <-- W. R. Butler CDC 945. CIP <- 2004, W. R. Butler, CDC, Atlanta, USA: strain CDC 945

Links

Segniliparus rugosus DSM 45345 is an aerobe, rod-shaped bacterium that was isolated from human sputum.

rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 214786

CCUG 50838,ATCC BAA-974,CIP 108380,JCM 13579,DSM 45345

@ref 20215

Last LPSN update 2026-05-29 08:28:11

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Segniliparaceae

Genus Segniliparus

Species Segniliparus rugosus

Full scientific name Segniliparus rugosus Butler et al. 2005

BacDive ID	Other strains from **Segniliparus rugosus** (1)	Type strain
14051	S. rugosus DSM 44986, ATCC BAA-975, CDC 606, CIP 108381

Morphology

Cell morphology

@ref	Cell length	Cell width	Cell shape	Confidence	Gram stain
31396	1.35 µm	0.4 µm	rod-shaped
125438				93.375
122306			rod-shaped		positive

Pigmentation

31396

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16339	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
122306	CIP Medium 267		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
16339	positive	growth	28-37
31396	positive	optimum	33
59012	positive	growth	30-37
67770	positive	growth	28
122306	positive	growth	22-30
122306	negative	growth	10
122306	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31396	aerobe
59012	aerobe
122306	obligate aerobe
125439	facultative anaerobe	92.907

Spore formation

31396

Spore formationno

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31396	17754 ChEBI	glycerol	+	carbon source
122306	606565 ChEBI	hippurate	+	hydrolysis
31396	29864 ChEBI	mannitol	+	carbon source
122306	17632 ChEBI	nitrate	-	reduction
122306	17632 ChEBI	nitrate	-	respiration
122306	16301 ChEBI	nitrite	-	reduction
31396	30911 ChEBI	sorbitol	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122306	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
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
68382	alpha-mannosidase	-	3.2.1.24	from API zym
122306	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
122306	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
122306	caseinase	-	3.4.21.50
122306	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
122306	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
122306	gamma-glutamyltransferase	-	2.3.2.2
122306	gelatinase	-
122306	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
122306	lipase	-
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
122306	oxidase	-
122306	protease	-
68382	trypsin	-	3.4.21.4	from API zym
122306	tween esterase	-
122306	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

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
122306	-	+	+	+	-	+	-	-	-	-	+	+	+	-	-	+	+	-	-	-

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
122306	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Fluids	#Sputum

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
16339	human sputum	Homo sapiens	Alabama	USA	USA	North America
59012	Human sputum	Homo sapiens	Alabama	USA	USA	North America
67770	Human sputum	Homo sapiens
122306	Human, Sputum	Homo sapiens	Alabama	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AY608920 (>99% sequence identity) for Segniliparus from Microbeatlas

Aquatic Samples	747
Soil Samples	1009
Animal Samples	1121
Plant Samples	392
Total Samples	3269

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
16339	yes, in single cases	1	Risk group (German classification) According to TRBA 466
122306		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	Segn_rugo_CDC_945_V2 assembly for Segniliparus rugosus ATCC BAA-974	scaffold	GCA_000185725	679197.3	2562617189	679197	72.35

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16339	Segniliparus rugosus strain CDC 945 16S ribosomal RNA gene, partial sequence	AY608920	1458		286804

GC content

@ref	GC-content (mol%)	Method
16339	72
67770	68.2	genome sequence analysis
67770	72	thermal denaturation, midpoint method (Tm)
67770	68.12	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Segn_rugo_CDC_945_V2 assembly for Segniliparus rugosus ATCC BAA-974
BV-BRC: 679197.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	92.91	no
125439	gram_stain	BacteriaNetⓘ	positive	82.91	no
125439	motility	BacteriaNetⓘ	no	70.06	no
125439	spore_formation	BacteriaNetⓘ	yes	51.08	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Segniliparus rugosus ATCC BAA-974
PATRIC: 679197.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.03	no
125438	anaerobic	anaerobicⓘ	no	95.07	yes
125438	spore-forming	spore-formingⓘ	no	66.89	yes
125438	aerobic	aerobicⓘ	yes	86.13	yes
125438	thermophilic	thermophileⓘ	no	96.86	yes
125438	flagellated	motile2+ⓘ	no	93.38	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genomic and proteomic features of mycobacteriophage SWU1 isolated from China soil.	Fan X, Yan J, Xie L, Zeng L, Young RF, Xie J.	Gene	10.1016/j.gene.2015.02.053	2015
Enzymology	Bacterial calpains and the evolution of the calpain (C2) family of peptidases.	Rawlings ND.	Biol Direct	10.1186/s13062-015-0095-0	2015
	Veillonella, Firmicutes: Microbes disguised as Gram negatives.	Vesth T, Ozen A, Andersen SC, Kaas RS, Lukjancenko O, Bohlin J, Nookaew I, Wassenaar TM, Ussery DW.	Stand Genomic Sci	10.4056/sigs.2981345	2013
Phylogeny	Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny.	Mucyn TS, Yourstone S, Lind AL, Biswas S, Nishimura MT, Baltrus DA, Cumbie JS, Chang JH, Jones CD, Dangl JL, Grant SR.	PLoS Pathog	10.1371/journal.ppat.1003807	2014
Genetics	High quality draft genome sequence of Segniliparus rugosus CDC 945(T)= (ATCC BAA-974(T)).	Earl AM, Desjardins CA, Fitzgerald MG, Arachchi HM, Zeng Q, Mehta T, Griggs A, Birren BW, Toney NC, Carr J, Posey J, Butler WR	Stand Genomic Sci	10.4056/sigs.2255041	2011
Phylogeny	Novel mycolic acid-containing bacteria in the family Segniliparaceae fam. nov., including the genus Segniliparus gen. nov., with descriptions of Segniliparus rotundus sp. nov. and Segniliparus rugosus sp. nov.	Butler WR, Floyd MM, Brown JM, Toney SR, Daneshvar MI, Cooksey RC, Carr J, Steigerwalt AG, Charles N	Int J Syst Evol Microbiol	10.1099/ijs.0.63465-0	2005

References

#16339	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45345
#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 )
#27706	IJSEM 1615 2005 ( DOI 10.1099/ijs.0.63465-0 , PubMed 16014491 )
#31396	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 #27706
#59012	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50838
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#122306	Collection of Institut Pasteur ; Curators of the CIP; CIP 108380
#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

About us

Segniliparus rugosus (DSM 45345, ATCC BAA-974, CCUG 50838)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000185725

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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