Name: Mycobacterium pseudoshottsii L15
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 8544

Type strain:

Species: Mycobacterium pseudoshottsii

Strain Designation: L15

Culture col. no.: DSM 45108, ATCC BAA-883, NCTC 13318, JCM 15466, CIP 109775

Strain history: CIP <- 2007, M. Rhodes, Virginia Inst. of Marine, Virginia, USA: strain L15

NCBI tax ID(s): 1136880 (strain), 265949 (species)

SI-ID 131085

ATCC BAA-883, NCTC 13318, DSM 45108, CIP 109775, JCM 15466

Special Collections

Section

Mycobacterium pseudoshottsii L15 is an obligate aerobe, ovoid-shaped animal pathogen that was isolated from granulomatous lesions in splenic tissue from a striped bass.

ovoid-shaped
animal pathogen
obligate aerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Mycobacteriaceae*
	Genus	*Mycobacterium*
	Species	**Mycobacterium pseudoshottsii**
	Full Scientific Name (LPSN)	Mycobacterium pseudoshottsii Rhodes et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31337]	Cell length	0.9 µm

[Ref.: #31337]	Cell width	0.5 µm

[Ref.: #31337]	Cell shape	ovoid-shaped
[Ref.: #122001]	Cell shape	rod-shaped

[Ref.: #122001]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92

[Ref.: #31337]

Pigment production

yes

Multimedia content

[Ref.: #12350]

Caption:

Medium 645 25°C

[Ref.: #12350]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12350]

Culture medium

MIDDLEBROOK MEDIUM (DSMZ Medium 645)

[Ref.: #12350]

Culture medium growth

[Ref.: #12350]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12350]

Culture medium composition

expand / minimize

[Ref.: #37835]

Culture medium

MEDIUM 55 - for Mycobacterium

[Ref.: #37835]

Culture medium growth

[Ref.: #122001]

Culture medium

CIP Medium 93

[Ref.: #122001]

Culture medium growth

[Ref.: #122001]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #122001]

Culture medium

CIP Medium 55

[Ref.: #122001]

Culture medium growth

[Ref.: #122001]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #12350]	growth	25 °C
[Ref.: #31337]	growth	23-37 °C
[Ref.: #31337]	optimum	24 °C
[Ref.: #37835]	growth	25 °C
[Ref.: #67770]	growth	25 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #122001]

Oxygen tolerance

obligate aerobe

[Ref.: #31337]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31337]		NaCl		growth	5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122001]	nitrate ChEBI	-	reduction
[Ref.: #122001]	nitrite ChEBI	-	reduction
[Ref.: #31337]	tween 80 ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #122001]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #31337]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #31337]	catalase	+	1.11.1.6
[Ref.: #122001]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #122001]	oxidase	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #31337]	urease	+	3.5.1.5
[Ref.: #122001]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #122001]	12101	-	+	+	+	+	+	+	+	+	-	+	+	-	-	-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #12350]	Sample type/isolated from	granulomatous lesions in splenic tissue from a striped bass(Morone saxatilis)

[Ref.: #67770]	Sample type/isolated from	Granulomatous lesions in splenic tissue from a striped bass (Morone saxatilis)
[Ref.: #67770]	Host species	Morone saxatilis
[Ref.: #67770]	Geographic location (country and/or sea, region)	Chesapeake Bay
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America

[Ref.: #122001]	Sample type/isolated from	Granulomatous splenix lesion in striped bass, Morone saxatilis
[Ref.: #122001]	Geographic location (country and/or sea, region)	Chesapeake bay
[Ref.: #122001]	Country	United States of America
[Ref.: #122001]	Country ISO 3 Code	USA
[Ref.: #122001]	Continent	North America
[Ref.: #122001]	Isolation date	2002
* marker position based on {}

Isolation sources categories

#Host	#Fishes	-
#Host Body-Site	#Other	#Wound
#Host Body-Site	#Organ	#Spleen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY570988 (>99% sequence identity) for Mycobacterium from Microbeatlas

Aquatic Samples	660
Soil Samples	1494
Animal Samples	250
Plant Samples	193
Total Samples	2597

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #12350]	Pathogenicity (animal)	yes
[Ref.: #12350]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122001]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #12350]	Mycobacterium pseudoshottsii 16S ribosomal RNA gene, partial sequence	AY570988	1453	GenBank ENA	1136880 tax ID
[Ref.: #67770]	Mycobacterium pseudoshottsii gene for 16S ribosomal RNA, partial sequence, strain: JCM 15466	AB548713	1475	GenBank ENA	1136880 tax ID
[Ref.: #20218]	Mycobacterium pseudoshottsii partial 16S rRNA gene, type strain NCTC 13318T	AM884320	565	GenBank ENA	1136880 tax ID	*
[Ref.: #124043]	Mycobacterium pseudoshottsii DNA, 16S-23S ribosomal RNA intergenic spacer, partial sequence, strain: JCM 15466.	AB548714	272	GenBank ENA	1136880 tax ID	*
[Ref.: #20218]	Mycobacterium pseudoshottsii strain NCTC 13318 16S ribosomal RNA gene, partial sequence	DQ987742	543	GenBank ENA	1136880 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Mycobacterium pseudoshottsii JCM 15466	GCA_001515365	scaffold	GenBank ENA	1136880 tax ID
[Ref.: #66792]	Mycobacterium pseudoshottsii JCM 15466	GCA_003584745	complete	GenBank ENA	1136880 tax ID	*
[Ref.: #66792]	Mycobacterium pseudoshottsii JCM 15466	1136880.4	complete	PATRIC	1136880 tax ID	*
[Ref.: #66792]	Mycobacterium pseudoshottsii L15	1136880.3	wgs	PATRIC	1136880 tax ID	*
[Ref.: #66792]	Mycobacterium pseudoshottsii JCM 15466	2909077730	complete	JGI IMG/M	1136880 tax ID	*
[Ref.: #66792]	Mycobacterium pseudoshottsii DSM 45108	GCA_025821505	contig	GenBank ENA	265949 tax ID	*

[Ref.: #67770]

GC-content

65.7 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Mycobacterium pseudoshottsii JCM 15466 JCM 15466 NCBI: GCA_003584745.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	79	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Mycobacterium pseudoshottsii JCM 15466 JCM 15466 NCBI: GCA_003584745.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	88.917	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.038	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	80.658	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	64.634	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.4	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	92	no

Availability in culture collections External links

[Ref.: #12350]

Culture collection no.

DSM 45108, ATCC BAA-883, NCTC 13318, JCM 15466, CIP 109775

[Ref.: #77929]

SI-ID 131085

Literature:

	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequence of the Fish Pathogen Mycobacterium pseudoshottsii Strain JCM15466, a Species Closely Related to M. marinum.	Hikima J, Sakai M, Aoki T, Takeyama H, Hawke J, Mori K, Tashiro K, Kuhara S	Genome Announc	10.1128/genomeA.01630-15	2016	*
Phylogeny	Mycobacterium pseudoshottsii sp. nov., a slowly growing chromogenic species isolated from Chesapeake Bay striped bass (Morone saxatilis).	Rhodes MW, Kator H, McNabb A, Deshayes C, Reyrat JM, Brown-Elliott BA, Wallace R, Trott KA, Parker JM, Lifland B, Osterhout G, Kaattari I, Reece K, Vogelbein W, Ottinger CA	Int J Syst Evol Microbiol	10.1099/ijs.0.63343-0	2005	*
	Complete Chromosome Sequence of a Mycolactone-Producing Mycobacterium, Mycobacterium pseudoshottsii.	Yoshida M, Miyamoto Y, Ogura Y, Hayashi T, Hoshino Y	Genome Announc	10.1128/genomeA.01363-17	2017	*

References

#12350

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45108

#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 )

#31337

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 #27651 (see below)

#37835 ; Curators of the CIP;

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#77929

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID131085.1 )

#122001 Collection of Institut Pasteur ; Curators of the CIP; CIP 109775

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#27651

IJSEM 1139 2005 ( DOI 10.1099/ijs.0.63343-0 , PubMed 15879246 )

* These data were automatically processed and therefore are not curated

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Mycobacterium pseudoshottsii JCM 15466 JCM 15466

Mycobacterium pseudoshottsii JCM 15466 JCM 15466

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