Name: Photorhabdus laumondii TT01
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5036

Type strain:

Species: Photorhabdus laumondii

Strain Designation: TT01, HT1

Culture col. no.: DSM 15139, CCM 7076, CIP 105565

Strain history: CIP <- 1998, N. Boemare, Univ. Montpellier II, Lab. Pathol. comparée, Montpellier, France: strain TT01

NCBI tax ID(s): 2218628 (species)

SI-ID 69652

CIP 105565, DSM 15139, CCM 7076

Other strains from Photorhabdus laumondii

P. laumondii 07-5, DSM 15195
P. laumondii DJC, DSM 107756

Section

Photorhabdus laumondii TT01 is a facultative anaerobe, mesophilic, motile animal pathogen that was isolated from nematode Heterorhabditis bacteriophora.

motile
animal pathogen
facultative anaerobe
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Morganellaceae*
	Genus	*Photorhabdus*
	Species	**Photorhabdus laumondii**
	Full Scientific Name (LPSN)	Photorhabdus laumondii (Fischer-Le Saux et al. 1999) Machado et al. 2018

Synonym

Photorhabdus luminescens subsp. laumondii

Information on morphological and physiological properties Morphology

[Ref.: #120572]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.942

[Ref.: #120572]	Cell shape	rod-shaped

[Ref.: #120572]	Motility	no
[Ref.: #69480]	Motility	yes Confidence in %98.89

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5632]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)

[Ref.: #5632]

Culture medium growth

[Ref.: #5632]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5632]

Culture medium composition

expand / minimize

[Ref.: #5632]

Culture medium

REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)

[Ref.: #5632]

Culture medium growth

[Ref.: #5632]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5632]

Culture medium composition

expand / minimize

[Ref.: #39744]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #39744]

Culture medium growth

[Ref.: #39744]

Culture medium composition

expand / minimize

[Ref.: #120572]

Culture medium

CIP Medium 72

[Ref.: #120572]

Culture medium growth

[Ref.: #120572]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5632]		growth	28 °C
[Ref.: #39744]		growth	30 °C
[Ref.: #120572]		growth	30 °C
[Ref.: #120572]	no	growth	5 °C
[Ref.: #120572]	no	growth	10 °C
[Ref.: #120572]	no	growth	37 °C
[Ref.: #120572]	no	growth	41 °C

[Ref.: #5632]	Temperature range	mesophilic
[Ref.: #39744]	Temperature range	mesophilic
[Ref.: #120572]	Temperature range	mesophilic
[Ref.: #120572]	Temperature range	psychrophilic
[Ref.: #120572]	Temperature range	mesophilic
[Ref.: #120572]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #120572]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %98.946

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #120572]	citrate ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #120572]	glucose ChEBI	+	fermentation
[Ref.: #120572]	glucose ChEBI	+	degradation
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #120572]	lactose ChEBI	-	fermentation
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #120572]	malonate ChEBI	-	assimilation
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #120572]	mannitol ChEBI	-	fermentation
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #120572]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #120572]	nitrite ChEBI	-	reduction
[Ref.: #120572]	sodium thiosulfate ChEBI	-	builds gas from
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #120572]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #120572]		indole ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #120572]		acetoin ChEBI	-
[Ref.: #120572]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #120572]	alcohol dehydrogenase	-	1.1.1.1
[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.: #120572]	amylase	-
[Ref.: #120572]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #120572]	caseinase	+	3.4.21.50
[Ref.: #120572]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE
[Ref.: #120572]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #120572]	gelatinase	+/-
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #120572]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #120572]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #120572]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #120572]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #120572]	oxidase	-
[Ref.: #120572]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #120572]	protease	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #120572]	tryptophan deaminase	-
[Ref.: #120572]	tween esterase	+
[Ref.: #120572]	urease	+	3.5.1.5
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #5632]	24976	-	+	-	+	+	+	+	+	+	-	+	-	+	+	+	-	-	-	+	-	-
[Ref.: #5632]	23212	-	-	-	-	+	+	+	-	+	-	+	-	+	+	+	-	-	-	-	-	-

API® Biotype100:

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

	API ID	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
[Ref.: #120572]	1218	not determinedn.d.	+	+	-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	+	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	+	-	-	-	+	-	-	+	+	-	-	+	-

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.: #120572]	8801	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	+	-	+	-	-

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

[Ref.: #5632]	Sample type/isolated from	nematode Heterorhabditis bacteriophora
[Ref.: #5632]	Host species	Heterorhabditis bacteriophora
[Ref.: #5632]	Geographic location (country and/or sea, region)	Trinidad
[Ref.: #5632]	Country	Trinidad and Tobago
[Ref.: #5632]	Country ISO 3 Code	TTO
[Ref.: #5632]	Continent	Middle and South America

[Ref.: #120572]	Sample type/isolated from	Animal, Nematode Heterorhabditis bacteriophora (group HP88)
[Ref.: #120572]	Country	Trinidad and Tobago
[Ref.: #120572]	Country ISO 3 Code	TTO
[Ref.: #120572]	Continent	North America
[Ref.: #120572]	Isolation date	1996
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Nematoda

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ007404 (>99% sequence identity) for Photorhabdus laumondii from Microbeatlas

Aquatic Samples	16
Soil Samples	1
Animal Samples	23
Plant Samples	3
Total Samples	43

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

[Ref.: #5632]	Pathogenicity (animal)	yes
[Ref.: #5632]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120572]	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.: #20218]	Photorhabdus luminescens subsp. laumondii gene for 16S rRNA, partial sequence, strain: TT01	AB355874	1499	ENA	141679 tax ID	*
[Ref.: #20218]	Photorhabdus luminescens subsp. laumondii partial 16S rRNA gene, strain TT01	AJ007404	1540	ENA	141679 tax ID	*
[Ref.: #20218]	Photorhabdus luminescens subsp. laumondii strain TT01 16S ribosomal RNA gene, partial sequence	AY278646	1499	ENA	141679 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Photorhabdus laumondii subsp. laumondii TT01	GCA_003343245	complete	GenBank	141679 tax ID	*
[Ref.: #66792]	Photorhabdus laumondii subsp. laumondii strain TT01	141679.8	complete	PATRIC	141679 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Photorhabdus laumondii subsp. laumondii strain TT01 PATRIC: 141679.8
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Photorhabdus laumondii subsp. laumondii TT01 NCBI: GCA_003343245.1
[Ref.: #69480]	motile	yes	87.156	no
[Ref.: #69480]	flagellated	yes	65.196	no
[Ref.: #69480]	gram-positive	no	98.373	no
[Ref.: #69480]	anaerobic	no	98.204	no
[Ref.: #69480]	aerobic	yes	86.894	no
[Ref.: #69480]	halophile	no	88.64	no
[Ref.: #69480]	spore-forming	no	93.932	no
[Ref.: #69480]	glucose-util	yes	93.253	no
[Ref.: #69480]	thermophile	no	98.213	yes
[Ref.: #69480]	glucose-ferment	yes	84.692	yes

Availability in culture collections External links

[Ref.: #5632]

Culture collection no.

DSM 15139, CCM 7076, CIP 105565

[Ref.: #74531]

SI-ID 69652

References

#5632

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15139

#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 )

#39744 ; 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) .

#68369

Automatically annotated from API 20NE .

#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 )

#74531

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-ID69652.1 )

#120572 Collection of Institut Pasteur ; Curators of the CIP; CIP 105565
* These data were automatically processed and therefore are not curated

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Photorhabdus laumondii subsp. laumondii strain TT01

Photorhabdus laumondii subsp. laumondii TT01

Change proposal

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