Lampropedia cohaerens (DSM 100029, KCTC 42939, MCC 2711)

Name: Lampropedia cohaerens (DSM 100029, KCTC 42939, MCC 2711)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132456

Type strain

Strain Designation CT6

Culture col. no. DSM 100029 KCTC 42939 MCC 2711 CT6

NCBI tax ID(s) 1610491

Special Collections DSMZ KCTC Literature strains

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Lampropedia cohaerens CT6 is an aerobe, Gram-negative, coccus-shaped prokaryote that forms circular colonies and was isolated from arsenic-rich microbial mat which covered the surface of stones surrounding a hot water spring.

Gram-negative coccus-shaped colony-forming aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 286496

KCTC 42939

@ref 20215

Last LPSN update 2025-12-16 10:01:31

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Lampropedia

Species Lampropedia cohaerens

Full scientific name Lampropedia cohaerens Tripathi et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
43722	negative	0.48-0.62 µm	0.32-0.39 µm	coccus-shaped
125439	negative
125439
125438	negative

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
43722	White	circular	1 day	Luria Bertani agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
43722	BHI agar
43722	Green top agar
43722	LB (Luria-Bertani) MEDIUM
43722	Polypeptone yeast extract agar
43722	Simmons citrate agar
43722	Trypticase Soy Agar (TSA)

Culture temp

@ref	Growth	Type	Temperature (°C)
43722	positive	growth	20-55

Culture pH

@ref	Ability	Type	PH	PH range
43722	positive	growth	6-9	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
43722	aerobe
125439	aerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43722	NaCl	positive	growth	1-3 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43722	17128 ChEBI	adipate	-	assimilation
43722	16947 ChEBI	citrate	+	assimilation
43722	16899 ChEBI	D-mannitol	-	assimilation
43722	16024 ChEBI	D-mannose	-	assimilation
43722	27689 ChEBI	decanoate	+	assimilation
43722	4853 ChEBI	esculin	-	hydrolysis
43722	5291 ChEBI	gelatin	-	hydrolysis
43722	17234 ChEBI	glucose	+	builds acid from
43722	17234 ChEBI	glucose	+	fermentation
43722	17368 ChEBI	hypoxanthine	+	assimilation
43722	30849 ChEBI	L-arabinose	-	assimilation
43722	25115 ChEBI	malate	+	assimilation
43722	17306 ChEBI	maltose	-	assimilation
43722	506227 ChEBI	N-acetylglucosamine	-	assimilation
43722	17632 ChEBI	nitrate	-	hydrolysis
43722	18401 ChEBI	phenylacetate	-	assimilation
43722	32032 ChEBI	potassium gluconate	-	assimilation
43722	53258 ChEBI	sodium citrate	+	assimilation
43722	28017 ChEBI	starch	+	hydrolysis
43722	53424 ChEBI	tween 20	+	hydrolysis
43722	53426 ChEBI	tween 80	+	hydrolysis
43722	16199 ChEBI	urea	-	hydrolysis
43722	15318 ChEBI	xanthine	+	assimilation

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43722	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
43722	arginine dihydrolase	-	3.5.3.6
43722	beta-galactosidase	-	3.2.1.23
43722	catalase	+	1.11.1.6
43722	cytochrome oxidase	-	1.9.3.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	formaldehyde oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	methylglyoxal degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	taurine degradation	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	Entner Doudoroff pathway	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	citric acid cycle	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	heme metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	propanol degradation	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	peptidoglycan biosynthesis	80	12 of 15
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	leucine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	alanine metabolism	75.86	22 of 29
66794	sulfopterin metabolism	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	degradation of aromatic, nitrogen containing compounds	75	9 of 12
66794	butanoate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	gluconeogenesis	75	6 of 8
66794	glutamate and glutamine metabolism	75	21 of 28
66794	lactate fermentation	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	proline metabolism	72.73	8 of 11
66794	histidine metabolism	72.41	21 of 29
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	purine metabolism	70.21	66 of 94
66794	propionate fermentation	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	arginine metabolism	66.67	16 of 24
66794	allantoin degradation	66.67	6 of 9
66794	flavin biosynthesis	66.67	10 of 15
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	methionine metabolism	65.38	17 of 26
66794	oxidative phosphorylation	64.84	59 of 91
66794	lipid metabolism	64.52	20 of 31
66794	glutathione metabolism	64.29	9 of 14
66794	degradation of sugar acids	64	16 of 25
66794	non-pathway related	63.16	24 of 38
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	cysteine metabolism	61.11	11 of 18
66794	lipoate biosynthesis	60	3 of 5
66794	tryptophan metabolism	57.89	22 of 38
66794	pyrimidine metabolism	57.78	26 of 45
66794	degradation of sugar alcohols	56.25	9 of 16
66794	d-mannose degradation	55.56	5 of 9
66794	pentose phosphate pathway	54.55	6 of 11
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	lysine metabolism	52.38	22 of 42
66794	ethanol fermentation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	phenylmercury acetate degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	biotin biosynthesis	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	tyrosine metabolism	50	7 of 14
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	carnitine metabolism	50	4 of 8
66794	polyamine pathway	47.83	11 of 23
66794	sulfate reduction	46.15	6 of 13
66794	metabolism of disaccharids	45.45	5 of 11
66794	vitamin B6 metabolism	45.45	5 of 11
66794	degradation of hexoses	44.44	8 of 18
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	creatinine degradation	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycogen metabolism	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	degradation of pentoses	35.71	10 of 28
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	nitrate assimilation	33.33	3 of 9
66794	phenol degradation	30	6 of 20
66794	arachidonic acid metabolism	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	toluene degradation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	glycogen biosynthesis	25	1 of 4
66794	phenylpropanoid biosynthesis	23.08	3 of 13

Fatty acid profile

Metadata FA analysis

@ref

43722

Fatty acid	Percentage
C15:0 iso	26.5
C17:0 iso 3OH	13.9
C15:1 iso	10.4
C16:1ω7c / C15:0 iso 2OH	10.2
C17:1 iso ω9c	5.9
C15:0 anteiso	4.7
C17:0 2OH	3
C15:0 iso 3OH	2.4
C17:0 iso	1.7
C16:0 iso 3OH	1.2
C15:0	1.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Environmental	#Terrestrial
#Condition	#Thermophilic (>45°C)
#Environmental	#Aquatic
#Environmental	#Microbial community

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
24245	arsenic-rich microbial mat which covered the surface of stones surrounding a hot water spring	Manikaran	India	IND	Asia	32.0263	77.3473 32.0263/77.3473
43722	The arsenic-rich microbial mats of a hot water spring	Himalayan ranges at Manikaran, Himachal Pradesh	India	IND	Asia

Taxonmaps

69479

Global distribution of 16S sequence KP265299 (>99% sequence identity) for Lampropedia cohaerens subclade from Microbeatlas

Aquatic Samples	2853
Soil Samples	423
Animal Samples	902
Plant Samples	106
Total Samples	4284

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM100521v1 assembly for Lampropedia cohaerens CT6	contig	GCA_001005215	1610491.6	2987053886	1610491	68.63

Genome browser: GCA_001005215

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24245	Lampropedia cohaerens strain CT6 16S ribosomal RNA gene, partial sequence	KP265299	1430		1610491

GC content

@ref	GC-content (mol%)	Method
43722	63.5	Thermal denaturation, fluorometry
24245	63.5	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lampropedia cohaerens CT6
NCBI: GCA_001005215

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.30	no
125439	motility	BacteriaNetⓘ	yes	90.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	93.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lampropedia cohaerens CT6
NCBI: GCA_001005215.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.43	yes
125438	anaerobic	anaerobicⓘ	no	97.25	yes
125438	aerobic	aerobicⓘ	yes	84.08	no
125438	spore-forming	spore-formingⓘ	no	88.17	no
125438	thermophilic	thermophileⓘ	no	92.49	no
125438	flagellated	motile2+ⓘ	yes	51.76	no

Literature

Title	Authors	Journal	DOI	Year
Draft genome sequence of Lampropedia cohaerens strain CT6(T) isolated from arsenic rich microbial mats of a Himalayan hot water spring.	Tripathi C, Mahato NK, Rani P, Singh Y, Kamra K, Lal R.	Stand Genomic Sci	10.1186/s40793-016-0179-1	2016
Lampropedia cohaerens sp. nov., a biofilm-forming bacterium isolated from microbial mats of a hot water spring, and emended description of the genus Lampropedia.	Tripathi C, Mahato NK, Singh AK, Kamra K, Korpole S, Lal R	Int J Syst Evol Microbiol	10.1099/ijsem.0.000853	2015

References

#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 )
#24245	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100029
#43722	C. Tripathi, N. K. Mahato, A. K. Singh, K. Kamra, S. Korpole, R. Lal: Lampropedia cohaerens sp. nov., a biofilm-forming bacterium isolated from microbial mats of a hot water spring, and emended description of the genus Lampropedia. IJSEM 66: 1156 - 1162 2016 ( DOI 10.1099/ijsem.0.000853 , PubMed 26675173 )
#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 )
#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 .
#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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Lampropedia cohaerens (DSM 100029, KCTC 42939, MCC 2711)

Name and taxonomic classification