Candidimonas humi (DSM 25336, CCUG 55807, LMG 24813)

Name: Candidimonas humi (DSM 25336, CCUG 55807, LMG 24813)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 388

Type strain

Strain Designation SC-092

Culture col. no. DSM 25336 CCUG 55807 LMG 24813 SC-092

NCBI tax ID(s) 683355

Special Collections DSMZ CCUG

Links

Candidimonas humi SC-092 is a mesophilic prokaryote that was isolated from sewage sludge compost.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 359549

LMG 24813,CCUG 55807,DSM 25336

@ref 20215

Last LPSN update 2025-12-16 09:46:51

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Alcaligenaceae

Genus Candidimonas

Species Candidimonas humi

Full scientific name Candidimonas humi Vaz-Moreira et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	97.9
125438	negative	95.056

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
18005	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
18005	positive	growth	28	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		98

Fatty acid profile

Metadata FA analysis

@ref

60743

Fatty acid	Percentage	ECL
C16:0	34.5	16
C17:0 CYCLO	27.9	16.888
C16:1 ω7c	7.7	15.819
C14:0 3OH/C16:1 ISO I	7.2	15.485
C18:1 ω7c /12t/9t	6.9	17.824
C18:0	5.8	18
Unidentified	3	18.135
C12:0 2OH	1.9	13.178
C19:0 CYCLO ω8c	1.7	18.9
C16:0 2OH	1.4	17.233
C16:1 2OH	0.9	17.047
C12:0 ALDE ?	0.6	10.915
C18:2 ω6,9c/C18:0 ANTE	0.5	17.724

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Biodegradation	#Composting
#Engineered	#Waste	#Sewage sludge

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
18005	sewage sludge compost			Portugal	PRT	Europe
60743	Sewage sludge compost	2005	Porto ?	Portugal	PRT	Europe

Taxonmaps

69479

Global distribution of 16S sequence FN556192 (>99% sequence identity) for Candidimonas from Microbeatlas

Aquatic Samples	50
Soil Samples	62
Animal Samples	42
Plant Samples	17
Total Samples	171

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18005	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
124043	ASM4265094v1 assembly for Candidimonas humi LMG 24813	scaffold	GCA_042650945			683355	74.24
66792	ASM1916606v1 assembly for Candidimonas humi DSM 25336	contig	GCA_019166065	683355.3	3000830047	683355	72.74

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
18005	Candidimonas humi partial 16S rRNA gene, type strain SC-092T	FN556192	1411	683355
124043	Candidimonas humi strain DSM 25336 16S ribosomal RNA gene, partial sequence.	MH553020	1453	683355
124043	Candidimonas humi strain LMG 24813 16S ribosomal RNA gene, partial sequence.	MT760654	1375	683355

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Candidimonas humi DSM 25336
NCBI: GCA_019166065

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.00	no
125439	motility	BacteriaNetⓘ	yes	84.30	no
125439	gram_stain	BacteriaNetⓘ	negative	97.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	71.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Candidimonas humi strain DSM 25336
PATRIC: 683355.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.06	no
125438	anaerobic	anaerobicⓘ	no	98.43	no
125438	spore-forming	spore-formingⓘ	no	87.58	no
125438	aerobic	aerobicⓘ	yes	81.16	no
125438	thermophilic	thermophileⓘ	no	96.48	no
125438	flagellated	motile2+ⓘ	no	61.58	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Candidimonas bauzanensis sp. nov., isolated from soil, and emended description of the genus Candidimonas Vaz-Moreira et al. 2011.	Zhang DC, Busse HJ, Wieser C, Liu HC, Zhou YG, Schinner F, Margesin R	Int J Syst Evol Microbiol	10.1099/ijs.0.036400-0	2011
Phylogeny	Candidimonas nitroreducens gen. nov., sp. nov. and Candidimonas humi sp. nov., isolated from sewage sludge compost.	Vaz-Moreira I, Figueira V, Lopes AR, De Brandt E, Vandamme P, Nunes OC, Manaia CM	Int J Syst Evol Microbiol	10.1099/ijs.0.021188-0	2010

References

#18005	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25336
#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 )
#60743	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55807
#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) .
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Candidimonas humi (DSM 25336, CCUG 55807, LMG 24813)

Name and taxonomic classification