Cite this strain

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

Name and taxonomic classification

Candidimonas humi SC-092 is a mesophilic, Gram-negative bacterium that was isolated from sewage sludge compost.

Gram-negative mesophilic genome sequence 16S sequence Bacteria

SI-ID 359549

LMG 24813, CCUG 55807, DSM 25336

Last LPSN update 2024-12-09 10:43:09

Domain Bacteria

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	Country	Country ISO 3 Code	Continent
18005	sewage sludge compost	Portugal	PRT	Europe
60743	Sewage sludge compost	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

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
18005	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
18005	Candidimonas humi partial 16S rRNA gene, type strain SC-092T	FN556192	1411		683355

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Candidimonas humi DSM 25336	GCA_019166065	contig		683355
66792	Candidimonas humi strain DSM 25336	683355.3	wgs	PATRIC	683355

Genome-based predictions

Predictions

Predictions from Diaspora project 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 Diaspora project 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

External links

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

Straininfo Link

@ref	Straininfo	Culture collections
70068	359549	LMG 24813, CCUG 55807, DSM 25336

Culture collection no.

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

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 .
#70068	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-ID359549.1 )
#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 .

Rate our new design

Content

About us

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

Name and taxonomic classification