Name: Candidimonas humi SC-092
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 388

Type strain:

Species: Candidimonas humi

Strain Designation: SC-092

Culture col. no.: DSM 25336, CCUG 55807, LMG 24813

Strain history: <- C. M. Manaia, Escola Superior de Biotecnol., Univ. Católica Portuguesa, Porto, Portugal; SC-092

NCBI tax ID(s): 683355 (species)

SI-ID 359549

LMG 24813, CCUG 55807, DSM 25336

Section

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

Gram-negative
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Alcaligenaceae*
	Genus	*Candidimonas*
	Species	**Candidimonas humi**
	Full Scientific Name (LPSN)	Candidimonas humi Vaz-Moreira et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.996

Information on culture and growth conditions Culture and growth conditions

[Ref.: #18005]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #18005]

Culture medium growth

[Ref.: #18005]

Culture medium link

Medium recipe at MediaDive

[Ref.: #18005]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #18005]			growth	28 °C

[Ref.: #18005]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

Fatty acid profile

Metadata FA analysis

Reference

[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

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

[Ref.: #18005]	Sample type/isolated from	sewage sludge compost
[Ref.: #18005]	Country	Portugal
[Ref.: #18005]	Country ISO 3 Code	PRT
[Ref.: #18005]	Continent	Europe

[Ref.: #60743]	Sample type/isolated from	Sewage sludge compost
[Ref.: #60743]	Sampling date	2005
[Ref.: #60743]	Geographic location (country and/or sea, region)	Porto ?
[Ref.: #60743]	Country	Portugal
[Ref.: #60743]	Country ISO 3 Code	PRT
[Ref.: #60743]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Composting
#Engineered	#Waste	#Sewage sludge

What are isolation sources categories?

[Ref.: #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

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

[Ref.: #18005]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #18005]	Candidimonas humi partial 16S rRNA gene, type strain SC-092T	FN556192	1411	ENA	683355 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Candidimonas humi DSM 25336	GCA_019166065	contig	GenBank	683355 tax ID	*
[Ref.: #66792]	Candidimonas humi strain DSM 25336	683355.3	wgs	PATRIC	683355 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: Candidimonas humi strain DSM 25336 PATRIC: 683355.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Candidimonas humi strain DSM 25336 PATRIC: 683355.3
[Ref.: #69480]	gram-positive	no	97.239	no
[Ref.: #69480]	anaerobic	no	99.339	no
[Ref.: #69480]	halophile	no	74.125	no
[Ref.: #69480]	spore-forming	no	93.973	no
[Ref.: #69480]	glucose-util	no	55.91	no
[Ref.: #69480]	thermophile	no	99.121	yes
[Ref.: #69480]	flagellated	no	97.752	no
[Ref.: #69480]	aerobic	yes	90.483	no
[Ref.: #69480]	glucose-ferment	no	88.811	no
[Ref.: #69480]	motile	no	83.806	no

Availability in culture collections External links

[Ref.: #18005]

Culture collection no.

DSM 25336, CCUG 55807, LMG 24813

[Ref.: #70068]

SI-ID 359549

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 .

#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 )

#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 )

* These data were automatically processed and therefore are not curated

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Candidimonas humi strain DSM 25336

Candidimonas humi strain DSM 25336

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