Name: Flavihumibacter profundi JCM 32675
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 164322

Type strain:

Species: Flavihumibacter profundi

Culture col. no.: JCM 32675, CCTCC AB 2018060, KCTC 62290

Strain history: S.-R. Ko; KRIBB, South Korea; CHu64-6-1.

NCBI tax ID(s): 2716883 (species)

Special Collections

JCM
KCTC

Section

When using BacDive for research please cite our paper

Flavihumibacter profundi JCM 32675 is a mesophilic bacterium that was isolated from Sediment core from the Daechung Reservoir at a depth of 67cm.

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacteroidota*
	Class	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Flavihumibacter*
	Species	**Flavihumibacter profundi**
	Full Scientific Name (LPSN)	Flavihumibacter profundi Ren et al. 2021

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	negative Confidence in %99.3

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Ability of spore formation

no Confidence in %98.2

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #67770]	Sample type/isolated from	Sediment core from the Daechung Reservoir at a depth of 67cm
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence MF770247 (>99% sequence identity) for Flavihumibacter profundi subclade from Microbeatlas

Aquatic Samples	1176
Soil Samples	1023
Animal Samples	247
Plant Samples	34
Total Samples	2480

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.: #67770]	Flavihumibacter profundi 16S ribosomal RNA gene, partial sequence	MF770247	1465	GenBank ENA	2716883 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavihumibacter profundi KCTC 62290	GCA_020076305	contig	GenBank ENA	2716883 tax ID	*
[Ref.: #66792]	Flavihumibacter profundi strain KCTC 62290	2716883.3	wgs	PATRIC	2716883 tax ID	*

[Ref.: #67770]

GC-content

46.5 mol%

high performance liquid chromatography (HPLC)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavihumibacter profundi strain KCTC 62290 PATRIC: 2716883.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	79.741	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	95.516	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	88.734	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	79.836	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	95.001	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	87.194	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavihumibacter profundi KCTC 62290 NCBI: GCA_020076305
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	98.2
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	75.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	99.3
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	68.4

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 32675, CCTCC AB 2018060, KCTC 62290

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavihumibacter profundi sp. nov., isolated from eutrophic freshwater sediment.	Ren TT, Jin CZ, Jin FJ, Li T, Kim CJ, Oh HM, Lee HG, Jin L	J Microbiol	10.1007/s12275-018-7567-8	2018	*

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 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

* These data were automatically processed and therefore are not curated

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Flavihumibacter profundi strain KCTC 62290

Flavihumibacter profundi KCTC 62290

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