Name: Chryseobacterium scophthalmum MM1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5673

Type strain:

Species: Chryseobacterium scophthalmum

Strain Designation: MM1

Culture col. no.: DSM 16779, ATCC 700039, CCM 4109, CCUG 33454, CIP 104199, LMG 13028

Strain history: CIP <- 1994, J.F. Bernardet, INRA, Jouy-en-Josas, France: strain MM1, Flavobacterium scophthalmum <- CCM <- B. Austin, Herriot-Watt Univ., Edinburg, UK

NCBI tax ID(s): 59733 (species)

SI-ID 9865

LMG 13028, CCM 4109, CIP 104199, ATCC 700039, CCUG 33454, NCIMB 13463, KCTC 2907, BCRC 17334, CCRC 17334, DSM 16779

Section

Chryseobacterium scophthalmum MM1 is a mesophilic animal pathogen that was isolated from turbot, gill.

animal pathogen
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Weeksellaceae*
	Genus	*Chryseobacterium*
	Species	**Chryseobacterium scophthalmum**
	Full Scientific Name (LPSN)	Chryseobacterium scophthalmum (Mudarris et al. 1994) Vandamme et al. 1994

Synonym

Flavobacterium scophthalmum

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6582]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #6582]

Culture medium growth

[Ref.: #6582]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6582]

Culture medium composition

expand / minimize

[Ref.: #37164]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #37164]

Culture medium growth

[Ref.: #37164]

Culture medium composition

expand / minimize

[Ref.: #122526]

Culture medium

CIP Medium 3

[Ref.: #122526]

Culture medium growth

[Ref.: #122526]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6582]	growth	30 °C
[Ref.: #37164]	growth	30 °C
[Ref.: #51528]	growth	18-24 °C

[Ref.: #6582]	Temperature range	mesophilic
[Ref.: #37164]	Temperature range	mesophilic
[Ref.: #51528]	Temperature range	psychrophilic

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

[Ref.: #6582]	Sample type/isolated from	turbot, gill
[Ref.: #6582]	Geographic location (country and/or sea, region)	Scotland
[Ref.: #6582]	Country	United Kingdom
[Ref.: #6582]	Country ISO 3 Code	GBR
[Ref.: #6582]	Continent	Europe

[Ref.: #51528]	Sample type/isolated from	Turbot (Scophthalmus maximus),gills
[Ref.: #51528]	Country	United Kingdom
[Ref.: #51528]	Country ISO 3 Code	GBR
[Ref.: #51528]	Continent	Europe

[Ref.: #122526]	Sample type/isolated from	Turbot, gill
[Ref.: #122526]	Geographic location (country and/or sea, region)	Scotland
[Ref.: #122526]	Country	United Kingdom
[Ref.: #122526]	Country ISO 3 Code	GBR
[Ref.: #122526]	Continent	Europe
[Ref.: #122526]	Isolation date	1987
* marker position based on {}

Isolation sources categories

#Host	#Fishes	-
#Host Body-Site	#Oral cavity and airways	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ271009 (>99% sequence identity) for Chryseobacterium scophthalmum from Microbeatlas

Aquatic Samples	104
Soil Samples	35
Animal Samples	160
Plant Samples	172
Total Samples	471

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

[Ref.: #6582]	Pathogenicity (animal)	yes
[Ref.: #6582]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #122526]	Biosafety level	1	Risk group (French classification)

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.: #6582]	Chryseobacterium scophthalmum 16S rRNA gene, strain LMG 13028	AJ271009	1458	ENA	59733 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium scophthalmum DSM 16779	GCA_900143185	contig	GenBank	59733 tax ID	*
[Ref.: #66792]	Chryseobacterium scophthalmum strain DSM 16779	59733.4	wgs	PATRIC	59733 tax ID	*
[Ref.: #66792]	Chryseobacterium scophthalmum DSM 16779	2690315624	draft	JGI IMG/M	59733 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium scophthalmum strain DSM 16779 PATRIC: 59733.4
[Ref.: #69480]	gram-positive	no	98.304	no
[Ref.: #69480]	anaerobic	no	99.352	no
[Ref.: #69480]	halophile	no	94.368	no
[Ref.: #69480]	spore-forming	no	95.398	no
[Ref.: #69480]	glucose-util	yes	87.158	no
[Ref.: #69480]	thermophile	no	99.67	no
[Ref.: #69480]	flagellated	no	95.517	no
[Ref.: #69480]	aerobic	yes	91.813	no
[Ref.: #69480]	motile	no	90.783	no
[Ref.: #69480]	glucose-ferment	no	92.076	no

Availability in culture collections External links

[Ref.: #6582]

Culture collection no.

DSM 16779, ATCC 700039, CCM 4109, CCUG 33454, CIP 104199, LMG 13028

[Ref.: #75155]

SI-ID 9865

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chryseobacterium schmidteae sp. nov. a novel bacterial species isolated from planarian Schmidtea mediterranea.	Kangale LJ, Raoult D, Ghigo E, Fournier PE	Sci Rep	10.1038/s41598-021-90562-3	2021	*
Phylogeny	Chryseobacterium mulctrae sp. nov., isolated from raw cow's milk.	Yoon SH, Lee JE, Han RH, Kwon M, Kim GB	Int J Syst Evol Microbiol	10.1099/ijsem.0.003647	2019	*
Phylogeny	Chryseobacterium ginsengisoli sp. nov., isolated from the rhizosphere of ginseng and emended description of Chryseobacterium gleum.	Nguyen NL, Kim YJ, Hoang VA, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.045427-0	2013	*
Phylogeny	Soonwooa buanensis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater.	Joung Y, Song J, Lee K, Oh HM, Joh K, Cho JC	Int J Syst Evol Microbiol	10.1099/ijs.0.017707-0	2009	*
Phylogeny	Chryseobacterium aquaticum sp. nov., isolated from a water reservoir.	Kim KK, Lee KC, Oh HM, Lee JS	Int J Syst Evol Microbiol	10.1099/ijs.0.65491-0	2008	*
Phylogeny	Kaistella koreensis gen. nov., sp. nov., a novel member of the Chryseobacterium-Bergeyella-Riemerella branch.	Kim MK, Im WT, Shin YK, Lim JH, Kim SH, Lee BC, Park MY, Lee KY, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.02998-0	2004	*
Phylogeny	Flavobacterium scophthalmum sp. nov., a pathogen of turbot (Scophthalmus maximus L.).	Mudarris M, Austin B, Segers P, Vancanneyt M, Hoste B, Bernardet JF	Int J Syst Bacteriol	10.1099/00207713-44-3-447	1994	*

References

#6582

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16779

#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 )

#37164 ; Curators of the CIP;
#51528 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 33454

#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) .

#75155

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-ID9865.1 )

#122526 Collection of Institut Pasteur ; Curators of the CIP; CIP 104199
* These data were automatically processed and therefore are not curated

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Chryseobacterium scophthalmum strain DSM 16779

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