Name: Salegentibacter sediminis K5023
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159784

Type strain:

Species: Salegentibacter sediminis

Strain Designation: K5023

Culture col. no.: KCTC 52477, MCCC 1H00173

Strain history: <- Zongjun Du, Shandong Univ.

NCBI tax ID(s): 1930251 (species)

Section

Salegentibacter sediminis K5023 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from marine sediment, which was collected off the coast of Weihai.

colony-forming
Gram-negative
rod-shaped
aerobe
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	*Flavobacteriaceae*
	Genus	*Salegentibacter*
	Species	**Salegentibacter sediminis**
	Full Scientific Name (LPSN)	Salegentibacter sediminis Liang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66601]	Gram stain	negative

[Ref.: #66601]	Cell length	0.8-1.4 µm

[Ref.: #66601]	Cell width	0.2-0.3 µm

[Ref.: #66601]	Cell shape	rod-shaped

[Ref.: #66601]	Motility	no

[Ref.: #66601]	Colony size	0.5-1 mm
[Ref.: #66601]	Colony color	yellow
[Ref.: #66601]	Colony shape	circular
[Ref.: #66601]	Incubation period	3 days
[Ref.: #66601]	Cultivation medium used	Marine agar (MA)

[Ref.: #66601]	Pigment production	no
[Ref.: #66601]	Pigment name	Flexirubin-type

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66601]

Culture medium

Marine agar (MA)

[Ref.: #66601]

Culture medium growth

		Temperature
[Ref.: #66601]	growth	33 °C
[Ref.: #66601]	growth	16-37 °C
[Ref.: #67771]	growth	25-33 °C

[Ref.: #66601]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	Kind of pH		pH
[Ref.: #66601]		optimum	7.0-7.5
[Ref.: #66601]	no	growth	6-8.5
[Ref.: #66601]		growth	6.5-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66601]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66601]		NaCl		growth	1-10	%(w/v)
[Ref.: #66601]		NaCl		optimum	5	%(w/v)

[Ref.: #66601]	Observation	The major respiratory quinone is MK-6.
[Ref.: #66601]	Observation	The polar lipids are one phosphatidylethanolamine, three phospholipids and four unidentified lipids.

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66601]	agar ChEBI	-	hydrolysis
[Ref.: #66601]	arabinose ChEBI	+	carbon source
[Ref.: #66601]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #66601]	D-fructose ChEBI	+	builds acid from
[Ref.: #66601]	D-galactose ChEBI	+	builds acid from
[Ref.: #66601]	D-mannose ChEBI	+	builds acid from
[Ref.: #66601]	esculin ChEBI	+	builds acid from
[Ref.: #66601]	ferric citrate ChEBI	+	assimilation
[Ref.: #66601]	gentiobiose ChEBI	+	builds acid from
[Ref.: #66601]	inulin ChEBI	+	builds acid from
[Ref.: #66601]	lactose ChEBI	+	carbon source
[Ref.: #66601]	maltose ChEBI	+	builds acid from
[Ref.: #66601]	mannitol ChEBI	+	carbon source
[Ref.: #66601]	melibiose ChEBI	+	builds acid from
[Ref.: #66601]	nitrate ChEBI	-	reduction
[Ref.: #66601]	potassium 5-dehydro-D-gluconate	+	builds acid from
[Ref.: #66601]	rhamnose ChEBI	+	carbon source
[Ref.: #66601]	sorbitol ChEBI	+	carbon source
[Ref.: #66601]	starch ChEBI	+	builds acid from
[Ref.: #66601]	starch ChEBI	-	hydrolysis
[Ref.: #66601]	sucrose ChEBI	+	builds acid from
[Ref.: #66601]	sucrose ChEBI	+	carbon source
[Ref.: #66601]	trehalose ChEBI	+	builds acid from
[Ref.: #66601]	tween 20 ChEBI	+	hydrolysis
[Ref.: #66601]	tween 40 ChEBI	+	hydrolysis
[Ref.: #66601]	tween 60 ChEBI	+	hydrolysis
[Ref.: #66601]	tween 80 ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #66601]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #66601]	cefotaxime sodium ChEBI	yes	30	µg (disc)
[Ref.: #66601]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #66601]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #66601]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #66601]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #66601]	lincomycin ChEBI	yes	2	µg (disc)
[Ref.: #66601]	nalidixic acid ChEBI				yes	30	µg (disc)
[Ref.: #66601]	neomycin ChEBI				yes	30	µg (disc)
[Ref.: #66601]	norfloxacin ChEBI	yes	30	µg (disc)
[Ref.: #66601]	penicillin ChEBI	yes	10	µg (disc)
[Ref.: #66601]	rifampicin ChEBI	yes	5	µg (disc)
[Ref.: #66601]	spiramycin II ChEBI	yes	30	µg (disc)
[Ref.: #66601]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #66601]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #66601]	tobramycin ChEBI				yes	10	µg (disc)
[Ref.: #66601]	trimethoprim ChEBI				yes	10	µg (disc)
[Ref.: #66601]	vancomycin ChEBI				yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66601]		indole ChEBI	yes
[Ref.: #66601]		sulfide ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #66601]	acid phosphatase	+	3.1.3.2
[Ref.: #66601]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66601]	alpha-galactosidase	-	3.2.1.22
[Ref.: #66601]	alpha-glucosidase	+	3.2.1.20
[Ref.: #66601]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66601]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66601]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #66601]	beta-galactosidase	-	3.2.1.23
[Ref.: #66601]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66601]	catalase	-	1.11.1.6
[Ref.: #66601]	chymotrypsin	+	3.4.4.5
[Ref.: #66601]	cystine arylamidase	-	3.4.11.3
[Ref.: #66601]	cytochrome oxidase	-	1.9.3.1
[Ref.: #66601]	esterase (C 4)	-
[Ref.: #66601]	esterase Lipase (C 8)	-
[Ref.: #66601]	leucine arylamidase	+	3.4.11.1
[Ref.: #66601]	lipase (C 14)	-
[Ref.: #66601]	lysine decarboxylase	-	4.1.1.18
[Ref.: #66601]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #66601]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66601]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #66601]	trypsin	-	3.4.21.4
[Ref.: #66601]	tryptophan deaminase	-	4.1.99.1
[Ref.: #66601]	urease	-	3.5.1.5
[Ref.: #66601]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66601]

Fatty acid	Percentage
C15:0 iso	21.2
C15:0 anteiso	15.8
C16:1 w7c and/or iso-C15 2OH	8.4
C15:1 iso G	6.8
C17:0 iso 3OH	5.8
C17:0 2OH	5.6
C17:1 anteiso w9c	5.6
C17:1 iso w9c	4.8
C16:0 iso	4.7
C15:0 2OH	3.2
C15:0	2.7
C15:0 iso 3OH	2
C16:1 iso H	1.8
C16:0 iso 3OH	1.5
C16:0	1.4
C15:1 anteiso A	0.9
C17:1 w6c	0.7
C17:0 iso	0.5
C13:0 iso	0.3

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

[Ref.: #66601]	Sample type/isolated from	marine sediment, which was collected off the coast of Weihai
[Ref.: #66601]	Country	China
[Ref.: #66601]	Country ISO 3 Code	CHN
[Ref.: #66601]	Continent	Asia
[Ref.: #66601]	Geographic location	37.5180°/122.0300°
[Ref.: #66601]	Isolation/enrichment procedure	The marine sediment sample was processed using an enrichment culture medium as described by Du. Incubation was performed at 25°C for 30 days in a 500 ml beaker-flask (sealed with degreasing cotton, and filled with 300 ml medium and 6 g sediment sample). The beaker-flask was shaken at 130 r.p.m. and kept sealed during incubation. The enrichment cultures were diluted with 9 ml sterile seawater and spread onto marine agar 2216 (MA; BD). The plates were incubated aerobically at 25°C for 7 days.

[Ref.: #67771]	Sample type/isolated from	From marine sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	the coastal area of Weihai
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
[Ref.: #67771]	Geographic location	37.5181°/122.0300°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Coast
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KX424878 (>99% sequence identity) for Salegentibacter sediminis subclade from Microbeatlas

Aquatic Samples	127
Soil Samples	27
Animal Samples	12
Plant Samples	4
Total Samples	170

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.: #66601]	Salegentibacter sp. K5023 16S ribosomal RNA gene, partial sequence	KX424878	1450	ENA	1930251 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Salegentibacter sediminis K5023	GCA_002078605	contig	GenBank	1930251 tax ID	*
[Ref.: #66792]	Salegentibacter sediminis K5023	2839535834	draft	JGI IMG/M	1930251 tax ID	*

[Ref.: #66601]

GC-content

40.1 mol%

sequence analysis

Availability in culture collections External links

[Ref.: #66601]

Culture collection no.

KCTC 52477, MCCC 1H00173

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Salegentibacter sediminis sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from coastal sediment.	Liang QY, Xu ZX, Zhang J, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002849	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 )

#66601

Qi-Yun Liang, Zhen-Xing Xu, Jing Zhang, Guan-Jun Chen, Zong-Jun Du: Salegentibacter sediminis sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from coastal sediment. IJSEM 68: 2375 - 2380 2018 ( DOI 10.1099/ijsem.0.002849 , PubMed 29856310 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 .

* These data were automatically processed and therefore are not curated

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