Name: Hymenobacter paludis KBP-30
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140889

Type strain:

Species: Hymenobacter paludis

Strain Designation: KBP-30

Culture col. no.: LMG 27293, KCTC 32237, KCTC 52533

Strain history: <- W-M Chen, Nat Kaohsiung Marine Uinv., Taiwan

NCBI tax ID(s): 1244895 (species)

Section

Hymenobacter paludis KBP-30 is an aerobe, chemoheterotroph, Gram-negative bacterium that forms circular colonies and was isolated from A water sample from the Banping Lake Wetland Park.

colony-forming
Gram-negative
motile
rod-shaped
aerobe
chemoheterotroph
16S sequence
Bacteria

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	*Cytophagia*
	Order	*Cytophagales*
	Family	*Hymenobacteraceae*
	Genus	*Hymenobacter*
	Species	**Hymenobacter paludis**
	Full Scientific Name (LPSN)	Hymenobacter paludis Chen et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43719]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #43719]	Cell length	1.2-1.6 µm

[Ref.: #43719]	Cell width	0.4-0.8 µm

[Ref.: #43719]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #43719]	Motility	yes
[Ref.: #67771]	Motility	yes

[Ref.: #43719]	Flagellum arrangement	gliding
[Ref.: #67771]	Flagellum arrangement	gliding

[Ref.: #43719]	Colony size	2.2-3.5 mm
[Ref.: #43719]	Colony color	Red
[Ref.: #43719]	Colony shape	circular
[Ref.: #43719]	Incubation period	3 days
[Ref.: #43719]	Cultivation medium used	R2A agar

[Ref.: #43719]	Pigment production	no
[Ref.: #43719]	Pigment name	Flexirubin-type
[Ref.: #43719]	Pigment production	yes
[Ref.: #43719]	Pigment name	Carotenoid

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43719]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #43719]

Culture medium growth

		Temperature
[Ref.: #43719]	growth	10-37 °C
[Ref.: #43719]	optimum	20 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #43719]	Temperature range	psychrophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43719]			optimum	6
[Ref.: #43719]			growth	6-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43719]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #43719]

Nutrition type

chemoheterotroph

[Ref.: #43719]

Halophily / tolerance level

non-halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43719]		NaCl		growth	0-1	%(w/v)
[Ref.: #43719]		NaCl		optimum	0	%(w/v)

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43719]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43719]	5-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #43719]	adipate ChEBI	-	assimilation
[Ref.: #43719]	alginate ChEBI	+	hydrolysis
[Ref.: #43719]	alpha-D-glucose ChEBI	+	anaerobic growth
[Ref.: #43719]	amygdalin ChEBI	-	builds acid from
[Ref.: #43719]	arabinose ChEBI	-	assimilation
[Ref.: #43719]	arbutin ChEBI	-	builds acid from
[Ref.: #43719]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #43719]	casein	+	hydrolysis
[Ref.: #43719]	cellobiose ChEBI	-	builds acid from
[Ref.: #43719]	cellobiose ChEBI	+	anaerobic growth
[Ref.: #43719]	chitin ChEBI	-	hydrolysis
[Ref.: #43719]	citrate ChEBI	-	assimilation
[Ref.: #43719]	D-arabinose ChEBI	+	builds acid from
[Ref.: #43719]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43719]	D-fructose ChEBI	+	anaerobic growth
[Ref.: #43719]	D-fructose ChEBI	+	builds acid from
[Ref.: #43719]	D-fucose ChEBI	-	builds acid from
[Ref.: #43719]	D-galactose ChEBI	-	builds acid from
[Ref.: #43719]	D-glucose ChEBI	-	builds acid from
[Ref.: #43719]	D-lyxose ChEBI	-	builds acid from
[Ref.: #43719]	D-mannitol ChEBI	-	anaerobic growth
[Ref.: #43719]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43719]	D-mannose ChEBI	-	builds acid from
[Ref.: #43719]	D-mannose ChEBI	+	anaerobic growth
[Ref.: #43719]	D-ribose ChEBI	+	builds acid from
[Ref.: #43719]	D-sorbitol ChEBI	-	anaerobic growth
[Ref.: #43719]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43719]	D-tagatose ChEBI	+	builds acid from
[Ref.: #43719]	D-xylose ChEBI	+	builds acid from
[Ref.: #43719]	decanoate ChEBI	-	assimilation
[Ref.: #43719]	dextrin ChEBI	+	anaerobic growth
[Ref.: #43719]	dna ChEBI	+	hydrolysis
[Ref.: #43719]	erythritol ChEBI	-	builds acid from
[Ref.: #43719]	esculin ChEBI	-	hydrolysis
[Ref.: #43719]	esculin ChEBI	+	builds acid from
[Ref.: #43719]	galactitol ChEBI	-	builds acid from
[Ref.: #43719]	gelatin ChEBI	+	hydrolysis
[Ref.: #43719]	gentiobiose ChEBI	-	builds acid from
[Ref.: #43719]	gluconate ChEBI	-	assimilation
[Ref.: #43719]	gluconate ChEBI	-	builds acid from
[Ref.: #43719]	glucose ChEBI	-	assimilation
[Ref.: #43719]	glycerol ChEBI	-	builds acid from
[Ref.: #43719]	glycogen ChEBI	+	builds acid from
[Ref.: #43719]	inulin ChEBI	-	builds acid from
[Ref.: #43719]	L-arabinose ChEBI	+	builds acid from
[Ref.: #43719]	L-arabitol ChEBI	-	builds acid from
[Ref.: #43719]	L-fucose ChEBI	-	builds acid from
[Ref.: #43719]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43719]	L-sorbose ChEBI	-	builds acid from
[Ref.: #43719]	L-xylose ChEBI	-	builds acid from
[Ref.: #43719]	lactose ChEBI	-	builds acid from
[Ref.: #43719]	lecithin ChEBI	+	hydrolysis
[Ref.: #43719]	malate ChEBI	-	assimilation
[Ref.: #43719]	maltose ChEBI	-	assimilation
[Ref.: #43719]	maltose ChEBI	+	anaerobic growth
[Ref.: #43719]	maltose hydrate	+	builds acid from
[Ref.: #43719]	mannitol ChEBI	-	assimilation
[Ref.: #43719]	mannose ChEBI	-	assimilation
[Ref.: #43719]	melezitose ChEBI	-	builds acid from
[Ref.: #43719]	melibiose ChEBI	-	builds acid from
[Ref.: #43719]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #43719]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #43719]	methyl D-glucoside ChEBI	-	builds acid from
[Ref.: #43719]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43719]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43719]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #43719]	nitrate ChEBI	-	reduction
[Ref.: #43719]	phenylacetate ChEBI	-	assimilation
[Ref.: #43719]	raffinose ChEBI	-	builds acid from
[Ref.: #43719]	raffinose ChEBI	+	anaerobic growth
[Ref.: #43719]	ribitol ChEBI	-	anaerobic growth
[Ref.: #43719]	ribitol ChEBI	-	builds acid from
[Ref.: #43719]	salicin ChEBI	+	builds acid from
[Ref.: #43719]	starch ChEBI	+	builds acid from
[Ref.: #43719]	starch ChEBI	+	hydrolysis
[Ref.: #43719]	sucrose ChEBI	-	builds acid from
[Ref.: #43719]	sucrose ChEBI	+	anaerobic growth
[Ref.: #43719]	trehalose ChEBI	-	builds acid from
[Ref.: #43719]	turanose ChEBI	-	builds acid from
[Ref.: #43719]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43719]	tween 40 ChEBI	+	hydrolysis
[Ref.: #43719]	tween 60 ChEBI	+	hydrolysis
[Ref.: #43719]	tween 80 ChEBI	+	anaerobic growth
[Ref.: #43719]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43719]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43719]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43719]	acid phosphatase	+	3.1.3.2
[Ref.: #43719]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43719]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43719]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43719]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43719]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43719]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43719]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43719]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43719]	beta-galactosidase	+	3.2.1.23
[Ref.: #43719]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43719]	catalase	+	1.11.1.6
[Ref.: #43719]	cystine arylamidase	+	3.4.11.3
[Ref.: #43719]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43719]	esterase (C 4)	+
[Ref.: #43719]	esterase Lipase (C 8)	+
[Ref.: #43719]	leucine arylamidase	+	3.4.11.1
[Ref.: #43719]	lipase (C 14)	-
[Ref.: #43719]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43719]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43719]	trypsin	-	3.4.21.4
[Ref.: #43719]	urease	+	3.5.1.5
[Ref.: #43719]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43719]

Fatty acid	Percentage
C15:0 anteiso	49.6
C14:0 iso	28.8
iso-C16:1I / C14:0 3-OH	4.9
C16:0 iso	3.5
C14:0 2OH	3.2
C13:0 3-OH / C15:1iH	2.8
C17:1 iso ω5c	1.8
C13:1	1.1
C16:0	0.8
C14:0 2OH	0.7
C17:0 3OH	0.6
C13:0 iso 3OH	0.5
C15:0 iso	0.5
C17:0 2OH	0.4
C14:0 iso 3OH	0.4
C17:1ω7c	0.3

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

[Ref.: #43719]	Sample type/isolated from	A water sample from the Banping Lake Wetland Park
[Ref.: #43719]	Geographic location (country and/or sea, region)	Kaohsiung City
[Ref.: #43719]	Country	Taiwan
[Ref.: #43719]	Country ISO 3 Code	TWN
[Ref.: #43719]	Continent	Asia
[Ref.: #43719]	Geographic location	22.6910°/120.3080°

[Ref.: #67771]	Sample type/isolated from	From wetland
[Ref.: #67771]	Geographic location (country and/or sea, region)	Banping Lake Wetland Park, the vicinity of Kaohsiung County
[Ref.: #67771]	Country	Taiwan
[Ref.: #67771]	Country ISO 3 Code	TWN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Built environment	-
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HF544322 (>99% sequence identity) for Hymenobacter paludis from Microbeatlas

Aquatic Samples	23
Soil Samples	20
Animal Samples	32
Plant Samples	4
Total Samples	79

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.: #43719]	16S rRNA gene sequence	HF544322		GenBank

[Ref.: #43719]	GC-content	60.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	60.3 mol%

Availability in culture collections External links

[Ref.: #43719]

Culture collection no.

LMG 27293, KCTC 32237, KCTC 52533

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hymenobacter edaphi sp. nov., isolated from abandoned arsenic-contaminated farmland soil.	Nie L, Fan X, Xiang D, Liao S, Wang G	Int J Syst Evol Microbiol	10.1099/ijsem.0.003578	2019	*
Phylogeny	Hymenobacter oligotrophus sp. nov., isolated from a contaminated agar plate.	Geng Y, Zhang Y, Tian J, Liu J, Qin K, Huang Y, Wei Z, Peng F	Antonie Van Leeuwenhoek	10.1007/s10482-019-01279-3	2019	*
Phylogeny	Hymenobacter jeollabukensis sp. nov., isolated from soil.	Ten LN, Han YE, Park KI, Kang IK, Han JS, Jung HY	J Microbiol	10.1007/s12275-018-8085-4	2018	*
Phylogeny	Hymenobacter gummosus sp. nov., isolated from a spring.	Chen WM, Chen WT, Young CC, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002372	2017	*
Phylogeny	Hymenobacter paludis sp. nov., isolated from a marsh.	Chen WM, Chen ZH, Young CC, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.000915	2016	*
Phylogeny	Hymenobacter busanensis sp. nov., radiation-resistant species isolated from soil in South Korea.	Lee SE, Ten LN, Park Y, Maeng S, Zhang J, Kim MK, Cha IT, Lee KE, Lee BH, Jung H-, Kim MK	Arch Microbiol	10.1007/s00203-020-02080-x	2020	*

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 )

#43719

Wen-Ming Chen, Zih-Han Chen, Chiu-Chung Young, Shih-Yi Sheu: Hymenobacter paludis sp. nov., isolated from a marsh. IJSEM 66: 1546 - 1553 2016 ( DOI 10.1099/ijsem.0.000915 , PubMed 26801373 )

#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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