Name: Hydrogenophaga borbori LA-38
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 167823

Type strain:

Species: Hydrogenophaga borbori

Strain Designation: LA-38

Culture col. no.: LMG 30805, KACC 19730

NCBI tax ID(s): 2294117 (species)

Section

Hydrogenophaga borbori LA-38 is an obligate aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from sludge sample from wastewater treatment plants.

colony-forming
Gram-negative
motile
rod-shaped
obligate aerobe
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	*Comamonadaceae*
	Genus	*Hydrogenophaga*
	Species	**Hydrogenophaga borbori**
	Full Scientific Name (LPSN)	Hydrogenophaga borbori Choi et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #69520]	Gram stain	negative

[Ref.: #69520]	Cell length	1.2-2.2 µm

[Ref.: #69520]	Cell width	0.5-1.0 µm

[Ref.: #69520]	Cell shape	rod-shaped

[Ref.: #69520]	Motility	yes

[Ref.: #69520]	Colony color	yellow
[Ref.: #69520]	Colony shape	circular
[Ref.: #69520]	Cultivation medium used	R2A MEDIUM (DSMZ Medium 830)

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

R2A MEDIUM (DSMZ Medium 830)

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Culture medium growth

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Culture medium

Trypticase Soy Agar (TSA)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #69520]			growth	15.0-40.0 °C
[Ref.: #69520]			optimum	25.0-30.0 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #69520]			optimum	7
[Ref.: #69520]			growth	6.5-8.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

obligate aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #69520]		NaCl		growth	0.0-1.0	%(w/v)
[Ref.: #69520]		NaCl		optimum	0	%(w/v)

[Ref.: #69520]	Observation	Major polyamine are 2-hydroxyputrescine and putrescine.
[Ref.: #69520]	Observation	The polar lipids are phosphatidylethanolamine (PE), phosphatidylglycerol (PG), diphosphatidylglycerol (DPG), an unidentified aminolipid and an unidentified phospholipid.

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69520]	casein	-	hydrolysis
[Ref.: #69520]	cellulose ChEBI	-	hydrolysis
[Ref.: #69520]	dna ChEBI	-	hydrolysis
[Ref.: #69520]	glucose ChEBI	-	builds acid from
[Ref.: #69520]	starch ChEBI	-	hydrolysis
[Ref.: #69520]	tween 60 ChEBI	-	hydrolysis

	Metabolite production	Metabolite	Production
[Ref.: #69520]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #69520]	acid phosphatase	+	3.1.3.2
[Ref.: #69520]	alkaline phosphatase	+	3.1.3.1
[Ref.: #69520]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #69520]	alpha-fucosidase	-	3.2.1.51
[Ref.: #69520]	alpha-galactosidase	-	3.2.1.22
[Ref.: #69520]	alpha-glucosidase	-	3.2.1.20
[Ref.: #69520]	alpha-mannosidase	-	3.2.1.24
[Ref.: #69520]	arginine dihydrolase	+	3.5.3.6
[Ref.: #69520]	beta-galactosidase	-	3.2.1.23
[Ref.: #69520]	beta-glucosidase	-	3.2.1.21
[Ref.: #69520]	catalase	+	1.11.1.6
[Ref.: #69520]	cystine arylamidase	+	3.4.11.3
[Ref.: #69520]	cytochrome oxidase	+	1.9.3.1
[Ref.: #69520]	esterase (C 4)	+
[Ref.: #69520]	esterase Lipase (C 8)	+
[Ref.: #69520]	leucine arylamidase	+	3.4.11.1
[Ref.: #69520]	lipase (C 14)	+
[Ref.: #69520]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #69520]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #69520]	trypsin	+	3.4.21.4
[Ref.: #69520]	urease	+	3.5.1.5
[Ref.: #69520]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #69520]	Sample type/isolated from	sludge sample from wastewater treatment plants
[Ref.: #69520]	Geographic location (country and/or sea, region)	Hanam, Republic of Korea
[Ref.: #69520]	Country	Republic of Korea
[Ref.: #69520]	Country ISO 3 Code	KOR
[Ref.: #69520]	Continent	Asia
[Ref.: #69520]	Geographic location	36.7499°/126.4780°
[Ref.: #69520]	Enrichment culture	R2A
[Ref.: #69520]	Enrichment culture composition	supplemented with sterile saline(0.85% NaCl)
[Ref.: #69520]	Enrichment culture duration	3 days
[Ref.: #69520]	Enrichment culture temperature	30 ̊C
[Ref.: #69520]	Isolation/enrichment procedure	standard dilution-plating technique
* marker position based on {}

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Global distribution of 16S sequence MH094650 (>99% sequence identity) for Hydrogenophaga from Microbeatlas

Aquatic Samples	3956
Soil Samples	3472
Animal Samples	1012
Plant Samples	1130
Total Samples	9570

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.: #20215]	Hydrogenophaga borbori strain LA-38 16S ribosomal RNA gene, partial sequence	MH094650	1464	ENA	2294117 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #69520]	genome sequence	NZ_QVLS00000000		GenBank	2294117 tax ID
[Ref.: #66792]	Hydrogenophaga borbori LA-38	GCA_003417535	contig	GenBank	2294117 tax ID	*

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GC-content

69.9 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Hydrogenophaga borbori LA-38 NCBI: GCA_003417535.1
[Ref.: #69480]	motile	yes	86.282	no
[Ref.: #69480]	flagellated	yes	73.422	no
[Ref.: #69480]	gram-positive	no	98.579	no
[Ref.: #69480]	anaerobic	no	98.891	no
[Ref.: #69480]	aerobic	yes	95.361	no
[Ref.: #69480]	halophile	no	90.579	no
[Ref.: #69480]	spore-forming	no	96.322	no
[Ref.: #69480]	glucose-util	no	61.427	no
[Ref.: #69480]	glucose-ferment	no	89.496	no
[Ref.: #69480]	thermophile	no	96.793	no

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

LMG 30805, KACC 19730

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hydrogenophaga borbori sp. nov., isolated from activated sludge.	Choi GM, Lee SY, Kim SY, Wee JH, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.003787	2020	*
Phylogeny	Hydrogenophaga crocea sp. nov. associated with cyanobacterial mat isolated from farmland mud.	Thorat V, Tiwarekar B, Kirdat K, Chavan S, Markad S, Sathe S, Lodha T, Yadav A	Arch Microbiol	10.1007/s00203-022-02865-2	2022	*

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) .

#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) .

#69520

Gyu-min Choi, Soon Youl Lee, Sang Yong Kim, Ji-Hyang Wee, Wan-Taek Im: Hydrogenophaga borbori sp. nov., isolated from activated sludge. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003787 )

* These data were automatically processed and therefore are not curated

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