Name: Phytohalomonas tamaricis R4HLG17
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 166099

Type strain:

Species: Phytohalomonas tamaricis

Strain Designation: R4HLG17

Culture col. no.: ACCC 19929, KCTC 52415

NCBI tax ID(s): 2081032 (species)

Special Collections

Section

Phytohalomonas tamaricis R4HLG17 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from roots of Tamarix ramosissima.

colony-forming
Gram-negative
rod-shaped
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	*Gammaproteobacteria*
	Order	*Oceanospirillales*
	Family	*Halomonadaceae*
	Genus	"Phytohalomonas"
	Species	"Phytohalomonas tamaricis"
	Full Scientific Name (LPSN)	Phytohalomonas tamaricis Liu et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #68256]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.986

[Ref.: #68256]	Cell length	0.9-1.5 µm

[Ref.: #68256]	Cell width	0.3-0.4 µm

[Ref.: #68256]	Cell shape	rod-shaped

[Ref.: #68256]	Motility	no

[Ref.: #68256]	Colony color	yellow
[Ref.: #68256]	Colony shape	circular
[Ref.: #68256]	Cultivation medium used	ISP5 agar

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #68256]			growth	16-45 °C
[Ref.: #68256]			optimum	30 °C

	pH	Kind of pH		pH
[Ref.: #68256]			optimum	7
[Ref.: #68256]			growth	5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68256]

Oxygen tolerance

aerobe

[Ref.: #68256]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68256]		NaCl		growth	0-16	%(w/v)
[Ref.: #68256]		NaCl		optimum	5-6	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68256]	2,3-butanediol	-	respiration
[Ref.: #68256]	2-hydroxybutyrate ChEBI	-	respiration
[Ref.: #68256]	2-oxobutanoate ChEBI	+	respiration
[Ref.: #68256]	2-oxoglutarate ChEBI	-	respiration
[Ref.: #68256]	2-oxopentanoate ChEBI	-	respiration
[Ref.: #68256]	3-hydroxybutyrate ChEBI	-	respiration
[Ref.: #68256]	4-hydroxy-L-proline ChEBI	+/-	respiration
[Ref.: #68256]	4-hydroxybutyrate ChEBI	+/-	respiration
[Ref.: #68256]	4-hydroxyphenylacetic acid ChEBI	-	respiration
[Ref.: #68256]	acetic acid ChEBI	-	respiration
[Ref.: #68256]	adipate ChEBI	-	assimilation
[Ref.: #68256]	alpha-cyclodextrin ChEBI	-	respiration
[Ref.: #68256]	alpha-D-glucose ChEBI	+	respiration
[Ref.: #68256]	alpha-lactose ChEBI	+/-	respiration
[Ref.: #68256]	bromosuccinate ChEBI	-	respiration
[Ref.: #68256]	casein	-	hydrolysis
[Ref.: #68256]	cellobiose ChEBI	+/-	respiration
[Ref.: #68256]	cis-aconitate ChEBI	+	respiration
[Ref.: #68256]	citrate ChEBI	-	assimilation
[Ref.: #68256]	citrate ChEBI	+	respiration
[Ref.: #68256]	D-alanine ChEBI	+/-	respiration
[Ref.: #68256]	D-arabitol ChEBI	+	respiration
[Ref.: #68256]	D-fructose ChEBI	+	respiration
[Ref.: #68256]	D-galactonic acid lactone ChEBI	+	respiration
[Ref.: #68256]	D-galactose ChEBI	+	respiration
[Ref.: #68256]	D-galacturonic acid ChEBI	-	respiration
[Ref.: #68256]	D-glucarate ChEBI	-	respiration
[Ref.: #68256]	D-gluconate ChEBI	+/-	respiration
[Ref.: #68256]	D-glucosaminic acid ChEBI	-	respiration
[Ref.: #68256]	D-glucose ChEBI	+	assimilation
[Ref.: #68256]	D-glucose 6-phosphate ChEBI	+/-	respiration
[Ref.: #68256]	D-glucuronate ChEBI	-	respiration
[Ref.: #68256]	D-mannitol ChEBI	-	assimilation
[Ref.: #68256]	D-mannitol ChEBI	+	respiration
[Ref.: #68256]	D-mannose ChEBI	+	assimilation
[Ref.: #68256]	D-mannose ChEBI	+	respiration
[Ref.: #68256]	D-psicose ChEBI	-	respiration
[Ref.: #68256]	D-serine ChEBI	-	respiration
[Ref.: #68256]	D-sorbitol ChEBI	+	respiration
[Ref.: #68256]	dextrin ChEBI	+	respiration
[Ref.: #68256]	DL-carnitine ChEBI	-	respiration
[Ref.: #68256]	erythritol ChEBI	-	respiration
[Ref.: #68256]	esculin ChEBI	+	hydrolysis
[Ref.: #68256]	ethanolamine ChEBI	-	respiration
[Ref.: #68256]	formate ChEBI	-	respiration
[Ref.: #68256]	gamma-aminobutyric acid ChEBI	-	respiration
[Ref.: #68256]	gelatin ChEBI	+	hydrolysis
[Ref.: #68256]	gentiobiose ChEBI	+	respiration
[Ref.: #68256]	glucose 1-phosphate ChEBI	+/-	respiration
[Ref.: #68256]	glucuronamide ChEBI	-	respiration
[Ref.: #68256]	glycerol ChEBI	+/-	respiration
[Ref.: #68256]	glycerol 1-phosphate ChEBI	+	respiration
[Ref.: #68256]	glycogen ChEBI	+	respiration
[Ref.: #68256]	glycyl L-aspartic acid ChEBI	-	respiration
[Ref.: #68256]	glycyl-l-glutamate ChEBI	+/-	respiration
[Ref.: #68256]	inosine ChEBI	+	respiration
[Ref.: #68256]	itaconate ChEBI	-	respiration
[Ref.: #68256]	L-alaninamide ChEBI	-	respiration
[Ref.: #68256]	L-alanine ChEBI	+	respiration
[Ref.: #68256]	L-alanylglycine ChEBI	-	respiration
[Ref.: #68256]	L-arabinose ChEBI	+/-	assimilation
[Ref.: #68256]	L-arabinose ChEBI	+	respiration
[Ref.: #68256]	L-asparagine ChEBI	+/-	respiration
[Ref.: #68256]	L-aspartate ChEBI	+	respiration
[Ref.: #68256]	L-fucose ChEBI	-	respiration
[Ref.: #68256]	L-glutamate ChEBI	+	respiration
[Ref.: #68256]	L-histidine ChEBI	-	respiration
[Ref.: #68256]	L-leucine ChEBI	+	respiration
[Ref.: #68256]	L-ornithine ChEBI	-	respiration
[Ref.: #68256]	L-phenylalanine ChEBI	+	respiration
[Ref.: #68256]	L-proline ChEBI	+	respiration
[Ref.: #68256]	L-pyroglutamate ChEBI	+	respiration
[Ref.: #68256]	L-rhamnose ChEBI	+	respiration
[Ref.: #68256]	L-serine ChEBI	+/-	respiration
[Ref.: #68256]	L-threonine ChEBI	-	respiration
[Ref.: #68256]	lactate ChEBI	-	respiration
[Ref.: #68256]	lactulose ChEBI	+	respiration
[Ref.: #68256]	malate ChEBI	-	assimilation
[Ref.: #68256]	malonate ChEBI	+	respiration
[Ref.: #68256]	maltose ChEBI	-	assimilation
[Ref.: #68256]	maltose ChEBI	+	respiration
[Ref.: #68256]	melibiose ChEBI	-	respiration
[Ref.: #68256]	methyl beta-D-glucopyranoside ChEBI	-	respiration
[Ref.: #68256]	methyl pyruvate ChEBI	-	respiration
[Ref.: #68256]	monomethyl succinate ChEBI	-	respiration
[Ref.: #68256]	myo-inositol ChEBI	-	respiration
[Ref.: #68256]	N-acetylgalactosamine ChEBI	-	respiration
[Ref.: #68256]	N-acetylglucosamine ChEBI	+/-	respiration
[Ref.: #68256]	nitrate ChEBI	-	reduction
[Ref.: #68256]	phenylacetate ChEBI	-	assimilation
[Ref.: #68256]	phenylethylamine ChEBI	-	respiration
[Ref.: #68256]	potassium gluconate ChEBI	+	assimilation
[Ref.: #68256]	propionate ChEBI	+	respiration
[Ref.: #68256]	putrescine ChEBI	-	respiration
[Ref.: #68256]	quinate ChEBI	+/-	respiration
[Ref.: #68256]	raffinose ChEBI	+	respiration
[Ref.: #68256]	ribitol ChEBI	-	respiration
[Ref.: #68256]	sebacic acid ChEBI	-	respiration
[Ref.: #68256]	starch ChEBI	-	hydrolysis
[Ref.: #68256]	succinamate ChEBI	-	respiration
[Ref.: #68256]	succinate ChEBI	+/-	respiration
[Ref.: #68256]	sucrose ChEBI	+	respiration
[Ref.: #68256]	thymidine ChEBI	+	respiration
[Ref.: #68256]	trehalose ChEBI	-	respiration
[Ref.: #68256]	turanose ChEBI	-	respiration
[Ref.: #68256]	tween 40 ChEBI	+	respiration
[Ref.: #68256]	tween 80 ChEBI	+	respiration
[Ref.: #68256]	uridine ChEBI	-	respiration
[Ref.: #68256]	urocanic acid ChEBI	-	respiration
[Ref.: #68256]	xylitol ChEBI	+	respiration
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68256]		acetoin ChEBI	no
[Ref.: #68256]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #68256]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68256]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68256]	beta-galactosidase	+	3.2.1.23
[Ref.: #68256]	catalase	+	1.11.1.6
[Ref.: #68256]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68256]	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68256]

Fatty acid	Percentage
C18:1 w7c/C18:1 w6c	34
C16:1 w7c/C16:1 w6c	24.6
C16:0	16.9
C12:0 3OH	8.3
C19:0 cyclo w8c	6.4
C10:0	2.8
C12:0	2.6
C17:0 cyclo	0.9
C12:0 2OH	0.9
C14:0	0.7

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

[Ref.: #68256]	Sample type/isolated from	roots of Tamarix ramosissima
[Ref.: #68256]	Geographic location (country and/or sea, region)	Kumtag Desert, Xinjiang province
[Ref.: #68256]	Country	China
[Ref.: #68256]	Country ISO 3 Code	CHN
[Ref.: #68256]	Continent	Asia
[Ref.: #68256]	Enrichment culture	nutrient agar and R2A agar
[Ref.: #68256]	Enrichment culture duration	5-7 days
[Ref.: #68256]	Enrichment culture temperature	30 ̊C
* marker position based on {}

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.: #68256]	Phytohalomonas tamaricis 16S ribosomal RNA gene, partial sequence	KU973623	1416	GenBank ENA	1912956 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68256]	Phytohalomonas tamaricis R4HLG17	GCA_003012345	contig	GenBank ENA	2081032 tax ID

[Ref.: #68256]

GC-content

55.1 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Phytohalomonas tamaricis R4HLG17 NCBI: GCA_003012345.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99.986	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.535	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.267	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	86.85	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.98	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	66.781	yes

Availability in culture collections External links

[Ref.: #68256]

Culture collection no.

ACCC 19929, KCTC 52415

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phytohalomonas tamaricis gen. nov., sp. nov., an endophytic bacterium isolated from Tamarix ramosissima roots growing in Kumtag desert.	Liu L, Wang SY, He CF, Zhang XX, Chi M, Liang LX, Li LB	Arch Microbiol	10.1007/s00203-019-01724-x	2019	*

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 )

#68256

Lei Liu, Shi-yan Wang, Cong-fen He, Xiao-xia Zhang, Miao Chi, Li-xiong Liang and Lu-bin Li: Phytohalomonas tamaricis gen. nov., sp. nov., an endophytic bacterium isolated from Tamarix ramosissima roots growing in Kumtag desert. Arch Microbiol 202: 143 - 151 2020 ( DOI 10.1007/s00203-019-01724-x )

#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) .

* These data were automatically processed and therefore are not curated

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