Name: Raineya orbicola SPSPC-11
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158700

Type strain:

Species: Raineya orbicola

Strain Designation: SPSPC-11

Culture col. no.: CECT 9012, LMG 29233

NCBI tax ID(s): 2016530 (species)

Section

Raineya orbicola SPSPC-11 is an aerobe, organotroph, rod-shaped bacterium that has a orange pigmentation and was isolated from a hot spring.

pigmented
rod-shaped
aerobe
organotroph
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	*Cytophagia*
	Order	*Cytophagales*
	Family	*Raineyaceae*
	Genus	*Raineya*
	Species	**Raineya orbicola**
	Full Scientific Name (LPSN)	Raineya orbicola Albuquerque et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65439]	Gram stain	negative

[Ref.: #65439]	Cell length	5.0-15.0 µm

[Ref.: #65439]	Cell width	0.5-0.8 µm

[Ref.: #65439]	Cell shape	rod-shaped

[Ref.: #65439]	Colony color	orange
[Ref.: #65439]	Cultivation medium used	Thermus medium

[Ref.: #65439]	Pigment production	yes
[Ref.: #65439]	Pigmentation color	orange
[Ref.: #65439]	Pigment name	carotenoid
[Ref.: #65439]	Pigment production	no
[Ref.: #65439]	Pigment name	Flexirubin-type pigment

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65439]

Culture medium

Thermus medium

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Culture medium growth

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Culture medium

yeast extract or a vitamin and nucleotide solution

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65439]			growth	35-60 °C
[Ref.: #65439]			optimum	50 °C

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Temperature range

thermophilic

	pH	Kind of pH		pH
[Ref.: #65439]			optimum	7.5-8.0
[Ref.: #65439]			growth	6.5-8.5

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Nutrition type

organotroph

[Ref.: #65439]	Type of spore	endospore
[Ref.: #65439]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65439]		NaCl		optimum	0	%
[Ref.: #65439]		NaCl	no	growth	1	%

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Observation

menaquinone 7 is the major respiratory lipoquinone

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65439]	arbutin ChEBI	-	assimilation
[Ref.: #65439]	casamino acids	+	assimilation
[Ref.: #65439]	casein	+	assimilation
[Ref.: #65439]	esculin ChEBI	-	assimilation
[Ref.: #65439]	gelatin ChEBI	+	assimilation
[Ref.: #65439]	hippurate ChEBI	+	assimilation
[Ref.: #65439]	L-alanine 4-nitroanilide	+	assimilation
[Ref.: #65439]	L-aspartate ChEBI	+	assimilation
[Ref.: #65439]	L-glutamate ChEBI	+	assimilation
[Ref.: #65439]	L-glutamine ChEBI	+	assimilation
[Ref.: #65439]	L-proline ChEBI	+	assimilation
[Ref.: #65439]	L-serine ChEBI	+	assimilation
[Ref.: #65439]	nitrate ChEBI	-	reduction
[Ref.: #65439]	peptone	+	assimilation
[Ref.: #65439]	pyruvate ChEBI	+	assimilation
[Ref.: #65439]	sodium acetate ChEBI	+	assimilation
[Ref.: #65439]	starch ChEBI	-	assimilation
[Ref.: #65439]	tryptone	+	assimilation
[Ref.: #65439]	xylan ChEBI	-	assimilation
[Ref.: #65439]	yeast extract (0.01 %, w/v)	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #65439]	acid phosphatase	+	3.1.3.2
[Ref.: #65439]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65439]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #65439]	catalase	+	1.11.1.6
[Ref.: #65439]	cystine arylamidase	+	3.4.11.3
[Ref.: #65439]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65439]	DNase	-
[Ref.: #65439]	esterase (C 4)	+
[Ref.: #65439]	esterase Lipase (C 8)	+
[Ref.: #65439]	leucine arylamidase	+	3.4.11.1
[Ref.: #65439]	lipase (C 14)	+
[Ref.: #65439]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65439]	trypsin	+	3.4.21.4
[Ref.: #65439]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	tryptophan metabolism	81.58	31 of 38
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	pyrimidine metabolism	68.89	31 of 45
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	purine metabolism	61.7	58 of 94
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	lipid metabolism	61.29	19 of 31
[Ref.: #66794]	flavin biosynthesis	60	9 of 15
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	coenzyme M biosynthesis	60	6 of 10
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	alanine metabolism	58.62	17 of 29
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	vitamin B6 metabolism	54.55	6 of 11
[Ref.: #66794]	methionine metabolism	53.85	14 of 26
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	non-pathway related	52.63	20 of 38
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	catecholamine biosynthesis	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	carotenoid biosynthesis	50	11 of 22
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	vitamin B1 metabolism	46.15	6 of 13
[Ref.: #66794]	valine metabolism	44.44	4 of 9
[Ref.: #66794]	heme metabolism	42.86	6 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	oxidative phosphorylation	41.76	38 of 91
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	phenylacetate degradation (aerobic)	40	2 of 5
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	arginine metabolism	33.33	8 of 24
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	degradation of pentoses	28.57	8 of 28
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	vitamin B12 metabolism	26.47	9 of 34
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	urea cycle	23.08	3 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
[Ref.: #66794]	allantoin degradation	22.22	2 of 9
[Ref.: #66794]	polyamine pathway	21.74	5 of 23
		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.: #65439]	Sample type/isolated from	a hot spring
[Ref.: #65439]	Geographic location (country and/or sea, region)	Sao Pedro do Sul
[Ref.: #65439]	Country	Portugal
[Ref.: #65439]	Country ISO 3 Code	PRT
[Ref.: #65439]	Continent	Europe
[Ref.: #65439]	Geographic location	40.7666°/-8.0666°
[Ref.: #65439]	Enrichment culture	Thermus medium
[Ref.: #65439]	Enrichment culture duration	5 days
[Ref.: #65439]	Enrichment culture temperature	45 ̊C
[Ref.: #65439]	Isolation/enrichment procedure	sample was maintained without tempera- ture control for 1 day, and then 0.001 to 0.1 ml in 10 ml water were filtered through membrane filters
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Thermal spring

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence database
[Ref.: #65439]	16S rRNA gene sequence	KY990922	GenBank
[Ref.: #65439]	16S rRNA gene sequence	MF125287	GenBank
[Ref.: #65439]	16S rRNA gene sequence	MF125288	GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Raineya orbicola SPSPC-11	GCA_002843425	contig	GenBank	2016530 tax ID	*
[Ref.: #66792]	Raineya orbicola SPSPC-11	2786546755	draft	JGI IMG/M	2016530 tax ID	*

[Ref.: #65439]	GC-content	39.2 mol%	high performance liquid chromatography (HPLC)
[Ref.: #65439]	GC-content	37.6 mol%	sequence analysis

Availability in culture collections External links

[Ref.: #65439]

Culture collection no.

CECT 9012, LMG 29233

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Raineya orbicola gen. nov., sp. nov. a slightly thermophilic bacterium of the phylum Bacteroidetes and the description of Raineyaceae fam. nov.	Albuquerque L, Polonia ARM, Barroso C, Froufe HJC, Lage O, Lobo-da-Cunha A, Egas C, da Costa MS	Int J Syst Evol Microbiol	10.1099/ijsem.0.002556	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 )

#65439

Luciana Albuquerque, Ana Rita M. Polónia, Cristina Barroso, Hugo J. C. Froufe, Olga Lage, Alexandre Lobo-da-Cunha, Conceição Egas, Milton S. da Costa: Raineya orbicola gen. nov., sp. nov. a slightly thermophilic bacterium of the phylum Bacteroidetes and the description of Raineyaceae fam. nov.. IJSEM 68: 982 - 989 2018 ( DOI 10.1099/ijsem.0.002556 , PubMed 29458463 )

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

* These data were automatically processed and therefore are not curated

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