Name: Sphaerochaeta globosa Buddy
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14351

Type strain:

Species: Sphaerochaeta globosa

Strain Designation: Buddy

Culture col. no.: DSM 22777, ATCC BAA-1886

Strain history: <- K. M. Ritalahti, Environmental Engineering, Georgia Inst. Technology, Atlanta, USA; Buddy <- F. E. Löffler {2000}

NCBI tax ID(s): 1131703 (species)

SI-ID 405818

DSM 22777

Special Collections

Section

Sphaerochaeta globosa Buddy is an anaerobe, Gram-negative, coccus-shaped bacterium that was isolated from black, anoxic river sediments downstream of an agricultural and residential area.

coccus-shaped
Gram-negative
anaerobe
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	*Spirochaetota*
	Class	*Spirochaetia*
	Order	*Spirochaetales*
	Family	*Sphaerochaetaceae*
	Genus	*Sphaerochaeta*
	Species	**Sphaerochaeta globosa**
	Full Scientific Name (LPSN)	Sphaerochaeta globosa Ritalahti et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #29882]	Gram stain	negative

[Ref.: #29882]	Cell width	0.4-2.5 µm

[Ref.: #29882]	Cell shape	coccus-shaped

[Ref.: #29882]	Motility	no

[Ref.: #16510]

Incubation period

8-14 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16510]

Culture medium

1/2 TRYPTIC SOY BROTH (ANAEROBE) (DSMZ Medium 1205)

[Ref.: #16510]

Culture medium growth

[Ref.: #16510]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16510]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #16510]	growth	25 °C
[Ref.: #29882]	growth	15-37 °C
[Ref.: #29882]	optimum	25-30 °C

	pH	Kind of pH		pH
[Ref.: #29882]			optimum	6.5-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16510]	Oxygen tolerance	anaerobe
[Ref.: #29882]	Oxygen tolerance	anaerobe

[Ref.: #29882]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29882]	fructose ChEBI	+	carbon source
[Ref.: #29882]	galactose ChEBI	+	carbon source
[Ref.: #29882]	glucose ChEBI	+	carbon source
[Ref.: #29882]	lactose ChEBI	+	carbon source
[Ref.: #29882]	maltose ChEBI	+	carbon source
[Ref.: #29882]	raffinose ChEBI	+	carbon source
[Ref.: #29882]	sucrose ChEBI	+	carbon source
[Ref.: #29882]	xylose ChEBI	+	carbon source

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

[Ref.: #16510]	Sample type/isolated from	black, anoxic river sediments downstream of an agricultural and residential area
[Ref.: #16510]	Geographic location (country and/or sea, region)	Michigan, Okemos, Red Cedar River
[Ref.: #16510]	Country	USA
[Ref.: #16510]	Country ISO 3 Code	USA
[Ref.: #16510]	Continent	North America
[Ref.: #16510]	Geographic location	42.6971°/-84.3788°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#River (Creek)
#Environmental	#Terrestrial	#Sediment
#Condition	#Anoxic (anaerobic)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF357916 (>99% sequence identity) for Sphaerochaeta globosa from Microbeatlas

Aquatic Samples	424
Soil Samples	90
Animal Samples	492
Plant Samples	85
Total Samples	1091

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #16510]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #16510]	Sphaerochaeta globus str. Buddy 16S ribosomal RNA gene, partial sequence	AF357916	1534	GenBank ENA	158189 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sphaerochaeta globosa str. Buddy	GCA_000190435	complete	GenBank ENA	158189 tax ID	*
[Ref.: #66792]	Sphaerochaeta globosa str. Buddy	158189.3	complete	PATRIC	158189 tax ID	*
[Ref.: #66792]	Sphaerochaeta globosa Buddy	650377973	complete	JGI IMG/M	158189 tax ID	*

[Ref.: #16510]	GC-content	46.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29882]	GC-content	45.5-46.4 mol%

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: Sphaerochaeta globosa str. Buddy Buddy NCBI: GCA_000190435.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	85.098	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	89.668	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	95.965	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	82.08	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	89.608	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	83.455	yes

Availability in culture collections External links

[Ref.: #16510]

Culture collection no.

DSM 22777, ATCC BAA-1886

[Ref.: #83494]

SI-ID 405818

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphaerochaeta associata sp. nov., a spherical spirochaete isolated from cultures of Methanosarcina mazei JL01.	Troshina O, Oshurkova V, Suzina N, Machulin A, Ariskina E, Vinokurova N, Kopitsyn D, Novikov A, Shcherbakova V	Int J Syst Evol Microbiol	10.1099/ijsem.0.000575	2015	*
Phylogeny	Sphaerochaeta multiformis sp. nov., an anaerobic, psychrophilic bacterium isolated from subseafloor sediment, and emended description of the genus Sphaerochaeta.	Miyazaki M, Sakai S, Ritalahti KM, Saito Y, Yamanaka Y, Saito Y, Tame A, Uematsu K, Loffler FE, Takai K, Imachi H	Int J Syst Evol Microbiol	10.1099/ijs.0.068148-0	2014	*
Phylogeny	Sphaerochaeta globosa gen. nov., sp. nov. and Sphaerochaeta pleomorpha sp. nov., free-living, spherical spirochaetes.	Ritalahti KM, Justicia-Leon SD, Cusick KD, Ramos-Hernandez N, Rubin M, Dornbush J, Loffler FE	Int J Syst Evol Microbiol	10.1099/ijs.0.023986-0	2011	*

References

#16510

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22777

#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 )

#29882

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26255 (see below)

#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) .

#83494

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID405818.1 )

#26255

IJSEM 210 2012 ( DOI 10.1099/ijs.0.023986-0 , PubMed 21398503 )

* These data were automatically processed and therefore are not curated

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Sphaerochaeta globosa str. Buddy Buddy

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