Name: Pyxidicoccus fallax An d47
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 10169

Type strain:

Species: Pyxidicoccus fallax

Strain Designation: An d47, Py f1

Culture col. no.: DSM 14698, CIP 109125, JCM 12639

Strain history: CIP <- 2006, DSMZ <- H. Reichenbach, GBF, Braunschweig, Germany: strain Py f1

NCBI tax ID(s): 394095 (species)

SI-ID 215417

DSM 14698, CIP 109125, JCM 12639

Special Collections

Other strains from Pyxidicoccus fallax

Section

When using BacDive for research please cite our paper

Pyxidicoccus fallax An d47 is a mesophilic, Gram-positive, rod-shaped bacterium that was isolated from soil with decaying plant material.

Gram-positive
rod-shaped
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Myxococcales*
	Family	*Myxococcaceae*
	Genus	*Pyxidicoccus*
	Species	**Pyxidicoccus fallax**
	Full Scientific Name (LPSN)	Pyxidicoccus fallax corrig. Reichenbach 2007

Synonym

Pyxicoccus fallax

Information on morphological and physiological properties Morphology

[Ref.: #119274]	Gram stain	positive
[Ref.: #125439]	Gram stain	positive Confidence in %95.5

[Ref.: #119274]	Cell shape	rod-shaped

[Ref.: #119274]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5491]

Culture medium

VY/2 AGAR (DSMZ Medium 9)

[Ref.: #5491]

Culture medium growth

[Ref.: #5491]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5491]

Culture medium composition

expand / minimize

[Ref.: #5491]

Culture medium

AGAR WITH E. COLI AS FEED (DSMZ Medium 942)

[Ref.: #5491]

Culture medium growth

[Ref.: #5491]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5491]

Culture medium composition

expand / minimize

[Ref.: #34351]

Culture medium

MEDIUM 657 - for Byssovorax cruenta

[Ref.: #34351]

Culture medium growth

[Ref.: #34351]

Culture medium composition

expand / minimize

[Ref.: #119274]

Culture medium

CIP Medium 657

[Ref.: #119274]

Culture medium growth

[Ref.: #119274]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #5491]	growth	28 °C
[Ref.: #5491]	growth	30 °C
[Ref.: #34351]	growth	30 °C
[Ref.: #67770]	growth	30 °C

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

[Ref.: #5491]	Sample type/isolated from	soil with decaying plant material
[Ref.: #5491]	Geographic location (country and/or sea, region)	Crete
[Ref.: #5491]	Country	Greece
[Ref.: #5491]	Country ISO 3 Code	GRC
[Ref.: #5491]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Soil with decaying plant material
[Ref.: #67770]	Geographic location (country and/or sea, region)	island of Crete
[Ref.: #67770]	Country	Greece
[Ref.: #67770]	Country ISO 3 Code	GRC
[Ref.: #67770]	Continent	Europe

[Ref.: #119274]	Sample type/isolated from	Environment, Soil with decaying plant material
[Ref.: #119274]	Geographic location (country and/or sea, region)	Crete
[Ref.: #119274]	Country	Greece
[Ref.: #119274]	Country ISO 3 Code	GRC
[Ref.: #119274]	Continent	Europe
[Ref.: #119274]	Isolation date	1992
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Decomposing plant

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ768123 (>99% sequence identity) for Myxococcaceae from Microbeatlas

Aquatic Samples	140
Soil Samples	1093
Animal Samples	115
Plant Samples	97
Total Samples	1445

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

[Ref.: #5491]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119274]	Biosafety level	1	Risk group (French classification)

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.: #5491]	Pyxidicoccus fallax strain DSM 14698 16S ribosomal RNA gene, partial sequence	DQ768123	1493	GenBank ENA	394095 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pyxidicoccus fallax DSM 14698	GCA_012933655	contig	GenBank ENA	394095 tax ID
[Ref.: #66792]	Pyxidicoccus fallax strain DSM 14698	394095.3	wgs	PATRIC	394095 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pyxidicoccus fallax strain DSM 14698 PATRIC: 394095.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	88.5	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	89.501	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	70.729	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	76.152	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	95.431	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	65.559	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pyxidicoccus fallax DSM 14698 NCBI: GCA_012933655
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	52.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	74.4
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	95.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	89.5

Availability in culture collections External links

[Ref.: #5491]

Culture collection no.

DSM 14698, CIP 109125, JCM 12639

[Ref.: #79547]

SI-ID 215417

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative Genomics and Pan-Genomics of the Myxococcaceae, including a Description of Five Novel Species: Myxococcus eversor sp. nov., Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis sp. nov., Myxococcus vastator sp. nov., Pyxidicoccus caerfyrddinensis sp. nov., and Pyxidicoccus trucidator sp. nov.	Chambers J, Sparks N, Sydney N, Livingstone PG, Cookson AR, Whitworth DE	Genome Biol Evol	10.1093/gbe/evaa212	2020	*

References

#5491

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14698

#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 )

#34351 ; Curators of the CIP;

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#79547

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-ID215417.1 )

#119274 Collection of Institut Pasteur ; Curators of the CIP; CIP 109125

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Pyxidicoccus fallax strain DSM 14698

Pyxidicoccus fallax DSM 14698

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