Name: Paenibacillus xylanivorans A59
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159377

Type strain:

Species: Paenibacillus xylanivorans

Strain Designation: A59

Culture col. no.: DSM 107920, NCIMB 15123

Strain history: <- S. Ghio, INTA; A59 <-

NCBI tax ID(s): 1705561 (species)

SI-ID 402269

DSM 107920

Section

Paenibacillus xylanivorans A59 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from Soil.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
facultative anaerobe
mesophilic
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Paenibacillaceae*
	Genus	*Paenibacillus*
	Species	**Paenibacillus xylanivorans**
	Full Scientific Name (LPSN)	Paenibacillus xylanivorans Ghio et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #68238]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #68238]	Cell length	1.93-2.28 µm

[Ref.: #68238]	Cell width	0.65-0.77 µm

[Ref.: #68238]	Cell shape	rod-shaped

[Ref.: #68238]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.165

[Ref.: #68238]	Colony color	white
[Ref.: #68238]	Colony shape	circular
[Ref.: #68238]	Cultivation medium used	LB (Luria-Bertani) agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66200]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #66200]

Culture medium growth

[Ref.: #66200]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66200]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #66200]	growth	30 °C
[Ref.: #68238]	optimum	30 °C
[Ref.: #68238]	growth	4-45 °C

[Ref.: #66200]	Temperature range	mesophilic
[Ref.: #68238]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #68238]			optimum	7
[Ref.: #68238]			growth	5-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #68238]

Oxygen tolerance

facultative anaerobe

[Ref.: #68238]	Type of spore	endospore
[Ref.: #68238]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #68238]		NaCl		maximum	7	%(w/v)
[Ref.: #68238]		NaCl		optimum	2	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68238]	amygdalin ChEBI	+	builds acid from
[Ref.: #68238]	arbutin ChEBI	+	builds acid from
[Ref.: #68238]	carboxymethylcellulose ChEBI	+	hydrolysis
[Ref.: #68238]	casein	+	hydrolysis
[Ref.: #68238]	cellobiose ChEBI	+	builds acid from
[Ref.: #68238]	chitin ChEBI	+	hydrolysis
[Ref.: #68238]	D-arabinose ChEBI	-	builds acid from
[Ref.: #68238]	D-arabitol ChEBI	-	builds acid from
[Ref.: #68238]	D-fructose ChEBI	+	builds acid from
[Ref.: #68238]	D-fucose ChEBI	-	builds acid from
[Ref.: #68238]	D-galactose ChEBI	+	builds acid from
[Ref.: #68238]	D-glucose ChEBI	+	builds acid from
[Ref.: #68238]	D-lyxose ChEBI	-	builds acid from
[Ref.: #68238]	D-mannitol ChEBI	+	builds acid from
[Ref.: #68238]	D-mannose ChEBI	+	builds acid from
[Ref.: #68238]	D-ribose ChEBI	+	builds acid from
[Ref.: #68238]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #68238]	D-tagatose ChEBI	-	builds acid from
[Ref.: #68238]	D-xylose ChEBI	+	builds acid from
[Ref.: #68238]	erythritol ChEBI	-	builds acid from
[Ref.: #68238]	esculin ChEBI	+	hydrolysis
[Ref.: #68238]	esculin ferric citrate	+	builds acid from
[Ref.: #68238]	galactitol ChEBI	-	builds acid from
[Ref.: #68238]	gelatin ChEBI	+	hydrolysis
[Ref.: #68238]	gentiobiose ChEBI	+	builds acid from
[Ref.: #68238]	glycerol ChEBI	+	builds acid from
[Ref.: #68238]	glycogen ChEBI	+	builds acid from
[Ref.: #68238]	inulin ChEBI	-	builds acid from
[Ref.: #68238]	L-arabinose ChEBI	+	builds acid from
[Ref.: #68238]	L-arabitol ChEBI	-	builds acid from
[Ref.: #68238]	L-fucose ChEBI	-	builds acid from
[Ref.: #68238]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #68238]	L-sorbose ChEBI	-	builds acid from
[Ref.: #68238]	L-xylose ChEBI	-	builds acid from
[Ref.: #68238]	lactose ChEBI	+	builds acid from
[Ref.: #68238]	maltose ChEBI	+	builds acid from
[Ref.: #68238]	melezitose ChEBI	-	builds acid from
[Ref.: #68238]	melibiose ChEBI	+	builds acid from
[Ref.: #68238]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #68238]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #68238]	methyl beta-D-xylopyranoside ChEBI	+	builds acid from
[Ref.: #68238]	myo-inositol ChEBI	-	builds acid from
[Ref.: #68238]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #68238]	nitrate ChEBI	+	reduction
[Ref.: #68238]	pectin ChEBI	+	hydrolysis
[Ref.: #68238]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #68238]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #68238]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #68238]	raffinose ChEBI	+	builds acid from
[Ref.: #68238]	ribitol ChEBI	-	builds acid from
[Ref.: #68238]	salicin ChEBI	+	builds acid from
[Ref.: #68238]	starch ChEBI	+	hydrolysis
[Ref.: #68238]	starch ChEBI	+	builds acid from
[Ref.: #68238]	sucrose ChEBI	+	builds acid from
[Ref.: #68238]	trehalose ChEBI	+	builds acid from
[Ref.: #68238]	turanose ChEBI	+	builds acid from
[Ref.: #68238]	xylan ChEBI	+	hydrolysis
[Ref.: #68238]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68238]		hydrogen sulfide ChEBI	no
[Ref.: #68238]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68238]	acid phosphatase	+	3.1.3.2
[Ref.: #68238]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68238]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #68238]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68238]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68238]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68238]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68238]	beta-galactosidase	+	3.2.1.23
[Ref.: #68238]	beta-glucosidase	+	3.2.1.21
[Ref.: #68238]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68238]	catalase	+	1.11.1.6
[Ref.: #68238]	cystine arylamidase	-	3.4.11.3
[Ref.: #68238]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68238]	esterase Lipase (C 8)	+
[Ref.: #68238]	leucine arylamidase	-	3.4.11.1
[Ref.: #68238]	lipase	-
[Ref.: #68238]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #68238]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68238]	trypsin	-	3.4.21.4
[Ref.: #68238]	urease	-	3.5.1.5
[Ref.: #68238]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #68238]

Fatty acid	Percentage
C15:0 anteiso	35.1
C16:0	6.9
C14:0	4.3
C16:0 iso	4.2
C15:0 iso	4
C17:0 anteiso	3.8
C14:0 iso	3.6
C16:1 w11c	2.1

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

[Ref.: #66200]	Sample type/isolated from	Soil
[Ref.: #66200]	Geographic location (country and/or sea, region)	Cerro Bayo, Neuquén
[Ref.: #66200]	Country	Argentina
[Ref.: #66200]	Country ISO 3 Code	ARG
[Ref.: #66200]	Continent	Middle and South America

[Ref.: #68238]	Sample type/isolated from	pristine forest soil
[Ref.: #68238]	Geographic location (country and/or sea, region)	Cerro Bayo-Neuquén
[Ref.: #68238]	Country	Argentina
[Ref.: #68238]	Country ISO 3 Code	ARG
[Ref.: #68238]	Continent	Middle and South America
[Ref.: #68238]	Geographic location	-40.8397°/-71.3958°
[Ref.: #68238]	Enrichment culture	minimal medium
[Ref.: #68238]	Enrichment culture composition	supplemented with carboxymethyl cellulose
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT461879 (>99% sequence identity) for Paenibacillus from Microbeatlas

Aquatic Samples	208
Soil Samples	1643
Animal Samples	410
Plant Samples	609
Total Samples	2870

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.: #66200]	Paenibacillus sp. A59 16S ribosomal RNA gene, partial sequence	KT461879	1513	ENA	1705561 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #68238]	Paenibacillus xylanivorans A59	GCA_001280595	scaffold	GenBank	1705561 tax ID
[Ref.: #66792]	Paenibacillus xylanivorans A59	2645727971	draft	JGI IMG/M	1705561 tax ID	*

[Ref.: #68238]

GC-content

46.09 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paenibacillus xylanivorans A59 NCBI: GCA_001280595.1
[Ref.: #69481]	spore-forming	yes	100	no

Availability in culture collections External links

[Ref.: #66200]

Culture collection no.

DSM 107920, NCIMB 15123

[Ref.: #111872]

SI-ID 402269

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus xylanivorans sp. nov., a xylan-degrading bacterium isolated from decaying forest soil.	Ghio S, Sauka DH, Ferrari AE, Piccini FE, Ontanon OM, Campos E	Int J Syst Evol Microbiol	10.1099/ijsem.0.003686	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 )

#66200

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 107920

#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) .

#68238

Silvina Ghio, Diego H. Sauka, Alejandro E. Ferrari, Florencia E. Piccini, Ornella M. Ontañon and Eleonora Campos: Paenibacillus xylanivorans sp. nov., a xylan-degrading bacterium isolated from decaying forest soil. IJSEM 69: 3818 - 3823 2019 ( DOI 10.1099/ijsem.0.003686 )

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#111872

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-ID402269.1 )

* These data were automatically processed and therefore are not curated

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