Paenibacillus pini (DSM 112636, S22, JCM 16418)

Name: Paenibacillus pini (DSM 112636, S22, JCM 16418)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 160686

Type strain

Strain Designation S22

Culture col. no. DSM 112636 S22 JCM 16418 KACC 14198 KCTC 13694

NCBI tax ID(s) 1236976 669461

Special Collections DSMZ JCM KCTC

History DSMZ <- J.-S. Lee, KCTC; KCTC 13694 JCM <-- B.-C. Kim S22.

Links

Paenibacillus pini S22 is a bacterium that was isolated from pin tree, rhizosphere.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 374058

LMG 26167,JCM 16418,KACC 14198,KCTC 13694,DSM 112636

@ref 20215

Last LPSN update 2026-05-29 08:44:30

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Paenibacillaceae

Genus Paenibacillus

Species Paenibacillus pini

Full scientific name Paenibacillus pini Kim et al. 2011

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
67596	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
67596	positive	growth	25
67770	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	96.127

Spore formation

@ref	Spore formation	Confidence
125438		92.927
125439		93.469

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67596	pin tree, rhizosphere	Daejeon	Republic of Korea	KOR	Asia
67770	Rhizosphere of a pine tree in Daejeon		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence GQ423056 (>99% sequence identity) for Paenibacillus pini subclade from Microbeatlas

Aquatic Samples	7
Soil Samples	21
Animal Samples	16
Plant Samples	1
Total Samples	45

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
67596	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Paenibacillus pini JCM 16418	contig		1236976.3		1236976	54.7
67770	ASM57630v1 assembly for Paenibacillus pini JCM 16418	contig	GCA_000576305	1236976.6	2563366752	1236976	53.23
67770	ASM131512v1 assembly for Paenibacillus pini JCM 16418	contig	GCA_001315125	1236976.4		1236976	48.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Paenibacillus pini strain S22 16S ribosomal RNA gene, partial sequence	GQ423056	1477		1236976

GC content

@ref	GC-content (mol%)	Method
67770	43.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paenibacillus pini JCM 16418
BV-BRC: 1236976.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.13	no
125439	gram_stain	BacteriaNetⓘ	variable	45.59	no
125439	motility	BacteriaNetⓘ	yes	83.51	no
125439	spore_formation	BacteriaNetⓘ	yes	93.47	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paenibacillus pini JCM 16418
PATRIC: 1236976.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	64.25	no
125438	anaerobic	anaerobicⓘ	no	92.69	no
125438	spore-forming	spore-formingⓘ	yes	92.93	no
125438	aerobic	aerobicⓘ	yes	57.25	no
125438	thermophilic	thermophileⓘ	no	93.31	yes
125438	flagellated	motile2+ⓘ	yes	83.54	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Mining the phytomicrobiome to understand how bacterial coinoculations enhance plant growth.	Maymon M, Martinez-Hidalgo P, Tran SS, Ice T, Craemer K, Anbarchian T, Sung T, Hwang LH, Chou M, Fujishige NA, Villella W, Ventosa J, Sikorski J, Sanders ER, Faull KF, Hirsch AM.	Front Plant Sci	10.3389/fpls.2015.00784	2015
Genetics	Genome mining: Prediction of lipopeptides and polyketides from Bacillus and related Firmicutes.	Aleti G, Sessitsch A, Brader G.	Comput Struct Biotechnol J	10.1016/j.csbj.2015.03.003	2015
Genetics	Draft Genome Sequence of Paenibacillus pini JCM 16418T, Isolated from the Rhizosphere of Pine Tree.	Yuki M, Oshima K, Suda W, Oshida Y, Kitamura K, Iida T, Hattori M, Ohkuma M	Genome Announc	10.1128/genomeA.00210-14	2014
Phylogeny	Paenibacillus pini sp. nov., a cellulolytic bacterium isolated from the rhizosphere of pine tree.	Kim BC, Lee KH, Kim MN, Kim EM, Min SR, Kim HS, Shin KS	J Microbiol	10.1007/s12275-009-0343-z	2010

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 )
#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) .
#67596	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 112636
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Paenibacillus pini (DSM 112636, S22, JCM 16418)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000576305

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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