Archive BacDiveID:10.13145/bacdive23762.20230509.8.1

Strain identifier

BacDive ID: 23762

Type strain:

Species: Lysinibacillus pakistanensis

Strain history: <- I Ahmed, NCCP, Pakistan

NCBI tax ID(s): 759811 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 21169

BacDive-ID: 23762

DSM-Number: 24784

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, motile, rod-shaped

description: Lysinibacillus pakistanensis DSM 24784 is an aerobe, spore-forming, mesophilic bacterium that was isolated from rhizospheric soil of soybean Glycine max L..

NCBI tax id

NCBI tax id: 759811
Matching level: species

strain history

@ref	history
21169	<- I. Ahmed, National Agricultural Research Centre, Pakistan; NCCP-54 <- R. Hayat and I. Ahmed
67770	I. Ahmed NCCP-54.
67771	<- I Ahmed, NCCP, Pakistan

doi: 10.13145/bacdive23762.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Bacilli
order: Caryophanales
family: Caryophanaceae
genus: Lysinibacillus
species: Lysinibacillus pakistanensis
full scientific name: Lysinibacillus pakistanensis Ahmed et al. 2014

@ref: 21169

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Lysinibacillus

species: Lysinibacillus pakistanensis

full scientific name: Lysinibacillus pakistanensis Ahmed et al. 2014

type strain: yes

Morphology

cell morphology

@ref	cell shape	motility	gram stain
67771	rod-shaped	yes
67771			positive

Culture and growth conditions

culture medium

@ref: 21169
name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
growth: yes
link: https://mediadive.dsmz.de/medium/220
composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
21169	positive	growth	30	mesophilic
67770	positive	growth	30	mesophilic
67771	positive	growth	28	mesophilic

Physiology and metabolism

oxygen tolerance

@ref: 67771
oxygen tolerance: aerobe

spore formation

@ref: 67771
type of spore: endospore
spore formation: yes

murein

@ref: 21169
murein short key: A11.31
type: A4alpha L-Lys-D-Asp

observation

@ref	observation
67770	quinones: MK-7
67771	quinones: MK-7

Isolation, sampling and environmental information

isolation

@ref	sample type	host species	geographic location	country	origin.country	continent
21169	rhizospheric soil of soybean Glycine max L.	Glycine max	Rawaldpindi, Research Farm of Pir Mehr Ali Shah Arid Agriculture University	Pakistan	PAK	Asia
67770	Rhizospheric soil of soybean (Glycine max L.)	Glycine max	PMAS Arid Agric. Univ., Rawalpindi	Pakistan	PAK	Asia
67771	From legume (`Glycine max`) rhizospheric soil		Research farm, PMAS Arid Agriculture University, Rawalpindi	Pakistan	PAK	Asia

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Safety information

risk assessment

@ref: 21169
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 21169
description: Lysinibacillus pakistanensis gene for 16S rRNA, partial sequence
accession: AB558495
length: 1481
database: ena
NCBI tax ID: 759811

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Lysinibacillus pakistanensis strain JCM 18776	759811.5	wgs	patric	759811
66792	Lysinibacillus pakistanensis JCM 18776	2728369720	draft	img	759811
67770	Lysinibacillus pakistanensis JCM 18776	GCA_001312325	contig	ncbi	759811

GC content

@ref	GC-content	method
21169	37
67770	37	high performance liquid chromatography (HPLC)
67771	37.0

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	yes	87.757	no
flagellated	yes	80.068	no
gram-positive	yes	89.966	yes
anaerobic	no	96.44	yes
aerobic	yes	87.481	yes
halophile	no	95.127	no
spore-forming	yes	97.387	yes
glucose-util	yes	82.845	no
thermophile	no	99.855	no
glucose-ferment	no	91.676	no

External links

@ref: 21169

culture collection no.: DSM 24784, JCM 18776, KCTC 13795, NCCP 54

straininfo link

@ref: 87798
straininfo: 400013

literature

topic: Enzymology
Pubmed-ID: 31706173
title: FRET-based fluorescent nanoprobe platform for sorting of active microorganisms by functional properties.
authors: Luo Y, Liu F, Li E, Fang Y, Zhao G, Dai X, Li J, Wang B, Xu M, Liao B, Sun G
journal: Biosens Bioelectron
DOI: 10.1016/j.bios.2019.111832
year: 2019
mesh: Azo Compounds/*chemistry, Bacillaceae/isolation & purification, Biosensing Techniques/methods, Bradyrhizobiaceae/isolation & purification, Fluorescence Resonance Energy Transfer/*methods, Fluorescent Dyes/*chemistry, Gram-Negative Bacterial Infections/microbiology, Humans, Nanoparticles/chemistry, Rhodamines/*chemistry, Shewanella/*isolation & purification, Silicon Dioxide/chemistry
topic2: Phylogeny

Reference

@id	authors	title	doi/url	catalogue
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	10.1099/ijsem.0.004332
21169	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-24784	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24784)
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)	https://diaspora-project.de/progress.html#genomes
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
67771	Curators of the KCTC		https://kctc.kribb.re.kr/En/Kctc
87798	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	10.60712/SI-ID400013.1