Name: Pradoshia eiseniae JCM 32460
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 164262

Type strain:

Species: Pradoshia eiseniae

Culture col. no.: JCM 32460, LMG 30312, EAG 3

Strain history: R. Chakraborty; Dept. of Biotechnol., Univ. of North Bengal, India; EAG3.

NCBI tax ID(s): 2064768 (species)

Special Collections

Section

When using BacDive for research please cite our paper

Pradoshia eiseniae JCM 32460 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from Anterior gut of an earthworm reared at the Centre of Floriculture and Agrobusiness Management of University of North Bengal at Siliguri.

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	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Pradoshia*
	Species	**Pradoshia eiseniae**
	Full Scientific Name (LPSN)	Pradoshia eiseniae Saha et al. 2019

Information on morphological and physiological properties Morphology

[Ref.: #67858]	Gram stain	positive

[Ref.: #67858]	Cell length	1.2-1.7 µm

[Ref.: #67858]	Cell width	0.6-0.8 µm

[Ref.: #67858]	Cell shape	rod-shaped

[Ref.: #67858]	Motility	yes

[Ref.: #67858]	Colony color	greyish-white
[Ref.: #67858]	Cultivation medium used	LB (Luria-Bertani) agar

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #67770]	growth	28 °C
[Ref.: #67858]	growth	4-42 °C
[Ref.: #67858]	optimum	28-30 °C

	pH	Kind of pH		pH
[Ref.: #67858]			optimum	7-8
[Ref.: #67858]			growth	7-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67858]

Oxygen tolerance

facultative anaerobe

[Ref.: #67858]	Type of spore	endospore
[Ref.: #67858]	Ability of spore formation	yes
[Ref.: #125438]	Ability of spore formation	yes Confidence in %91.025

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #67858]		NaCl		growth	0-4	%
[Ref.: #67858]		NaCl		optimum	2	%

[Ref.: #67770]

Observation

quinones: MK-7, MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #67858]	3-nitropropanoate ChEBI	+	nitrogen source
[Ref.: #67858]	3-nitropropanoate ChEBI	+	carbon source
[Ref.: #67858]	3-nitropropanoate ChEBI	+	energy source
[Ref.: #67858]	casein	-	hydrolysis
[Ref.: #67858]	cellobiose ChEBI	+	assimilation
[Ref.: #67858]	D-arabinose ChEBI	+	assimilation
[Ref.: #67858]	D-fructose ChEBI	+	assimilation
[Ref.: #67858]	D-galactose ChEBI	+	assimilation
[Ref.: #67858]	D-glucose ChEBI	+	assimilation
[Ref.: #67858]	D-mannitol ChEBI	-	assimilation
[Ref.: #67858]	D-mannose ChEBI	+	assimilation
[Ref.: #67858]	D-sorbitol ChEBI	-	assimilation
[Ref.: #67858]	D-xylose ChEBI	+	assimilation
[Ref.: #67858]	esculin ChEBI	-	hydrolysis
[Ref.: #67858]	galactitol ChEBI	-	assimilation
[Ref.: #67858]	gelatin ChEBI	-	hydrolysis
[Ref.: #67858]	glucosamine ChEBI	-	assimilation
[Ref.: #67858]	glycerol ChEBI	-	assimilation
[Ref.: #67858]	inulin ChEBI	+	assimilation
[Ref.: #67858]	L-arabinose ChEBI	+	assimilation
[Ref.: #67858]	L-rhamnose ChEBI	-	assimilation
[Ref.: #67858]	L-sorbose ChEBI	+	assimilation
[Ref.: #67858]	lactose ChEBI	-	assimilation
[Ref.: #67858]	maltose ChEBI	+	assimilation
[Ref.: #67858]	melezitose ChEBI	-	assimilation
[Ref.: #67858]	melibiose ChEBI	-	assimilation
[Ref.: #67858]	methyl alpha-D-glucopyranoside ChEBI	-	assimilation
[Ref.: #67858]	methyl alpha-D-mannoside ChEBI	-	assimilation
[Ref.: #67858]	myo-inositol ChEBI	-	assimilation
[Ref.: #67858]	potassium nitrate ChEBI	+	nitrogen source
[Ref.: #67858]	raffinose ChEBI	-	assimilation
[Ref.: #67858]	ribitol ChEBI	-	assimilation
[Ref.: #67858]	salicin ChEBI	+	assimilation
[Ref.: #67858]	sodium gluconate ChEBI	-	assimilation
[Ref.: #67858]	starch ChEBI	-	hydrolysis
[Ref.: #67858]	sucrose ChEBI	+	assimilation
[Ref.: #67858]	trehalose ChEBI	-	assimilation
[Ref.: #67858]	xylitol ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #67858]	catalase	+	1.11.1.6
[Ref.: #67858]	cytochrome oxidase	-	1.9.3.1
[Ref.: #67858]	urease	-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #67858]

Fatty acid	Percentage
C15:0 iso	30.7
C16:1 w7c OH	13.7
C15:0 anteiso	12.9
C16:0 iso	11.5
C14:0 iso	7.5
C17:0 anteiso	5
C17:1 iso I and/or C17:1 anteiso/iso B	4.2
C17:0 iso	2.6
C16:1 w11c	1.6
C16:0	1.5
C18:0	0.6
C14:0	0.6
C17:0	0.3

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

[Ref.: #67770]	Sample type/isolated from	Anterior gut of an earthworm (Eisenia fetida) reared at the Centre of Floriculture and Agrobusiness Management (COFAM) of University of North Bengal at Siliguri
[Ref.: #67770]	Host species	Eisenia fetida
[Ref.: #67770]	Geographic location (country and/or sea, region)	West Bengal
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia

[Ref.: #67858]	Sample type/isolated from	anterior gut of an earthworm (Eisenia fetida) reared at the Centre of Floriculture and Agrobusiness Management
[Ref.: #67858]	Geographic location (country and/or sea, region)	University of North Bengal at Siliguri, West Benga
[Ref.: #67858]	Country	India
[Ref.: #67858]	Country ISO 3 Code	IND
[Ref.: #67858]	Continent	Asia
[Ref.: #67858]	Geographic location	26.7072°/88.3558°
[Ref.: #67858]	Enrichment culture	Luria-Bertani agar
[Ref.: #67858]	Enrichment culture duration	2 days
[Ref.: #67858]	Enrichment culture temperature	28 ̊C
[Ref.: #67858]	Isolation/enrichment procedure	the worms were washed repeatedly with sterile distilled water, and then anaesthetized by putting them into 10 % ethanol. The anterior gut (region between pharynx and intestine) was aseptically removed from the anaesthetized worms. After surface cleaning with sterile distilled water, the guts along with their contents were mixed with 500 µl phosphate buffer saline (PBS; pH 7.2) using a micropestle in a 1.5 ml microfuge tube. The anterior gut content suspension was serially diluted in PBS and spread on Luria-Bertani agar and incubated at 28°C for 48 h.
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence MF398391 (>99% sequence identity) for Pradoshia eiseniae subclade from Microbeatlas

Aquatic Samples	100
Soil Samples	683
Animal Samples	234
Plant Samples	147
Total Samples	1164

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.: #67858]	Pradoshia eiseniae strain EAG3 16S ribosomal RNA gene, partial sequence	MF398391.1	1519	GenBank ENA	2064768 tax ID
[Ref.: #67770]	Pradoshia eiseniae strain EAG3 16S ribosomal RNA gene, partial sequence	MF398391	1519	GenBank ENA	2064768 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pradoshia eiseniae EAG3	GCA_002946355	scaffold	GenBank ENA	2064768 tax ID

[Ref.: #67858]	GC-content	42.5 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	42.5 mol%

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: Pradoshia eiseniae EAG3 NCBI: GCA_002946355.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	81.173	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	91.722	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	56.113	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	91.025	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	89.253	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	64.272	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 32460, LMG 30312, EAG 3

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pradoshia eiseniae gen. nov., sp. nov., a spore-forming member of the family Bacillaceae capable of assimilating 3-nitropropionic acid, isolated from the anterior gut of the earthworm Eisenia fetida.	Saha T, Ranjan VK, Ganguli S, Thakur S, Chakraborty B, Barman P, Ghosh W, Chakraborty R	Int J Syst Evol Microbiol	10.1099/ijsem.0.003304	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 )

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

#67858

Tilak Saha, Vivek K. Ranjan, Sriradha Ganguli, Subarna Thakur, Biswanath Chakraborty, Partha Barman, Wriddhiman Ghosh, Ranadhir Chakraborty: Pradoshia eiseniae gen. nov., sp. nov., a spore-forming member of the family Bacillaceae capable of assimilating 3-nitropropionic acid, isolated from the anterior gut of the earthworm Eisenia fetida. IJSEM 69: 1265 - 1273 2019 ( DOI 10.1099/ijsem.0.003304 )

#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 )

* These data were automatically processed and therefore are not curated

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