Flavobacterium nitrogenifigens (DSM 29982, CIP 110894, LMG 28694)

Name: Flavobacterium nitrogenifigens (DSM 29982, CIP 110894, LMG 28694)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131418

Type strain

Strain Designation NXU-44

Culture col. no. DSM 29982 CIP 110894 LMG 28694 NXU-44

NCBI tax ID(s) 1617283

Special Collections DSMZ CIP

History <- P. Kämpfer, Univ. Giessen, Germany; NXU-44 <- J. McInroy CIP <- 2015, P. Kämpfer, Giessen Univ., Giessen, Germany: strain NXU-44

Links

Flavobacterium nitrogenifigens NXU-44 is a Gram-negative, rod-shaped bacterium that was isolated from rhizosphere of switchgrass Panicum virgatum.

Gram-negative rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 396416

LMG 28694,CIP 110894,DSM 29982

@ref 20215

Last LPSN update 2026-02-09 11:31:27

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium nitrogenifigens

Full scientific name Flavobacterium nitrogenifigens Kämpfer et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	negative		99.6
125438			90.5
125438	negative		96.727
121312	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
42014	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
22645	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
121312	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
22645	positive	growth	28
42014	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	93.8

Spore formation

@ref	Spore formation	Confidence
125439		99.2

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
22645	rhizosphere of switchgrass Panicum virgatum	Panicum virgatum	Alabama, Auburn	USA	USA	North America
121312	Environment, Soil, rhizosphere of switch grass		Alabama	United States of America	USA	North America	1998-01-02

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22645	1	Risk group (German classification)
121312	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2724679792 annotated assembly for Flavobacterium nitrogenifigens DSM 29982	scaffold	GCA_900182675	1617283.5	2724679792	1617283	71.31
66792	ASM325456v1 assembly for Flavobacterium nitrogenifigens NXU-44	contig	GCA_003254565	1617283.3	2958482455	1617283	42.99

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22645	Flavobacterium nitrogenifigens strain NXU-44 16S ribosomal RNA gene, partial sequence	KP711654	1413		1617283

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavobacterium nitrogenifigens DSM 29982
NCBI: GCA_900182675

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.20	no
125439	motility	BacteriaNetⓘ	no	67.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	93.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium nitrogenifigens DSM 29982
NCBI: GCA_900182675.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.73	no
125438	anaerobic	anaerobicⓘ	no	97.06	no
125438	aerobic	aerobicⓘ	yes	86.41	no
125438	spore-forming	spore-formingⓘ	no	84.90	no
125438	thermophilic	thermophileⓘ	no	98.92	yes
125438	flagellated	motile2+ⓘ	no	90.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium zhairuonensis sp. nov., a gliding bacterium isolated from marine sediment of the East China Sea.	Debnath SC, Miyah AMA, Chen C, Sheng H, Xu XW, Wu YH, Zheng DQ, Xu JZ, Di YN, Wang PM, Shen L	J Microbiol	10.1007/s12275-019-9194-4	2019
Phylogeny	Flavobacterium panacis sp. nov., isolated from rhizosphere of Panax ginseng.	Kim DH, Singh P, Farh Mel-A, Kim YJ, Nguyen NL, Lee HA, Yang DC	Antonie Van Leeuwenhoek	10.1007/s10482-016-0720-7	2016
Phylogeny	Flavobacterium nitrogenifigens sp. nov., isolated from switchgrass (Panicum virgatum).	Kampfer P, Busse HJ, McInroy JA, Xu J, Glaeser SP	Int J Syst Evol Microbiol	10.1099/ijs.0.000330	2015
Phylogeny	Flavobacterium amnigenum sp. nov. Isolated from a River.	Patil KS, Padakandla SR, Chae JC	J Microbiol Biotechnol	10.4014/jmb.1806.06044	2018

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 )
#22645	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29982
#42014	; 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) .
#121312	Collection of Institut Pasteur ; Curators of the CIP; CIP 110894
#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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Flavobacterium nitrogenifigens (DSM 29982, CIP 110894, LMG 28694)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900182675

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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