Vulgatibacter incomptus (DSM 27710, NBRC 109945, B00001)

Cell morphology

Multimedia

• @ref:	22115
  multimedia content:	DSM_27710.jpg
  multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_27710.jpg
  intellectual property rights:	© Leibniz-Institut DSMZ
  manual_annotation:	1

Culture medium

@ref	Name	Growth	Medium link	Composition
22115	VY/2 AGAR (DSMZ Medium 9)		Medium recipe at MediaDive	Name: VY/2 AGAR (DSMZ Medium 9) Composition: Agar 15.0 g/l Baker's yeast 5.0 g/l CaCl2 x 2 H2O 1.36 g/l Vitamin B12 0.0005 g/l Distilled water
22115	NB-PYRUVATE AGAR (DSMZ Medium 1509)		Medium recipe at MediaDive	Name: NB-PYRUVATE AGAR (DSMZ Medium 1509) Composition: Agar 14.0 g/l Nutrient broth 6.0 g/l NaCl 1.5 g/l Na-pyruvate 1.0 g/l Distilled water

Culture temp

Spore formation

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions	external links
66794	coenzyme A metabolism	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	formaldehyde oxidation	100	3 of 3
66794	sulfopterin metabolism	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	ceramide biosynthesis	100	1 of 1
66794	acetate fermentation	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	ethanol fermentation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	CMP-KDO biosynthesis	100	4 of 4
66794	ppGpp biosynthesis	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	leucine metabolism	92.31	12 of 13
66794	starch degradation	90	9 of 10
66794	propionate fermentation	90	9 of 10
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	NAD metabolism	83.33	15 of 18
66794	peptidoglycan biosynthesis	80	12 of 15
66794	vitamin K metabolism	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	vitamin B1 metabolism	76.92	10 of 13
66794	gluconeogenesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	vitamin B6 metabolism	72.73	8 of 11
66794	tyrosine metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	glutathione metabolism	71.43	10 of 14
66794	purine metabolism	71.28	67 of 94
66794	urea cycle	69.23	9 of 13
66794	non-pathway related	68.42	26 of 38
66794	lipid metabolism	67.74	21 of 31
66794	valine metabolism	66.67	6 of 9
66794	enterobactin biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	pyrimidine metabolism	66.67	30 of 45
66794	cyanate degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	serine metabolism	66.67	6 of 9
66794	alanine metabolism	65.52	19 of 29
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	glycolysis	64.71	11 of 17
66794	heme metabolism	64.29	9 of 14
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	phenylalanine metabolism	61.54	8 of 13
66794	flavin biosynthesis	60	9 of 15
66794	Entner Doudoroff pathway	60	6 of 10
66794	lipoate biosynthesis	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	glutamate and glutamine metabolism	57.14	16 of 28
66794	pentose phosphate pathway	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	tryptophan metabolism	52.63	20 of 38
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	sphingosine metabolism	50	3 of 6
66794	resorcinol degradation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	cysteine metabolism	50	9 of 18
66794	arginine metabolism	50	12 of 24
66794	pantothenate biosynthesis	50	3 of 6
66794	lactate fermentation	50	2 of 4
66794	cyclohexanol degradation	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	lysine metabolism	47.62	20 of 42
66794	d-xylose degradation	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	oxidative phosphorylation	45.05	41 of 91
66794	phenol degradation	45	9 of 20
66794	aclacinomycin biosynthesis	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	3-phenylpropionate degradation	40	6 of 15
66794	hydrogen production	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	3-chlorocatechol degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	threonine metabolism	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	degradation of hexoses	38.89	7 of 18
66794	histidine metabolism	37.93	11 of 29
66794	carnitine metabolism	37.5	3 of 8
66794	cholesterol biosynthesis	36.36	4 of 11
66794	degradation of pentoses	35.71	10 of 28
66794	IAA biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	methane metabolism	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	arachidonic acid metabolism	33.33	6 of 18
66794	sulfoquinovose degradation	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	degradation of sugar acids	32	8 of 25
66794	sulfate reduction	30.77	4 of 13
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	polyamine pathway	26.09	6 of 23
66794	androgen and estrogen metabolism	25	4 of 16
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	toluene degradation	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	phenylpropanoid biosynthesis	23.08	3 of 13

Isolation source categories

Isolation

Taxonmaps

69479

Global distribution of 16S sequence AB847448 (>99% sequence identity) for Vulgatibacter incomptus subclade from Microbeatlas

Aquatic Samples	784
Soil Samples	4843
Animal Samples	413
Plant Samples	293
Total Samples	6333

Risk assessment

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM126317v1 assembly for Vulgatibacter incomptus DSM 27710	complete	GCA_001263175	1391653.7	2645728052	1391653	91.86

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22115	Vulgatibacter incomptus gene for 16S ribosomal RNA, partial sequence	AB847448	1479		1391653

GC content

Predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative genomics of obligate predatory bacteria belonging to phylum Bdellovibrionota highlights distribution and predicted functions of lineage-specific protein families.	Davis SC, Cerra J, Williams LE.	mSphere	10.1128/msphere.00680-24	2024
Proteome	DnaK duplication and specialization in bacteria correlates with increased proteome complexity.	Pan Z, Zhuo L, Wan T-y, Chen R-y, Li Y-z.	mSystems	10.1128/msystems.01154-23	2024
Metabolism	Genetic manipulation and tools in myxobacteria for the exploitation of secondary metabolism.	Yue X, Sheng D, Zhuo L, Li YZ.	Eng Microbiol	10.1016/j.engmic.2023.100075	2023
Genetics	Comparative genomics and transcriptomics insight into myxobacterial metabolism potentials and multiple predatory strategies.	Wang C, Xiao Y, Wang Y, Liu Y, Yao Q, Zhu H.	Front Microbiol	10.3389/fmicb.2023.1146523	2023
Metabolism	Bioinformatic and Functional Characterization of Hsp70s in Myxococcus xanthus.	Pan Z, Zhang Z, Zhuo L, Wan TY, Li YZ.	mSphere	10.1128/msphere.00305-21	2021
Phylogeny	Comparative Genomics of Myxobacterial Chemosensory Systems.	Sharma G, Khatri I, Subramanian S.	J Bacteriol	10.1128/jb.00620-17	2018
	MYXO-CTERM sorting tag directs proteins to the cell surface via the type II secretion system.	Sah GP, Cao P, Wall D.	Mol Microbiol	10.1111/mmi.14473	2020
Metabolism	Metabolic and Biosynthetic Diversity in Marine Myxobacteria.	Gemperlein K, Zaburannyi N, Garcia R, La Clair JJ, Muller R.	Mar Drugs	10.3390/md16090314	2018
	Complete Genome Sequence and Comparative Genomics of a Novel Myxobacterium Myxococcus hansupus.	Sharma G, Narwani T, Subramanian S.	PLoS One	10.1371/journal.pone.0148593	2016
Phylogeny	Vulgatibacter incomptus gen. nov., sp. nov. and Labilithrix luteola gen. nov., sp. nov., two myxobacteria isolated from soil in Yakushima Island, and the description of Vulgatibacteraceae fam. nov., Labilitrichaceae fam. nov. and Anaeromyxobacteraceae fam. nov.	Yamamoto E, Muramatsu H, Nagai K	Int J Syst Evol Microbiol	10.1099/ijs.0.063198-0	2014