Dyella humi (DHG40, KCTC 42629, LMG 28842)

Name: Dyella humi (DHG40, KCTC 42629, LMG 28842)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133215

Type strain

Strain Designation DHG40

Culture col. no. DHG40 KCTC 42629 LMG 28842

NCBI tax ID(s) 1770547

Special Collections KCTC Literature strains

Links

Dyella humi DHG40 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from forest soil.

Gram-negative motile rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 272552

LMG 28842,KCTC 42629

@ref 20215

Last LPSN update 2026-05-29 08:38:02

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Rhodanobacteraceae

Genus Dyella

Species Dyella humi

Full scientific name Dyella humi Chen et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
25007	negative	1.2-3.0 µm	0.3-0.7 µm	rod-shaped
125439	negative					90.614

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
25007	1.0-2.5 mm	yellow	circular	2 days	R2A agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
25007	Reasoner's 2A agar (R2A)

Culture temp

@ref	Growth	Type	Temperature (°C)
25007	positive	optimum	25-28

Culture pH

@ref	Ability	Type	PH
25007	positive	optimum	6.0-7.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
25007	aerobe
125439	obligate aerobe	98.874

Spore formation

@ref	Spore formation	Confidence
125439		98.927

Halophily

@ref	Salt	Growth	Tested relation	Concentration
25007	NaCl	positive	growth	0 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
25007	16808 ChEBI	2-dehydro-D-gluconate	-	energy source
25007	16808 ChEBI	2-dehydro-D-gluconate	-	carbon source
25007	17426 ChEBI	5-dehydro-D-gluconate	-	energy source
25007	17426 ChEBI	5-dehydro-D-gluconate	-	carbon source
25007	17128 ChEBI	adipate	-	energy source
25007	17128 ChEBI	adipate	-	carbon source
25007	27613 ChEBI	amygdalin	-	energy source
25007	27613 ChEBI	amygdalin	-	carbon source
25007	18305 ChEBI	arbutin	-	energy source
25007	18305 ChEBI	arbutin	-	carbon source
25007		casein	+	hydrolysis
25007	17057 ChEBI	cellobiose	+	energy source
25007	17057 ChEBI	cellobiose	+	carbon source
25007	17108 ChEBI	D-arabinose	-	energy source
25007	17108 ChEBI	D-arabinose	-	carbon source
25007	18333 ChEBI	D-arabitol	-	energy source
25007	18333 ChEBI	D-arabitol	-	carbon source
25007	15824 ChEBI	D-fructose	+	energy source
25007	15824 ChEBI	D-fructose	+	carbon source
25007	28847 ChEBI	D-fucose	-	energy source
25007	28847 ChEBI	D-fucose	-	carbon source
25007	12936 ChEBI	D-galactose	+	energy source
25007	12936 ChEBI	D-galactose	+	carbon source
25007	17634 ChEBI	D-glucose	+	energy source
25007	17634 ChEBI	D-glucose	+	carbon source
25007	62318 ChEBI	D-lyxose	-	energy source
25007	62318 ChEBI	D-lyxose	-	carbon source
25007	16899 ChEBI	D-mannitol	-	energy source
25007	16899 ChEBI	D-mannitol	-	carbon source
25007	16024 ChEBI	D-mannose	+	energy source
25007	16024 ChEBI	D-mannose	+	carbon source
25007	16988 ChEBI	D-ribose	-	energy source
25007	16988 ChEBI	D-ribose	-	carbon source
25007	17924 ChEBI	D-sorbitol	-	energy source
25007	17924 ChEBI	D-sorbitol	-	carbon source
25007	16443 ChEBI	D-tagatose	-	energy source
25007	16443 ChEBI	D-tagatose	-	carbon source
25007	65327 ChEBI	D-xylose	+	energy source
25007	65327 ChEBI	D-xylose	+	carbon source
25007	27689 ChEBI	decanoate	-	energy source
25007	27689 ChEBI	decanoate	-	carbon source
25007	17113 ChEBI	erythritol	-	energy source
25007	17113 ChEBI	erythritol	-	carbon source
25007	4853 ChEBI	esculin	+	hydrolysis
25007		esculin ferric citrate	+	energy source
25007		esculin ferric citrate	+	carbon source
25007	16813 ChEBI	galactitol	-	energy source
25007	16813 ChEBI	galactitol	-	carbon source
25007	5291 ChEBI	gelatin	-	hydrolysis
25007	28066 ChEBI	gentiobiose	+	energy source
25007	28066 ChEBI	gentiobiose	+	carbon source
25007	17234 ChEBI	glucose	-	fermentation
25007	17754 ChEBI	glycerol	-	energy source
25007	17754 ChEBI	glycerol	-	carbon source
25007	28087 ChEBI	glycogen	-	energy source
25007	28087 ChEBI	glycogen	-	carbon source
25007	35581 ChEBI	indole	-	hydrolysis
25007	15443 ChEBI	inulin	+	energy source
25007	15443 ChEBI	inulin	+	carbon source
25007	30849 ChEBI	L-arabinose	-	energy source
25007	30849 ChEBI	L-arabinose	-	carbon source
25007	30849 ChEBI	L-arabinose	+	energy source
25007	30849 ChEBI	L-arabinose	+	carbon source
25007	18403 ChEBI	L-arabitol	-	energy source
25007	18403 ChEBI	L-arabitol	-	carbon source
25007	18287 ChEBI	L-fucose	-	energy source
25007	18287 ChEBI	L-fucose	-	carbon source
25007	62345 ChEBI	L-rhamnose	-	energy source
25007	62345 ChEBI	L-rhamnose	-	carbon source
25007	17266 ChEBI	L-sorbose	-	energy source
25007	17266 ChEBI	L-sorbose	-	carbon source
25007	65328 ChEBI	L-xylose	-	energy source
25007	65328 ChEBI	L-xylose	-	carbon source
25007	17716 ChEBI	lactose	+	energy source
25007	17716 ChEBI	lactose	+	carbon source
25007	25115 ChEBI	malate	+	energy source
25007	25115 ChEBI	malate	+	carbon source
25007	17306 ChEBI	maltose	+	energy source
25007	17306 ChEBI	maltose	+	carbon source
25007	6731 ChEBI	melezitose	-	energy source
25007	6731 ChEBI	melezitose	-	carbon source
25007	28053 ChEBI	melibiose	+	energy source
25007	28053 ChEBI	melibiose	+	carbon source
25007	320061 ChEBI	methyl alpha-D-glucopyranoside	+	energy source
25007	320061 ChEBI	methyl alpha-D-glucopyranoside	+	carbon source
25007	43943 ChEBI	methyl alpha-D-mannoside	-	energy source
25007	43943 ChEBI	methyl alpha-D-mannoside	-	carbon source
25007	74863 ChEBI	methyl beta-D-xylopyranoside	-	energy source
25007	74863 ChEBI	methyl beta-D-xylopyranoside	-	carbon source
25007	17268 ChEBI	myo-inositol	-	energy source
25007	17268 ChEBI	myo-inositol	-	carbon source
25007	506227 ChEBI	N-acetylglucosamine	+	energy source
25007	506227 ChEBI	N-acetylglucosamine	+	carbon source
25007	17632 ChEBI	nitrate	-	reduction
25007	18401 ChEBI	phenylacetate	-	energy source
25007	18401 ChEBI	phenylacetate	-	carbon source
25007	32032 ChEBI	potassium gluconate	-	energy source
25007	32032 ChEBI	potassium gluconate	-	carbon source
25007	16634 ChEBI	raffinose	-	energy source
25007	16634 ChEBI	raffinose	-	carbon source
25007	15963 ChEBI	ribitol	-	energy source
25007	15963 ChEBI	ribitol	-	carbon source
25007	17814 ChEBI	salicin	-	energy source
25007	17814 ChEBI	salicin	-	carbon source
25007	53258 ChEBI	sodium citrate	-	energy source
25007	53258 ChEBI	sodium citrate	-	carbon source
25007	28017 ChEBI	starch	-	hydrolysis
25007	28017 ChEBI	starch	-	energy source
25007	28017 ChEBI	starch	-	carbon source
25007	17992 ChEBI	sucrose	-	energy source
25007	17992 ChEBI	sucrose	-	carbon source
25007	27082 ChEBI	trehalose	+	energy source
25007	27082 ChEBI	trehalose	+	carbon source
25007	27897 ChEBI	tryptophan	-	energy source
25007	32528 ChEBI	turanose	-	energy source
25007	32528 ChEBI	turanose	-	carbon source
25007	53426 ChEBI	tween 80	-	hydrolysis
25007	17151 ChEBI	xylitol	-	energy source
25007	17151 ChEBI	xylitol	-	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
25007	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
25007	35581 ChEBI	indole	-

Enzymes

@ref	Value	Activity	Ec
25007	acid phosphatase	+	3.1.3.2
25007	alkaline phosphatase	-	3.1.3.1
25007	alpha-chymotrypsin	-	3.4.21.1
25007	alpha-fucosidase	-	3.2.1.51
25007	alpha-galactosidase	+	3.2.1.22
25007	alpha-glucosidase	+	3.2.1.20
25007	alpha-mannosidase	+	3.2.1.24
25007	beta-galactosidase	+	3.2.1.23
25007	beta-glucosidase	+	3.2.1.21
25007	beta-glucuronidase	-	3.2.1.31
25007	cystine arylamidase	+	3.4.11.3
25007	esterase (C 4)	+
25007	esterase lipase (C 8)	+
25007	leucine arylamidase	+	3.4.11.1
25007	lipase (C 14)	+
25007	N-acetyl-beta-glucosaminidase	+	3.2.1.52
25007	naphthol-AS-BI-phosphohydrolase	+
25007	trypsin	-	3.4.21.4
25007	tryptophan deaminase	-	4.1.99.1
25007	urease	-	3.5.1.5
25007	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature
25007	forest soil	Dinghushan Biosphere Reserve, Guangdong Province	China	CHN	Asia	1/10 TSB medium	per litre distilled water: 0.5g NaCl, 0.25g KH2PO4, 0.25g glucose, 1.7g casein peptone and 0.3g soya peptone; pH 7.0	7 days	28

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4264872v1 assembly for Dyella humi KCTC 42629	contig	GCA_042648725	1770547	73.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
25007	Dyella humi strain DHG40 16S ribosomal RNA gene, partial sequence	KP938953	1506		1770547

GC content

@ref	GC-content (mol%)	Method
25007	60.3	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: ASM4264872v1 assembly for Dyella humi KCTC 42629
NCBI: GCA_042648725

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.87	no
125439	gram_stain	BacteriaNetⓘ	negative	90.61	no
125439	motility	BacteriaNetⓘ	yes	69.30	no
125439	spore_formation	BacteriaNetⓘ	no	98.93	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Dyella acidisoli sp. nov., D. flagellata sp. nov. and D. nitratireducens sp. nov., isolated from forest soil.	Chen MH, Xia F, Lv YY, Zhou XY, Qiu LH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001716	2017
Phylogeny	Dyella humi sp. nov., isolated from forest soil.	Chen MH, Lv YY, Wang J, Tang L, Qiu LH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001358	2016

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 )
#25007	M. H. L. Chen, Y. Y.,Wang, J.,Tang, L.,Qiu, L. H.: Dyella humi sp. nov., isolated from forest soil. IJSEM 66: 4372 - 4376 2016 ( DOI 10.1099/ijsem.0.001358 , PubMed 27487774 )
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

Rate our new design

Content

About us

Dyella humi (DHG40, KCTC 42629, LMG 28842)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_042648725

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media