Name: Ahniella affigens D13
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159867

Type strain:

Species: Ahniella affigens

Strain Designation: D13

Culture col. no.: KACC 19270, JCM 31634

Strain history: T.-Y. Ahn; Dept. of Microbiol., Coll. of Nat. Sci., Dankook Univ., South Korea; D13.

NCBI tax ID(s): 2021234 (species)

Special Collections

Section

When using BacDive for research please cite our paper

Ahniella affigens D13 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sandy soil from a stream.

Gram-negative
rod-shaped
aerobe
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Rhodanobacteraceae*
	Genus	*Ahniella*
	Species	**Ahniella affigens**
	Full Scientific Name (LPSN)	Ahniella affigens Hwang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66605]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %98

[Ref.: #66605]	Cell shape	rod-shaped

[Ref.: #66605]	Motility	no

[Ref.: #66605]	Colony color	yellow
[Ref.: #66605]	Incubation period	3 days
[Ref.: #66605]	Cultivation medium used	R2A medium

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

tryptic soy agar (TSA)

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Culture medium growth

	Kind of temperature		Temperature
[Ref.: #66605]		optimum	30 °C
[Ref.: #66605]	no	growth	40 °C
[Ref.: #66605]		growth	15-35 °C
[Ref.: #67770]		growth	30 °C

	pH	Kind of pH		pH
[Ref.: #66605]			optimum	7
[Ref.: #66605]			growth	6.5-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66605]	Oxygen tolerance	aerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %99.5

[Ref.: #125438]

Ability of spore formation

no Confidence in %91.262

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66605]		NaCl		growth	0.5	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66605]	carboxymethylcellulose ChEBI	+	hydrolysis
[Ref.: #66605]	casein	+	hydrolysis
[Ref.: #66605]	decanoate ChEBI	+/-	assimilation
[Ref.: #66605]	esculin ChEBI	-	hydrolysis
[Ref.: #66605]	fructose ChEBI	-	builds acid from
[Ref.: #66605]	gelatin ChEBI	+	hydrolysis
[Ref.: #66605]	glucose ChEBI	-	builds acid from
[Ref.: #66605]	maltose ChEBI	-	builds acid from
[Ref.: #66605]	mannitol ChEBI	-	builds acid from
[Ref.: #66605]	nitrate ChEBI	-	reduction
[Ref.: #66605]	sorbitol ChEBI	-	builds acid from
[Ref.: #66605]	starch ChEBI	+	hydrolysis
[Ref.: #66605]	sucrose ChEBI	-	builds acid from
[Ref.: #66605]	tween 80 ChEBI	+	hydrolysis
[Ref.: #66605]	tyrosine ChEBI	-	hydrolysis
[Ref.: #66605]	xylose ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66605]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66605]	acid phosphatase	-	3.1.3.2
[Ref.: #66605]	alanine arylamidase	+	3.4.11.2
[Ref.: #66605]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66605]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #66605]	alpha-fucosidase	-	3.2.1.51
[Ref.: #66605]	alpha-galactosidase	-	3.2.1.22
[Ref.: #66605]	alpha-glucosidase	-	3.2.1.20
[Ref.: #66605]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66605]	beta-galactosidase	-	3.2.1.23
[Ref.: #66605]	beta-glucosidase	-	3.2.1.21
[Ref.: #66605]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66605]	catalase	-	1.11.1.6
[Ref.: #66605]	cystine arylamidase	-	3.4.11.3
[Ref.: #66605]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66605]	esterase (C 4)	-
[Ref.: #66605]	esterase Lipase (C 8)	+/-
[Ref.: #66605]	leucine arylamidase	+	3.4.11.1
[Ref.: #66605]	lipase (C 14)	-
[Ref.: #66605]	N-acetyl-beta-glucosaminidase	+/-	3.2.1.52
[Ref.: #66605]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66605]	phenylalanine arylamidase	+
[Ref.: #66605]	proline-arylamidase	+	3.4.11.5
[Ref.: #66605]	trypsin	+	3.4.21.4
[Ref.: #66605]	valine arylamidase	+/-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66605]

Fatty acid	Percentage
C16:0 iso	35
C15:0 iso	16.5
C17:1 iso w9c / C16:0 10-methyl	12.9
C15:1 iso H / C13:0 3OH	8.2
C16:1 iso H	5.6
C11:0 iso 3OH	3.9
C11:0 iso	3.5
C14:0 iso	3.2
C16:1 w6c / C16:1 w7c	2.6
C17:0 iso	2.6
C18:0 iso	0.7
C10:0 iso	0.6
C18:1 w7c / C18:1 w6c	0.5
C12:0 iso	0.5

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

[Ref.: #66605]	Sample type/isolated from	sandy soil from a stream
[Ref.: #66605]	Geographic location (country and/or sea, region)	Sinan-gun
[Ref.: #66605]	Country	Republic of Korea
[Ref.: #66605]	Country ISO 3 Code	KOR
[Ref.: #66605]	Continent	Asia
[Ref.: #66605]	Geographic location	34.9500°/126.1330°
[Ref.: #66605]	Enrichment culture	R2A agar
[Ref.: #66605]	Enrichment culture duration	5 days
[Ref.: #66605]	Enrichment culture temperature	30 ̊C

[Ref.: #67770]	Sample type/isolated from	Sandy soil from a stream in Sinan-gun
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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.: #66605]	Ahniella affigens strain D13 16S ribosomal RNA gene, partial sequence	KY649437	1476	GenBank ENA	2021234 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ahniella affigens D13	GCA_003015185	complete	GenBank ENA	2021234 tax ID	*
[Ref.: #66792]	Xanthomonadales bacterium D13	2021234.3	complete	PATRIC	2021234 tax ID	*
[Ref.: #66792]	Ahniella affigens D13	2833611726	complete	JGI IMG/M	2021234 tax ID	*

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GC-content

57.70 mol%

high performance liquid chromatography (HPLC)

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: Ahniella affigens D13 NCBI: GCA_003015185.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	98	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	95.206	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	84.509	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	91.262	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97.399	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	61.426	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Xanthomonadales bacterium D13 PATRIC: 2021234.3
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	85.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	60.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	68.5
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	99.5

Availability in culture collections External links

[Ref.: #66605]

Culture collection no.

KACC 19270, JCM 31634

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ahniella affigens gen. nov., sp. nov., a gammaproteobacterium isolated from sandy soil near a stream.	Hwang WM, Ko Y, Kim JH, Kang K	Int J Syst Evol Microbiol	10.1099/ijsem.0.002859	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 )

#66605

Woon Mo Hwang, Yongseok Ko, Jae-Heon Kim and Keunsoo Kang: Ahniella affigens gen. nov., sp. nov., a gammaproteobacterium isolated from sandy soil near a stream. IJSEM 68: 2478 - 2484 2018 ( DOI 10.1099/ijsem.0.002859 , PubMed 29923816 )

#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) .

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

#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 .

* These data were automatically processed and therefore are not curated

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Ahniella affigens D13

Xanthomonadales bacterium D13

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