Name: Shewanella intestini XMDDZSB0408
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140484

Type strain:

Species: Shewanella intestini

Strain Designation: XMDDZSB0408

Culture col. no.: KCTC 52125, MCCC 1A01895

Strain history: <- Zhaobin Huang, Third institue of Oceanography, State Oceanic Administraion(SOA), China

NCBI tax ID(s): 2017544 (species)

Section

Shewanella intestini XMDDZSB0408 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from intestine of adult abalone H. divesicolor.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Alteromonadales*
	Family	*Shewanellaceae*
	Genus	*Shewanella*
	Species	**Shewanella intestini**
	Full Scientific Name (LPSN)	Shewanella intestini Gai et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43246]	Gram stain	negative

[Ref.: #43246]	Cell length	1.7-4 µm

[Ref.: #43246]	Cell width	0.5-0.7 µm

[Ref.: #43246]	Cell shape	rod-shaped

[Ref.: #43246]	Motility	yes

[Ref.: #43246]	Flagellum arrangement	monotrichous, polar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43246]

Culture medium

Luria Bertani (LB) medium

[Ref.: #43246]

Culture medium growth

[Ref.: #43246]

Culture medium

Marine Broth 2216 (BD)

[Ref.: #43246]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #67771]			growth	25 °C

[Ref.: #67771]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #43246]			optimum	7-8
[Ref.: #43246]			growth	7-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43246]		NaCl		growth	3-6	%(w/v)
[Ref.: #43246]		NaCl		optimum	5	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43246]	adipate ChEBI	-	carbon source
[Ref.: #43246]	amygdalin ChEBI	-	fermentation
[Ref.: #43246]	arabinose ChEBI	-	fermentation
[Ref.: #43246]	citrate ChEBI	-	carbon source
[Ref.: #43246]	D-glucose ChEBI	-	carbon source
[Ref.: #43246]	D-mannitol ChEBI	-	carbon source
[Ref.: #43246]	D-mannose ChEBI	-	carbon source
[Ref.: #43246]	decanoate ChEBI	-	carbon source
[Ref.: #43246]	esculin ChEBI	+	hydrolysis
[Ref.: #43246]	gelatin ChEBI	+	hydrolysis
[Ref.: #43246]	L-arabinose ChEBI	-	carbon source
[Ref.: #43246]	malate ChEBI	-	carbon source
[Ref.: #43246]	maltose ChEBI	-	carbon source
[Ref.: #43246]	mannitol ChEBI	-	fermentation
[Ref.: #43246]	melibiose ChEBI	-	fermentation
[Ref.: #43246]	myo-inositol ChEBI	-	fermentation
[Ref.: #43246]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #43246]	nitrate ChEBI	+	reduction
[Ref.: #43246]	phenylacetate ChEBI	-	carbon source
[Ref.: #43246]	potassium gluconate ChEBI	-	carbon source
[Ref.: #43246]	rhamnose ChEBI	-	fermentation
[Ref.: #43246]	sodium citrate ChEBI	-	carbon source
[Ref.: #43246]	sorbitol ChEBI	-	fermentation
[Ref.: #43246]	sucrose ChEBI	-	fermentation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43246]	acetoin ChEBI	no
[Ref.: #43246]	hydrogen sulfide ChEBI	no
[Ref.: #43246]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Citrate test
[Ref.: #43246]		acetoin ChEBI	-
[Ref.: #43246]		citrate ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #43246]	acid phosphatase	+	3.1.3.2
[Ref.: #43246]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43246]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43246]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43246]	alpha-glucosidase	-	3.2.1.20
[Ref.: #43246]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43246]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43246]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #43246]	beta-glucosidase	-	3.2.1.21
[Ref.: #43246]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43246]	catalase	-	1.11.1.6
[Ref.: #43246]	cystine arylamidase	-	3.4.11.3
[Ref.: #43246]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43246]	esterase (C 4)	+
[Ref.: #43246]	esterase Lipase (C 8)	+
[Ref.: #43246]	gelatinase	-
[Ref.: #43246]	leucine arylamidase	+	3.4.11.1
[Ref.: #43246]	lipase (C 14)	-
[Ref.: #43246]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43246]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43246]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #43246]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #43246]	trypsin	+	3.4.21.4
[Ref.: #43246]	tryptophan deaminase	-	4.1.99.1
[Ref.: #43246]	urease	-	3.5.1.5
[Ref.: #43246]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43246]

Fatty acid	Percentage
C16:0	18.8
C16:1ω7c / C16:1ω6c	16.3
C18:0	10.7
C18:1ω7c / C18:1ω6c	10.3
C12:0	7.2
C14:0	6

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

[Ref.: #43246]	Sample type/isolated from	intestine of adult abalone H. divesicolor
[Ref.: #43246]	Geographic location (country and/or sea, region)	abalone breeding and production farm, Dadeng Island, Xiamen, coast of Fujian province
[Ref.: #43246]	Country	China
[Ref.: #43246]	Country ISO 3 Code	CHN
[Ref.: #43246]	Continent	Asia
[Ref.: #43246]	Enrichment culture	Marine Broth 2216 (BD) with Agar (BD)
[Ref.: #43246]	Enrichment culture duration	5 days
[Ref.: #43246]	Enrichment culture temperature	25 ̊C
[Ref.: #43246]	Isolation/enrichment procedure	traditional culture-dependent method

[Ref.: #67771]	Sample type/isolated from	From the intestine of small abalone
[Ref.: #67771]	Geographic location (country and/or sea, region)	Haliotis diversicolor, collected from Dadeng island, Xiamen, Fujian Province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Invertebrates (Other)	#Mollusca
#Host Body-Site	#Gastrointestinal tract	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU663649 (>99% sequence identity) for Shewanella intestini subclade from Microbeatlas

Aquatic Samples	110
Soil Samples	11
Animal Samples	121
Plant Samples	8
Total Samples	250

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.: #43246]	Shewanella sp. strain XMDDZSB0408 16S ribosomal RNA gene, partial sequence	KU663649	1411	GenBank	2017544 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Shewanella sp. XMDDZSB0408	2664453.3	wgs	PATRIC	2664453 tax ID	*

[Ref.: #43246]

GC-content

41.4 mol%

genome sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Shewanella sp. XMDDZSB0408 PATRIC: 2664453.3
[Ref.: #69480]	motile	yes	90.181	yes
[Ref.: #69480]	gram-positive	no	99.041	yes
[Ref.: #69480]	anaerobic	no	95.518	no
[Ref.: #69480]	aerobic	no	59.515	yes
[Ref.: #69480]	halophile	yes	61.414	no
[Ref.: #69480]	spore-forming	no	94.208	no
[Ref.: #69480]	glucose-util	yes	86.027	no
[Ref.: #69480]	flagellated	yes	89.092	yes
[Ref.: #69480]	thermophile	no	98.582	yes
[Ref.: #69480]	glucose-ferment	no	70.563	no

Availability in culture collections External links

[Ref.: #43246]

Culture collection no.

KCTC 52125, MCCC 1A01895

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella intestini sp. nov., isolated from the intestine of abalone, Haliotis diversicolor.	Gai Y, Huang Z, Lai Q, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001878	2017	*
Phylogeny	Shewanella maritima sp. nov., a facultative anaerobic marine bacterium isolated from seawater, and emended description of Shewanella intestini.	Bae SS, Jung YH, Baek K	Int J Syst Evol Microbiol	10.1099/ijsem.0.003916	2020	*

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 )

#43246

Yingbao Gai, Zhaobin Huang, Qiliang Lai, Zongze Shao: Shewanella intestini sp. nov., isolated from the intestine of abalone, Haliotis diversicolor. IJSEM 67: 1901 - 1905 2017 ( DOI 10.1099/ijsem.0.001878 , PubMed 28629494 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

* These data were automatically processed and therefore are not curated

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Shewanella sp. XMDDZSB0408

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