Name: Lacinutrix himadriensis E4-9a
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133839

Type strain:

Species: Lacinutrix himadriensis

Strain Designation: E4-9a

Culture col. no.: CIP 110310, KCTC 23612

Strain history: CIP <- 2011, S. Shivaji, CCMB, Hyderabad, India: strain E4-9a

NCBI tax ID(s): 641549 (species)

SI-ID 387341

CIP 110310, KCTC 23612

Section

Lacinutrix himadriensis E4-9a is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from Environment, Brown clay-like sediment sticky with pebbles and vegetation.

coccus-shaped
Gram-negative
aerobe
psychrophilic
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Lacinutrix*
	Species	**Lacinutrix himadriensis**
	Full Scientific Name (LPSN)	Lacinutrix himadriensis Srinivas et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30640]	Gram stain	negative
[Ref.: #119901]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.982

[Ref.: #30640]	Cell length	1.1 µm

[Ref.: #30640]	Cell width	0.45 µm

[Ref.: #30640]	Cell shape	coccus-shaped
[Ref.: #119901]	Cell shape	rod-shaped

[Ref.: #30640]	Motility	no
[Ref.: #119901]	Motility	no

[Ref.: #30640]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37322]

Culture medium

Marine agar (MA)

[Ref.: #37322]

Culture medium growth

[Ref.: #37322]

Culture medium composition

expand / minimize

[Ref.: #119901]

Culture medium

CIP Medium 13

[Ref.: #119901]

Culture medium growth

[Ref.: #119901]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119901]

Culture medium

CIP Medium 72

[Ref.: #119901]

Culture medium growth

[Ref.: #119901]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #30640]	growth	04-20 °C
[Ref.: #30640]	optimum	18 °C
[Ref.: #37322]	growth	20 °C

[Ref.: #30640]	Temperature range	psychrophilic
[Ref.: #37322]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #30640]			optimum	7.5
[Ref.: #30640]			growth	05-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30640]

Oxygen tolerance

aerobe

[Ref.: #30640]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30640]		NaCl		growth	0-3	%
[Ref.: #30640]		NaCl		optimum	2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30640]	alanine ChEBI	+	carbon source
[Ref.: #30640]	arabinose ChEBI	+	carbon source
[Ref.: #30640]	aspartate ChEBI	+	carbon source
[Ref.: #30640]	D-tryptophan ChEBI	+	carbon source
[Ref.: #30640]	gluconate ChEBI	+	carbon source
[Ref.: #30640]	glucose ChEBI	+	carbon source
[Ref.: #30640]	glutamate ChEBI	+	carbon source
[Ref.: #30640]	histidine ChEBI	+	carbon source
[Ref.: #30640]	lactose ChEBI	+	carbon source
[Ref.: #30640]	maltose ChEBI	+	carbon source
[Ref.: #119901]	nitrate ChEBI	-	reduction
[Ref.: #119901]	nitrite ChEBI	-	reduction
[Ref.: #30640]	phenylalanine ChEBI	+	carbon source
[Ref.: #30640]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #119901]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #119901]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #30640]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #119901]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119901]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #119901]	12511	-	+	+	+	-	+	+	+	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #119901]	Sample type/isolated from	Environment, Brown clay-like sediment sticky with pebbles and vegetation
[Ref.: #119901]	Geographic location (country and/or sea, region)	Svalbard, Kongsfjord region
[Ref.: #119901]	Country	Norway
[Ref.: #119901]	Country ISO 3 Code	NOR
[Ref.: #119901]	Continent	Europe
[Ref.: #119901]	Isolation date	2008
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence FN377744 (>99% sequence identity) for Lacinutrix from Microbeatlas

Aquatic Samples	1156
Soil Samples	29
Animal Samples	57
Plant Samples	13
Total Samples	1255

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #119901]

Biosafety level

Risk group (French classification)

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.: #30640]	Lacinutrix himadriensis partial 16S rRNA gene, type strain E4-9aT	FN377744	1488	GenBank	641549 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Lacinutrix himadriensis E4-9a	GCA_001418105	contig	GenBank	641549 tax ID	*
[Ref.: #66792]	Lacinutrix himadriensis strain E4-9a	641549.4	wgs	PATRIC	641549 tax ID	*
[Ref.: #66792]	Lacinutrix himadriensis KCTC 23612	2713896817	draft	JGI IMG/M	641549 tax ID	*

[Ref.: #30640]

GC-content

29 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Lacinutrix himadriensis strain E4-9a PATRIC: 641549.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lacinutrix himadriensis strain E4-9a PATRIC: 641549.4
[Ref.: #69480]	gram-positive	no	98.297	yes
[Ref.: #69480]	anaerobic	no	99.509	yes
[Ref.: #69480]	halophile	no	72.159	no
[Ref.: #69480]	spore-forming	no	97.055	no
[Ref.: #69480]	glucose-util	yes	80.918	yes
[Ref.: #69480]	thermophile	no	99.641	no
[Ref.: #69480]	flagellated	no	95.165	yes
[Ref.: #69480]	aerobic	yes	94.859	no
[Ref.: #69480]	motile	no	88.75	no
[Ref.: #69480]	glucose-ferment	no	90.904	no

Availability in culture collections External links

[Ref.: #30640]

Culture collection no.

CIP 110310, KCTC 23612

[Ref.: #91615]

SI-ID 387341

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lacinutrix gracilariae sp. nov., isolated from the surface of a marine red alga Gracilaria sp.	Huang Z, Li G, Lai Q, Gu L, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.000755	2015	*
Phylogeny	Lacinutrix himadriensis sp. nov., a psychrophilic bacterium isolated from a marine sediment, and emended description of the genus Lacinutrix.	Srinivas TNR, Prasad S, Manasa P, Sailaja B, Begum Z, Shivaji S	Int J Syst Evol Microbiol	10.1099/ijs.0.040907-0	2012	*

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 )

#30640

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26971 (see below)

#37322 ; 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) .

#68382

Automatically annotated from API zym .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#91615

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID387341.1 )

#119901 Collection of Institut Pasteur ; Curators of the CIP; CIP 110310

#26971

IJSEM 729 2013 ( DOI 10.1099/ijs.0.040907-0 , PubMed 22561589 )

* These data were automatically processed and therefore are not curated

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Lacinutrix himadriensis strain E4-9a

Lacinutrix himadriensis strain E4-9a

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