Saccharospirillum mangrovi (KCTC 62178, MCCC 1K03440, HK-33)

Name: Saccharospirillum mangrovi (KCTC 62178, MCCC 1K03440, HK-33)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159727

Type strain

Strain Designation HK-33

Culture col. no. KCTC 62178 MCCC 1K03440 HK-33

NCBI tax ID(s) 2161747

Special Collections KCTC Literature strains

Links

Saccharospirillum mangrovi HK-33 is an aerobe, mesophilic, Gram-negative prokaryote that forms circular colonies and was isolated from mangrove sediment sample.

Gram-negative motile spiral-shaped colony-forming aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 26154

KCTC 62178

@ref 20215

Last LPSN update 2025-12-16 10:08:19

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Saccharospirillaceae

Genus Saccharospirillum

Species Saccharospirillum mangrovi

Full scientific name Saccharospirillum mangrovi Zhang et al. 2018

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement
66635	negative	2.2-6.4 µm	0.3-0.4 µm	spiral-shaped	monotrichous, polar
125439	negative
125439
125438	negative

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
66635	0.5-1 mm	transparent	circular	1 day	Marine agar (MA) 2216

Culture and growth conditions

Culture medium

@ref	Name	Growth
66635	Marine agar (MA) 2216

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
66635	positive	optimum	37	mesophilic
66635	positive	growth	10-45
67771	positive	growth	37	mesophilic

Culture pH

@ref	Ability	Type	PH
66635	positive	optimum	7
66635	positive	growth	5.5-8.5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
66635	aerobe
67771	aerobe
125439	obligate aerobe

Spore formation

@ref	Spore formation
66635
125439
125438

Halophily

@ref	Salt	Growth	Tested relation	Concentration
66635	NaCl	positive	growth	0.5-12 %(w/v)
66635	NaCl	positive	optimum	2 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
66635	58143 ChEBI	5-dehydro-D-gluconate	+	builds acid from
66635	27613 ChEBI	amygdalin	+	builds acid from
66635	18305 ChEBI	arbutin	+	builds acid from
66635		casein	+	hydrolysis
66635	17057 ChEBI	cellobiose	+	builds acid from
66635	17108 ChEBI	D-arabinose	-	builds acid from
66635	18333 ChEBI	D-arabitol	+	builds acid from
66635	15824 ChEBI	D-fructose	+	builds acid from
66635	28847 ChEBI	D-fucose	-	builds acid from
66635	12936 ChEBI	D-galactose	+	builds acid from
66635	17634 ChEBI	D-glucose	+	builds acid from
66635	17634 ChEBI	D-glucose	-	fermentation
66635	62318 ChEBI	D-lyxose	-	builds acid from
66635	16899 ChEBI	D-mannitol	+	builds acid from
66635	16024 ChEBI	D-mannose	+	builds acid from
66635	16988 ChEBI	D-ribose	+	builds acid from
66635	17924 ChEBI	D-sorbitol	-	builds acid from
66635	16443 ChEBI	D-tagatose	-	builds acid from
66635	65327 ChEBI	D-xylose	+	builds acid from
66635	17113 ChEBI	erythritol	-	builds acid from
66635		esculin ferric citrate	+	builds acid from
66635	16813 ChEBI	galactitol	-	builds acid from
66635	5291 ChEBI	gelatin	-	hydrolysis
66635	28066 ChEBI	gentiobiose	-	builds acid from
66635	17234 ChEBI	glucose	-	fermentation
66635	17754 ChEBI	glycerol	-	builds acid from
66635	28087 ChEBI	glycogen	+	builds acid from
66635	15443 ChEBI	inulin	-	builds acid from
66635	30849 ChEBI	L-arabinose	-	builds acid from
66635	18403 ChEBI	L-arabitol	+	builds acid from
66635	18287 ChEBI	L-fucose	-	builds acid from
66635	62345 ChEBI	L-rhamnose	+	builds acid from
66635	17266 ChEBI	L-sorbose	-	builds acid from
66635	65328 ChEBI	L-xylose	-	builds acid from
66635	17716 ChEBI	lactose	+	builds acid from
66635	17306 ChEBI	maltose	+	builds acid from
66635	6731 ChEBI	melezitose	-	builds acid from
66635	28053 ChEBI	melibiose	+	builds acid from
66635	320061 ChEBI	methyl alpha-D-glucopyranoside	+	builds acid from
66635	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
66635	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
66635	17268 ChEBI	myo-inositol	+	builds acid from
66635	59640 ChEBI	N-acetylglucosamine	+	builds acid from
66635	17632 ChEBI	nitrate	+	reduction
66635		potassium 2-dehydro-D-gluconate	+	builds acid from
66635	16634 ChEBI	raffinose	-	builds acid from
66635	15963 ChEBI	ribitol	-	builds acid from
66635	17814 ChEBI	salicin	+	builds acid from
66635	28017 ChEBI	starch	+	builds acid from
66635	28017 ChEBI	starch	+	hydrolysis
66635	17992 ChEBI	sucrose	+	builds acid from
66635	27082 ChEBI	trehalose	+	builds acid from
66635	27897 ChEBI	tryptophan	-	energy source
66635	32528 ChEBI	turanose	+	builds acid from
66635	53424 ChEBI	tween 20	-	hydrolysis
66635	53423 ChEBI	tween 40	-	hydrolysis
66635	53425 ChEBI	tween 60	-	hydrolysis
66635	53426 ChEBI	tween 80	-	hydrolysis
66635	17151 ChEBI	xylitol	-	builds acid from

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.
66635	2637	Amikacin	30 µg (disc)
66635	2676	amoxicillin	20 µg (disc)
66635	28971	ampicillin	10 µg (disc)
66635	28669	bacitracin
66635	3393	carbenicillin	100 µg (disc)
66635	474053	cefazolin	30 µg (disc)
66635	209807	cefoxitin	30 µg (disc)
66635	3534	cephalexin	30 µg (disc)
66635	3547	cephradine	30 µg (disc)
66635	17698	chloramphenicol	30 µg (disc)
66635	100241	ciprofloxacin	5 µg (disc)
66635	3745	clindamycin
66635	50845	doxycycline
66635	48923	erythromycin	15 µg (disc)
66635	17833	gentamicin	10 µg (disc)
66635	6104	kanamycin	30 µg (disc)
66635	6472	lincomycin
66635	50694	minocycline	30 µg (disc)
66635	100147	nalidixic acid
66635	7507	neomycin	30 µg (disc)
66635	100246	norfloxacin	10 µg (disc)
66635	7660	nystatin
66635	7731	ofloxacin	5 µg (disc)
66635	7809	oxacillin
66635	18208	penicillin g	10 Unit (disc)
66635	8309	polymyxin b	300 Unit (disc)
66635	28077	rifampicin	5 µg (disc)
66635	17076	streptomycin	10 µg (disc)
66635	27902	tetracycline
66635	28001	vancomycin	30 µg (disc)

Metabolite production

@ref	Chebi-ID	Metabolite
66635	15688 ChEBI	acetoin
66635	16136 ChEBI	hydrogen sulfide
66635	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
66635	15688 ChEBI	acetoin	-
66635	17234 ChEBI	glucose
66635	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
66635	acid phosphatase	+	3.1.3.2
66635	alkaline phosphatase	+	3.1.3.1
66635	alpha-chymotrypsin	-	3.4.21.1
66635	alpha-fucosidase	-	3.2.1.51
66635	alpha-galactosidase	+	3.2.1.22
66635	alpha-glucosidase	+	3.2.1.20
66635	alpha-mannosidase	-	3.2.1.24
66635	beta-galactosidase	+	3.2.1.23
66635	beta-glucosidase	+	3.2.1.21
66635	beta-glucuronidase	-	3.2.1.31
66635	catalase	+	1.11.1.6
66635	cystine arylamidase	-	3.4.11.3
66635	cytochrome oxidase	+	1.9.3.1
66635	esterase (C 4)	+
66635	esterase Lipase (C 8)	+
66635	leucine arylamidase	+	3.4.11.1
66635	lipase (C 14)	-
66635	N-acetyl-beta-glucosaminidase	+	3.2.1.52
66635	naphthol-AS-BI-phosphohydrolase	+
66635	trypsin	-	3.4.21.4
66635	tryptophan deaminase	-	4.1.99.1
66635	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Mangrove
#Environmental	#Terrestrial	#Sediment
#Host	#Plants	#Tree

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
66635	mangrove sediment sample	2016-05	Haikou, Hainan province	China	CHN	Asia	19.9666	110.567 19.9666/110.567	marine broth 2216	solidified with 2.0 % agar	4 days	28	About 3.0 g mangrove sediment sample was diluted with MB and spread onto MA (200 µl diluted sample per plate). After 4 days of incubation at 28°C
67771	From Mangrove sediment in Haikou city		Hainan province	China	CHN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM336731v1 assembly for Saccharospirillum mangrovi HK-33	complete	GCA_003367315	2161747.4	2832912233	2161747	98.65
66792	ASM305477v1 assembly for Saccharospirillum mangrovi HK-33	scaffold	GCA_003054775	2161747.3	8118679686	2161747	56.41

Genome browser: GCA_003367315

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66635	Saccharospirillum mangrovi strain HK-33 16S ribosomal RNA gene, partial sequence	MF850374	1487		2161747

GC content

@ref	GC-content (mol%)	Method
66635	57.3	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Saccharospirillum mangrovi HK-33
IMG: 2832912233

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.60	no
125439	motility	BacteriaNetⓘ	yes	90.50	no
125439	gram_stain	BacteriaNetⓘ	negative	98.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Saccharospirillum mangrovi HK-33
NCBI: GCA_003367315.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.49	yes
125438	anaerobic	anaerobicⓘ	no	90.69	yes
125438	aerobic	aerobicⓘ	yes	78.98	yes
125438	spore-forming	spore-formingⓘ	no	91.63	yes
125438	thermophilic	thermophileⓘ	no	97.43	yes
125438	flagellated	motile2+ⓘ	yes	84.96	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete Genome Sequence of Saccharospirillum mangrovi HK-33(T) Sheds Light on the Ecological Role of a Bacterium in Mangrove Sediment Environment.	Zhang W, Zhou X, Yuan Y, Liu B, Epstein SS, He S	Curr Microbiol	10.1007/s00284-018-1600-3	2018
Phylogeny	Saccharospirillum alexandrii sp. nov., isolated from the toxigenic marine dinoflagellate Alexandrium catenella LZT09.	Yang Q, Jiang Z, Zhou X, Xie Z, Wang Y, Wang D, Feng L, Yang G, Ge Y, Zhang X	Int J Syst Evol Microbiol	10.1099/ijsem.0.003832	2020
Phylogeny	Saccharospirillum mangrovi sp. nov., a bacterium isolated from mangrove sediment.	Zhang W, Yuan Y, Su D, Ding L, Yan X, Wu M, Epstein SS, He S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002899	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 )
#66635	Weiyan Zhang, Ye Yuan, Dengquan Su, Lijian Ding, Xiaojun Yan, Min Wu, Slava S. Epstein, Shan He: Saccharospirillum mangrovi sp. nov., a bacterium isolated from mangrove sediment. IJSEM 68: 2813 - 2818 2018 ( DOI 10.1099/ijsem.0.002899 , PubMed 30016235 )
#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;
#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 .
#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 )

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Saccharospirillum mangrovi (KCTC 62178, MCCC 1K03440, HK-33)

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

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003367315

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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