Streptomyces phyllanthi (PA1-07, JCM 30865, KCTC 39785)

Name: Streptomyces phyllanthi (PA1-07, JCM 30865, KCTC 39785)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133132

Type strain

Strain Designation PA1-07

Culture col. no. PA1-07 JCM 30865 KCTC 39785 TISTR 2346 DSM 117319

NCBI tax ID(s) 1803180

Special Collections JCM KCTC Literature strains

Links

Streptomyces phyllanthi PA1-07 is an aerobe, spore-forming, Gram-positive prokaryote that was isolated from stem of Phyllanthus amarus.

spore-forming Gram-positive aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 281863

DSM 117319,KCTC 39785,JCM 30865

@ref 20215

Last LPSN update 2025-12-16 10:01:41

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces phyllanthi

Full scientific name Streptomyces phyllanthi Klykleung et al. 2016

Morphology

Cell morphology

@ref	Gram stain
24894	positive
125439	positive
125439

Multimedia

@ref:	125195
multimedia content:	DSM_117319.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_117319.jpg
caption:	Medium 65 28°C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth
24894	Yeast extract-malt extract agar (ISP2)
24894	Inorganic salts-starch agar (ISP4)
24894	Oatmeal agar (ISP3)
24894	Glycerol-asparagine agar (ISP5)
24894	Peptone Yeast Extract Iron Agar (ISP6)
24894	Tyrosine Agar (ISP7)
24894	NA (Nutrient Agar)
125195	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
125195	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)

Culture temp

@ref	Growth	Type	Temperature (°C)
24894	positive	growth	20.0-40.0
67770	positive	growth	28
67771	positive	growth	28
125195	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
24894	positive	growth	5.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
24894	aerobe
67771	aerobe
125439	obligate aerobe

Spore formation

@ref	Spore description	Type of spore	Spore formation
24894	ovule,rugose surface	spore
125438

Halophily

@ref	Salt	Growth	Tested relation	Concentration
24894	NaCl		growth	>5.0 %(w/v)

Observation

67770

Observationquinones: MK-9(H₄), MK-9(H₆), MK-9(H₈)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
24894	17057 ChEBI	cellobiose	+	assimilation
24894	16899 ChEBI	D-mannitol	+	assimilation
24894	65327 ChEBI	D-xylose	+	assimilation
24894	28757 ChEBI	fructose	+	assimilation
24894	28260 ChEBI	galactose	+	assimilation
24894	17234 ChEBI	glucose	+	assimilation
24894	30849 ChEBI	L-arabinose	+	assimilation
24894	62345 ChEBI	L-rhamnose	+	assimilation
24894	17268 ChEBI	myo-inositol	+	assimilation
24894	17632 ChEBI	nitrate	+	reduction
24894	16634 ChEBI	raffinose	+	assimilation
24894	33942 ChEBI	ribose	-	assimilation
24894	17814 ChEBI	salicin	-	assimilation
24894	17992 ChEBI	sucrose	-	assimilation

Enzymes

@ref	Value	Activity	Ec
24894	acid phosphatase	+	3.1.3.2
24894	alkaline phosphatase	+	3.1.3.1
24894	alpha-chymotrypsin	+	3.4.21.1
24894	alpha-galactosidase	-	3.2.1.22
24894	alpha-glucosidase	+	3.2.1.20
24894	alpha-mannosidase	+	3.2.1.24
24894	beta-galactosidase	+	3.2.1.23
24894	beta-glucosidase	+	3.2.1.21
24894	beta-glucuronidase	-	3.2.1.31
24894	cystine arylamidase	+	3.4.11.3
24894	esterase (C 4)	+
24894	esterase lipase (C 8)	+
24894	leucine arylamidase	+	3.4.11.1
24894	lipase (C 14)	-
24894	N-acetyl-beta-glucosaminidase	+	3.2.1.52
24894	naphthol-AS-BI-phosphohydrolase	+
24894	trypsin	+	3.4.21.4
24894	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Stem (Branch)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
24894	stem of Phyllanthus amarus	botanical garden of the Faculty of Pharmaceutical Sciences,Chulalongkorn University,Bangkok	Thailand	THA	Asia
67770	Stem of Phyllanthus amarus		Thailand	THA	Asia
67771	From stem of plant (Phyllanthus amarus, Euphobiaceae)	Bangkok	Thailand	THA	Asia
125195	stem of Phyllanthus amarus	Chulalongkorn University	Thailand	THA	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
125195	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4268506v1 assembly for Streptomyces phyllanthi TISTR 2346	scaffold	GCA_042685065	1803180	57.09
124043	ASM3954023v1 assembly for Streptomyces phyllanthi JCM 30865	scaffold	GCA_039540235	1803180	23.81
67770	ASM937720v1 assembly for Streptomyces phyllanthi TISTR 2346	contig	GCA_009377205	1803180

Genome browser: GCA_042685065

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24894	Streptomyces phyllanthi gene for 16S ribosomal RNA, partial sequence	LC125632	1462		1803180

GC content

@ref	GC-content (mol%)	Method
24894	71	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: Streptomyces phyllanthi TISTR 2346
NCBI: GCA_009377205

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	88.00	no
125439	motility	BacteriaNetⓘ	no	91.20	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces phyllanthi strain TISTR 2346
PATRIC: 1803180.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	85.31	no
125438	anaerobic	anaerobicⓘ	no	97.07	no
125438	spore-forming	spore-formingⓘ	yes	93.75	yes
125438	aerobic	aerobicⓘ	yes	87.33	yes
125438	thermophilic	thermophileⓘ	no	97.40	yes
125438	flagellated	motile2+ⓘ	no	87.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptomyces blattellae, a novel actinomycete isolated from the in vivo of a Blattella germanica.	Liu GM, Yuan LL, Zhang LL, Zeng H	Antonie Van Leeuwenhoek	10.1007/s10482-021-01681-w	2021
Phylogeny	Streptomyces acidicola sp. nov., isolated from a peat swamp forest in Thailand.	Lipun K, Chantavorakit T, Mingma R, Duangmal K	J Antibiot (Tokyo)	10.1038/s41429-020-0294-5	2020
Phylogeny	Streptomyces phyllanthi sp. nov., isolated from the stem of Phyllanthus amarus.	Klykleung N, Phongsopitanun W, Pittayakhajonwut P, Ohkuma M, Kudo T, Tanasupawat S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001289	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 )
#24894	N. P. Klykleung, Wongsakorn,Pittayakhajonwut, Pattama,Ohkuma, Moriya,Kudo, Takuji,Tanasupawat, Somboon: Streptomyces phyllanthi sp. nov., isolated from the stem of Phyllanthus amarus. IJSEM 66: 3923 - 3928 2016 ( DOI 10.1099/ijsem.0.001289 , PubMed 27393329 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125195	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 117319
#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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Streptomyces phyllanthi (PA1-07, JCM 30865, KCTC 39785)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042685065

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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