Sphingobium chlorophenolicum (DSM 6824, ATCC 39723, ATCC 53874)

Name: Sphingobium chlorophenolicum (DSM 6824, ATCC 39723, ATCC 53874)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 14173

Type strain

Culture col. no. DSM 6824 ATCC 39723 ATCC 53874

NCBI tax ID(s) 690566 46429

Special Collections DSMZ

History <- E. Topp <- R. L. Crawford

Links

Sphingobium chlorophenolicum DSM 6824 is a mesophilic prokaryote of the family Sphingomonadaceae.

mesophilic 16S sequence

Name and taxonomic classification

SI-ID 92571

LMG 17554,ATCC 39723,ATCC 53874,DSM 6824,DSM 6965,NCIMB 12722,KCTC 2642,ICMP 12596

@ref 20215

Last LPSN update 2026-02-09 11:21:21

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Sphingomonadaceae

Genus Sphingobium

Species Sphingobium chlorophenolicum

Full scientific name Sphingobium chlorophenolicum (Nohynek et al. 1996) Takeuchi et al. 2001

Synonyms (1)

Sphingomonas chlorophenolica

BacDive ID	Other strains from **Sphingobium chlorophenolicum** (2)	Type strain
14174	S. chlorophenolicum DSM 7098, ATCC 33790, CIP 104885, IFO 16172, ... (type strain)
14175	S. chlorophenolicum ID 93-106, RA2, DSM 8671

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
2840	MINERAL MEDIUM WITH PCP (DSMZ Medium 465b)	Medium recipe at MediaDive	Name: MINERAL MEDIUM WITH PCP (DSMZ Medium 465b; with strain-specific modifications) Composition: Na2HPO4 x 2 H2O 3.15 g/l Na glutamate 2.0 g/l KH2PO4 0.9 g/l (NH4)2SO4 0.45 g/l Pentachlorophenol 0.1 g/l MgCl2 x 6 H2O 0.09 g/l Ca(NO3)2 x 4 H2O 0.045 g/l NaOH 0.039997 g/l EDTA 0.00045 g/l FeSO4 x 7 H2O 0.00018 g/l H3BO3 2.7e-05 g/l CoCl2 x 6 H2O 1.8e-05 g/l ZnSO4 x 7 H2O 9e-06 g/l Na2MoO4 x 2 H2O 2.7e-06 g/l MnCl2 x 4 H2O 2.7e-06 g/l NiCl2 x 6 H2O 1.8e-06 g/l CuCl2 x 2 H2O 9e-07 g/l Distilled water
2840	HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428)	Medium recipe at MediaDive	Name: HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428) Composition: Agar 19.802 g/l Na2HPO4 x 2 H2O 2.87129 g/l KH2PO4 2.27723 g/l D-Glucose 1.9802 g/l Na-lactate 0.990099 g/l Na-pyruvate 0.990099 g/l D-Mannitol 0.990099 g/l DL-Malate 0.990098 g/l Na-acetate 0.990098 g/l Yeast extract 0.990098 g/l NH4Cl 0.990098 g/l Disodium succinate 0.990098 g/l MgSO4 x 7 H2O 0.495049 g/l Ferric ammonium citrate 0.049505 g/l CaCl2 x 2 H2O 0.00990098 g/l NaVO3 x H2O 0.00495049 g/l Thiamine-HCl x 2 H2O 0.00247525 g/l Nicotinic acid 0.00247525 g/l Pyridoxine hydrochloride 0.00247525 g/l Calcium pantothenate 0.00247525 g/l H3BO3 0.00148515 g/l CoCl2 x 6 H2O 0.000990099 g/l Riboflavin 0.00049505 g/l ZnSO4 x 7 H2O 0.00049505 g/l MnCl2 x 4 H2O 0.000148515 g/l Na2MoO4 x 2 H2O 0.000148515 g/l NiCl2 x 6 H2O 9.90099e-05 g/l CuCl2 x 2 H2O 4.95049e-05 g/l Vitamin B12 4.95049e-05 g/l Folic acid 9.90099e-06 g/l Biotin 4.9505e-06 g/l Distilled water
2840	PLATE COUNT AGAR (DSMZ Medium 464)	Medium recipe at MediaDive	Name: PLATE COUNT AGAR (DSMZ Medium 464) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 2.5 g/l Dextrose 1.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
2840	positive	growth	30	mesophilic

Physiology and metabolism

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68369	gelatinase	-		from API 20NE
68369	urease	-	3.5.1.5	from API 20NE

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	gluconeogenesis	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	biotin biosynthesis	100	4 of 4
66794	Entner Doudoroff pathway	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	gallate degradation	100	5 of 5
66794	resorcinol degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	valine metabolism	100	9 of 9
66794	folate polyglutamylation	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	sulfopterin metabolism	100	4 of 4
66794	quinate degradation	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	vitamin B12 metabolism	91.18	31 of 34
66794	propionate fermentation	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	3-phenylpropionate degradation	86.67	13 of 15
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	methionine metabolism	84.62	22 of 26
66794	leucine metabolism	84.62	11 of 13
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	phenol degradation	80	16 of 20
66794	3-chlorocatechol degradation	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	4-hydroxyphenylacetate degradation	80	8 of 10
66794	alanine metabolism	79.31	23 of 29
66794	serine metabolism	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	butanoate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	lactate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	toluene degradation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	pentose phosphate pathway	72.73	8 of 11
66794	proline metabolism	72.73	8 of 11
66794	d-xylose degradation	72.73	8 of 11
66794	propanol degradation	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	vitamin B1 metabolism	69.23	9 of 13
66794	purine metabolism	69.15	65 of 94
66794	pyrimidine metabolism	68.89	31 of 45
66794	non-pathway related	68.42	26 of 38
66794	tryptophan metabolism	68.42	26 of 38
66794	degradation of sugar acids	68	17 of 25
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	nitrate assimilation	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	sulfoquinovose degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	glycolysis	64.71	11 of 17
66794	glutathione metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	vitamin B6 metabolism	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	lipid metabolism	61.29	19 of 31
66794	myo-inositol biosynthesis	60	6 of 10
66794	vitamin K metabolism	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	carotenoid biosynthesis	59.09	13 of 22
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	degradation of sugar alcohols	56.25	9 of 16
66794	histidine metabolism	55.17	16 of 29
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	sulfate reduction	53.85	7 of 13
66794	polyamine pathway	52.17	12 of 23
66794	pantothenate biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	cyclohexanol degradation	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	carnitine metabolism	50	4 of 8
66794	oxidative phosphorylation	45.05	41 of 91
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	degradation of pentoses	42.86	12 of 28
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	glycine metabolism	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	degradation of hexoses	38.89	7 of 18
66794	urea cycle	38.46	5 of 13
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	cyanate degradation	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	starch degradation	30	3 of 10
66794	vitamin E metabolism	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	daunorubicin biosynthesis	22.22	2 of 9

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
2840	-	-	-	-	-	+	-	+	+	-	-	-	-	-	-	-	-	-	-	-	+/-

Isolation, sampling and environmental information

Isolation

@ref	Country	Country ISO 3 Code	Continent
2840	USA	USA	North America

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2840	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Sphingobium chlorophenolicum 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	GQ907182	621		46429
20218	Sphingomonas flava strain ATCC 39723 16S rRNA gene, partial sequence	U60172	1033		690566

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Degradation strategies of pesticide residue: From chemicals to synthetic biology.	Ruomeng B, Meihao O, Siru Z, Shichen G, Yixian Z, Junhong C, Ruijie M, Yuan L, Gezhi X, Xingyu C, Shiyi Z, Aihui Z, Baishan F.	Synth Syst Biotechnol	10.1016/j.synbio.2023.03.005	2023
	An Intelligent Synthetic Bacterium for Chronological Toxicant Detection, Biodegradation, and Its Subsequent Suicide.	Liu H, Zhang L, Wang W, Hu H, Ouyang X, Xu P, Tang H.	Adv Sci (Weinh)	10.1002/advs.202304318	2023
Metabolism	The whole genome sequence of Sphingobium chlorophenolicum L-1: insights into the evolution of the pentachlorophenol degradation pathway.	Copley SD, Rokicki J, Turner P, Daligault H, Nolan M, Land M.	Genome Biol Evol	10.1093/gbe/evr137	2012
Metabolism	Sequestration of a highly reactive intermediate in an evolving pathway for degradation of pentachlorophenol.	Yadid I, Rudolph J, Hlouchova K, Copley SD.	Proc Natl Acad Sci U S A	10.1073/pnas.1214052110	2013
Enzymology	S-glutathionyl-(chloro)hydroquinone reductases: a new class of glutathione transferases functioning as oxidoreductases.	Belchik SM, Xun L.	Drug Metab Rev	10.3109/03602532.2011.552909	2011
	The Catalytic Product of Pentachlorophenol 4-Monooxygenase is Tetra-chlorohydroquinone rather than Tetrachlorobenzoquinone.	Su Y, Chen L, Bandy B, Yang J.	Open Microbiol J	10.2174/1874285800802010100	2008
Enzymology	Identification of the novel hcbB operon catalyzing the dechlorination of pentachlorophenol in the Gram-positive bacterium Nocardioides sp. strain PD653.	Ito K, Takagi K, Matsushima Y, Iwasaki A, Tanaka N, Kanesaki Y, Martin-Laurent Martin-Laurent FF, Igimi S.	J Pestic Sci	10.1584/jpestics.d17-089	2018
Metabolism	A previously unrecognized step in pentachlorophenol degradation in Sphingobium chlorophenolicum is catalyzed by tetrachlorobenzoquinone reductase (PcpD).	Dai M, Rogers JB, Warner JR, Copley SD.	J Bacteriol	10.1128/jb.185.1.302-310.2003	2003
	Biochemical characterization of the tetrachlorobenzoquinone reductase involved in the biodegradation of pentachlorophenol.	Chen L, Yang J.	Int J Mol Sci	10.3390/ijms9030198	2008
Metabolism	Pentachlorophenol hydroxylase, a poorly functioning enzyme required for degradation of pentachlorophenol by Sphingobium chlorophenolicum.	Hlouchova K, Rudolph J, Pietari JM, Behlen LS, Copley SD.	Biochemistry	10.1021/bi300261p	2012
Metabolism	Evidence for natural horizontal transfer of the pcpB gene in the evolution of polychlorophenol-degrading sphingomonads.	Tiirola MA, Wang H, Paulin L, Kulomaa MS.	Appl Environ Microbiol	10.1128/aem.68.9.4495-4501.2002	2002
Metabolism	Aerobic mineralization of hexachlorobenzene by newly isolated pentachloronitrobenzene-degrading Nocardioides sp. strain PD653.	Takagi K, Iwasaki A, Kamei I, Satsuma K, Yoshioka Y, Harada N.	Appl Environ Microbiol	10.1128/aem.02329-08	2009
Metabolism	Identification and characterization of genes involved in the downstream degradation pathway of gamma-hexachlorocyclohexane in Sphingomonas paucimobilis UT26.	Endo R, Kamakura M, Miyauchi K, Fukuda M, Ohtsubo Y, Tsuda M, Nagata Y.	J Bacteriol	10.1128/jb.187.3.847-853.2005	2005
	Identification of the hcb Gene Operon Involved in Catalyzing Aerobic Hexachlorobenzene Dechlorination in Nocardioides sp. Strain PD653.	Ito K, Takagi K, Iwasaki A, Tanaka N, Kanesaki Y, Martin-Laurent F, Igimi S.	Appl Environ Microbiol	10.1128/aem.00824-17	2017
	Diuron degradation by bacteria from soil of sugarcane crops.	Egea TC, da Silva R, Boscolo M, Rigonato J, Monteiro DA, Grunig D, da Silva H, van der Wielen F, Helmus R, Parsons JR, Gomes E.	Heliyon	10.1016/j.heliyon.2017.e00471	2017
	S-Glutathionyl-(chloro)hydroquinone reductases: a novel class of glutathione transferases.	Xun L, Belchik SM, Xun R, Huang Y, Zhou H, Sanchez E, Kang C, Board PG.	Biochem J	10.1042/bj20091863	2010
Phylogeny	Isolation and characterization of Novosphingobium sp. strain MT1, a dominant polychlorophenol-degrading strain in a groundwater bioremediation system.	Tiirola MA, Mannisto MK, Puhakka JA, Kulomaa MS.	Appl Environ Microbiol	10.1128/aem.68.1.173-180.2002	2002
Enzymology	Evolution of efficient pathways for degradation of anthropogenic chemicals.	Copley SD.	Nat Chem Biol	10.1038/nchembio.197	2009
Metabolism	Bacterial degradation of chlorophenols and their derivatives.	Arora PK, Bae H.	Microb Cell Fact	10.1186/1475-2859-13-31	2014
Metabolism	Plant-associated bacterial degradation of toxic organic compounds in soil.	McGuinness M, Dowling D.	Int J Environ Res Public Health	10.3390/ijerph6082226	2009
Metabolism	Efficient degradation of 2,4,6-Trichlorophenol requires a set of catabolic genes related to tcp genes from Ralstonia eutropha JMP134(pJP4).	Matus V, Sanchez MA, Martinez M, Gonzalez B.	Appl Environ Microbiol	10.1128/aem.69.12.7108-7115.2003	2003
Metabolism	Dynamics of multiple lin gene expression in Sphingomonas paucimobilis B90A in response to different hexachlorocyclohexane isomers.	Suar M, van der Meer JR, Lawlor K, Holliger C, Lal R.	Appl Environ Microbiol	10.1128/aem.70.11.6650-6656.2004	2004
Metabolism	Roles of the enantioselective glutathione S-transferases in cleavage of beta-aryl ether.	Masai E, Ichimura A, Sato Y, Miyauchi K, Katayama Y, Fukuda M.	J Bacteriol	10.1128/jb.185.6.1768-1775.2003	2003
Enzymology	The enzymatic basis for pesticide bioremediation.	Scott C, Pandey G, Hartley CJ, Jackson CJ, Cheesman MJ, Taylor MC, Pandey R, Khurana JL, Teese M, Coppin CW, Weir KM, Jain RK, Lal R, Russell RJ, Oakeshott JG.	Indian J Microbiol	10.1007/s12088-008-0007-4	2008
Metabolism	Biochemistry of microbial degradation of hexachlorocyclohexane and prospects for bioremediation.	Lal R, Pandey G, Sharma P, Kumari K, Malhotra S, Pandey R, Raina V, Kohler HP, Holliger C, Jackson C, Oakeshott JG.	Microbiol Mol Biol Rev	10.1128/mmbr.00029-09	2010
Metabolism	Genetic analysis of phenoxyalkanoic acid degradation in Sphingomonas herbicidovorans MH.	Muller TA, Byrde SM, Werlen C, van der Meer JR, Kohler HP.	Appl Environ Microbiol	10.1128/aem.70.10.6066-6075.2004	2004
	Genome-Wide Analysis of Transcriptional Changes and Genes That Contribute to Fitness during Degradation of the Anthropogenic Pollutant Pentachlorophenol by Sphingobium chlorophenolicum.	Flood JJ, Copley SD.	mSystems	10.1128/msystems.00275-18	2018
	Cyclodextrin-Based Polymer-Supported Bacterium for the Adsorption and in-situ Biodegradation of Phenolic Compounds.	Karoyo AH, Yang J, Wilson LD.	Front Chem	10.3389/fchem.2018.00403	2018
Metabolism	Complex function by design using spatially pre-structured synthetic microbial communities: degradation of pentachlorophenol in the presence of Hg(ii).	Kim HJ, Du W, Ismagilov RF.	Integr Biol (Camb)	10.1039/c0ib00019a	2011
Phylogeny	16S-23S rRNA Gene Intergenic Spacer Region Variability Helps Resolve Closely Related Sphingomonads.	Tokajian S, Issa N, Salloum T, Ibrahim J, Farah M.	Front Microbiol	10.3389/fmicb.2016.00149	2016
Metabolism	McbG, a LysR Family Transcriptional Regulator, Activates the mcbBCDEF Gene Cluster Involved in the Upstream Pathway of Carbaryl Degradation in Pseudomonas sp. Strain XWY-1.	Ke Z, Zhou Y, Jiang W, Zhang M, Wang H, Ren Y, Qiu J, Cheng M, Hong Q	Appl Environ Microbiol	10.1128/AEM.02970-20	2021
Metabolism	Roles of Two Glutathione-Dependent 3,6-Dichlorogentisate Dehalogenases in Rhizorhabdus dicambivorans Ndbn-20 in the Catabolism of the Herbicide Dicamba.	Li N, Tong RL, Yao L, Chen Q, Yan X, Ding DR, Qiu JG, He J, Jiang JD	Appl Environ Microbiol	10.1128/AEM.00623-18	2018
Metabolism	Biodegradation of hexachlorobenzene by a constructed microbial consortium.	Yan DZ, Mao LQ, Li CZ, Liu J	World J Microbiol Biotechnol	10.1007/s11274-014-1789-7	2014
Enzymology	Sphingobium chlorophenolicum dichlorohydroquinone dioxygenase (PcpA) is alkaline resistant and thermally stable.	Sun W, Sammynaiken R, Chen L, Maley J, Schatte G, Zhou Y, Yang J	Int J Biol Sci	10.7150/ijbs.7.1171	2011
Enzymology	Substrate specificity of Sphingobium chlorophenolicum 2,6-dichlorohydroquinone 1,2-dioxygenase.	Machonkin TE, Doerner AE	Biochemistry	10.1021/bi200855m	2011
Genetics	Determination of the active site of Sphingobium chlorophenolicum 2,6-dichlorohydroquinone dioxygenase (PcpA).	Machonkin TE, Holland PL, Smith KN, Liberman JS, Dinescu A, Cundari TR, Rocks SS	J Biol Inorg Chem	10.1007/s00775-009-0602-9	2010
Enzymology	Cloning, overexpression, purification, and characterization of the maleylacetate reductase from Sphingobium chlorophenolicum strain ATCC 53874.	Chen L, Maloney K, Krol E, Zhu B, Yang J	Curr Microbiol	10.1007/s00284-009-9377-z	2009
Metabolism	Maintenance role of a glutathionyl-hydroquinone lyase (PcpF) in pentachlorophenol degradation by Sphingobium chlorophenolicum ATCC 39723.	Huang Y, Xun R, Chen G, Xun L	J Bacteriol	10.1128/JB.00489-08	2008
Metabolism	Molecular characterization of a novel ortho-nitrophenol catabolic gene cluster in Alcaligenes sp. strain NyZ215.	Xiao Y, Zhang JJ, Liu H, Zhou NY	J Bacteriol	10.1128/JB.00654-07	2007
Metabolism	Rhizoremediation of pentachlorophenol by Sphingobium chlorophenolicum ATCC 39723.	Dams RI, Paton GI, Killham K	Chemosphere	10.1016/j.chemosphere.2007.02.014	2007
Metabolism	Conversion of Sphingobium chlorophenolicum ATCC 39723 to a hexachlorobenzene degrader by metabolic engineering.	Yan DZ, Liu H, Zhou NY	Appl Environ Microbiol	10.1128/AEM.72.3.2283-2286.2006	2006
Metabolism	Identification and characterization of hydroxyquinone hydratase activities from Sphingobium chlorophenolicum ATCC 39723.	Bohuslavek J, Chanama S, Crawford RL, Xun L	Biodegradation	10.1007/s10532-004-2058-5	2005
Metabolism	Green fluorescent protein as a marker for monitoring a pentachlorophenol degrader Sphingomonas chlorophenolica ATCC39723.	Oh ET, So JS, Kim BH, Kim JS, Koh SC	J Microbiol	2081	2004
Metabolism	Genome shuffling improves degradation of the anthropogenic pesticide pentachlorophenol by Sphingobium chlorophenolicum ATCC 39723.	Dai M, Copley SD	Appl Environ Microbiol	10.1128/AEM.70.4.2391-2397.2004	2004
Pathogenicity	Flocculation behavior of Sphingobium chlorophenolicum in degrading pentachlorophenol at different life stages.	Chang YI, Su CY	Biotechnol Bioeng	10.1002/bit.10634	2003
Enzymology	Subcellular localization of pentachlorophenol 4-monooxygenase in Sphingobium chlorophenolicum ATCC 39723.	Wang H, Marjomaki V, Ovod V, Kulomaa MS	Biochem Biophys Res Commun	10.1016/s0006-291x(02)02719-5	2002
Enzymology	Characterization of tetrachlorohydroquinone reductive dehalogenase from Sphingomonas sp. UG30.	Habash MB, Beaudette LA, Cassidy MB, Leung KT, Hoang TA, Vogel HJ, Trevors JT, Lee H	Biochem Biophys Res Commun	10.1016/s0006-291x(02)02711-0	2002
Genetics	Organization and regulation of pentachlorophenol-degrading genes in Sphingobium chlorophenolicum ATCC 39723.	Cai M, Xun L	J Bacteriol	10.1128/JB.184.17.4672-4680.2002	2002
Metabolism	Phosphorus-31 nuclear magnetic resonance study of the effect of pentachlorophenol (PCP) on the physiologies of PCP-degrading microorganisms.	Lohmeier-Vogel EM, Leung KT, Lee H, Trevors JT, Vogel HJ	Appl Environ Microbiol	10.1128/AEM.67.8.3549-3556.2001	2001
Metabolism	Characterization of 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA) of Sphingomonas chlorophenolica ATCC 39723.	Xun L, Bohuslavek J, Cai M	Biochem Biophys Res Commun	10.1006/bbrc.1999.1805	1999
Metabolism	PcpA, which is involved in the degradation of pentachlorophenol in Sphingomonas chlorophenolica ATCC39723, is a novel type of ring-cleavage dioxygenase.	Ohtsubo Y, Miyauchi K, Kanda K, Hatta T, Kiyohara H, Senda T, Nagata Y, Mitsui Y, Takagi M	FEBS Lett	10.1016/s0014-5793(99)01305-8	1999
Metabolism	Evidence that pcpA encodes 2,6-dichlorohydroquinone dioxygenase, the ring cleavage enzyme required for pentachlorophenol degradation in Sphingomonas chlorophenolica strain ATCC 39723.	Xu L, Resing K, Lawson SL, Babbitt PC, Copley SD	Biochemistry	10.1021/bi990103y	1999
Phylogeny	Quantitative detection of Sphingomonas chlorophenolica in soil via competitive polymerase chain reaction.	van Elsas JD, Rosado AS, Wolters AC, Moore E, Karlson U	J Appl Microbiol	10.1046/j.1365-2672.1998.853509.x	1998

References

#2840	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 6824
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#68369	Automatically annotated from API 20NE .
#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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Sphingobium chlorophenolicum (DSM 6824, ATCC 39723, ATCC 53874)

Name and taxonomic classification

Morphology

Culture and growth conditions

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Culture temp

Physiology and metabolism

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API 20NE

Isolation, sampling and environmental information

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16S sequences

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