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1.
Nature ; 608(7924): 803-807, 2022 08.
Artículo en Inglés | MEDLINE | ID: mdl-35859168

RESUMEN

Stimulator of interferon genes (STING) is an antiviral signalling protein that is broadly conserved in both innate immunity in animals and phage defence in prokaryotes1-4. Activation of STING requires its assembly into an oligomeric filament structure through binding of a cyclic dinucleotide4-13, but the molecular basis of STING filament assembly and extension remains unknown. Here we use cryogenic electron microscopy to determine the structure of the active Toll/interleukin-1 receptor (TIR)-STING filament complex from a Sphingobacterium faecium cyclic-oligonucleotide-based antiphage signalling system (CBASS) defence operon. Bacterial TIR-STING filament formation is driven by STING interfaces that become exposed on high-affinity recognition of the cognate cyclic dinucleotide signal c-di-GMP. Repeating dimeric STING units stack laterally head-to-head through surface interfaces, which are also essential for human STING tetramer formation and downstream immune signalling in mammals5. The active bacterial TIR-STING structure reveals further cross-filament contacts that brace the assembly and coordinate packing of the associated TIR NADase effector domains at the base of the filament to drive NAD+ hydrolysis. STING interface and cross-filament contacts are essential for cell growth arrest in vivo and reveal a stepwise mechanism of activation whereby STING filament assembly is required for subsequent effector activation. Our results define the structural basis of STING filament formation in prokaryotic antiviral signalling.


Asunto(s)
Proteínas Bacterianas , Microscopía por Crioelectrón , Proteínas de la Membrana , Receptores de Interleucina-1 , Sphingobacterium , Receptores Toll-Like , Animales , Antivirales/metabolismo , Proteínas Bacterianas/química , Proteínas Bacterianas/inmunología , Proteínas Bacterianas/metabolismo , Proteínas Bacterianas/ultraestructura , Bacteriófagos/inmunología , Fosfatos de Dinucleósidos/metabolismo , Humanos , Inmunidad Innata , Proteínas de la Membrana/química , Proteínas de la Membrana/inmunología , Proteínas de la Membrana/metabolismo , Proteínas de la Membrana/ultraestructura , Operón/genética , Receptores de Interleucina-1/química , Receptores de Interleucina-1/inmunología , Receptores de Interleucina-1/metabolismo , Receptores de Interleucina-1/ultraestructura , Sphingobacterium/química , Sphingobacterium/genética , Sphingobacterium/ultraestructura , Sphingobacterium/virología , Receptores Toll-Like/química , Receptores Toll-Like/inmunología , Receptores Toll-Like/metabolismo , Receptores Toll-Like/ultraestructura
2.
Int J Cosmet Sci ; 42(6): 596-604, 2020 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-32767373

RESUMEN

OBJECTIVE: Glycation is a common non-enzymatic reaction between proteins and sugars, resulting in the formation of advanced glycation end products (AGEs) in the human body. As can be seen in diabetic patients, the accumulation of AGEs in the skin has aesthetic consequences (wrinkles, brown spots and yellowish complexion). Therefore, the objective of this work was to find compounds isolated from natural sources that could eliminate the final AGEs accumulated in the skin with ageing. METHODS AND RESULTS: A preliminary screening performed on a bank of microbial extracts and pure compounds showed that 2,5-Diketopiperazines (DKPs), as well as the extract of Sphingobacterium sp (SNB-CN13), reduced the presence of AGEs in fibroblasts by -28% and -23%, respectively. In this article, we present the dereplication approach used to reveal the presence of 26 different DKPs in the crude extract of Sphingobacterium sp. Bioguided fractionation has led to the isolation of 12 of them, whose identity has been confirmed by HRMS and NMR. A green synthesis approach has been developed to synthesize 3 symmetrical DKPs. The biological activity of all DKPs was evaluated by the development of an in vitro test using immunocytochemistry to reveal the presence of AGE carboxymethyl-lysine in human dermal fibroblasts. CONCLUSION: Our work shows for the first time that DKPs decrease the amount of carboxymethyl-lysine AGE in elderly human dermal fibroblasts grown in vitro. Therefore, diketopiperazines can be considered as compounds of interest for dermatological and cosmetic applications with an anti-ageing aim.


OBJECTIF: La glycation est une réaction non enzymatique courante entre les protéines et les sucres, qui entraîne la formation de produits finaux de glycation avancée (AGE) dans le corps humain. Comme on peut le voir chez les patients diabétiques, l'accumulation d'AGE dans la peau a des conséquences esthétiques (rides, taches brunes, teint jaunâtre). Par conséquent, l'objectif de ce travail était de trouver des composés isolés de sources naturelles qui pourraient éliminer les AGE finaux accumulés dans la peau avec le vieillissement. MÉTHODES & RÉSULTATS: Un examen préliminaire effectué sur une banque d'extraits microbiens et de composés purs a montré que les 2,5-dicétopipérazines (DKP), ainsi que l'extrait de Sphingobacterium sp. (SNB-CN13), réduisaient la présence d'AGE dans les fibroblastes de - 28% et - 23% respectivement. Dans cet article, nous présentons l'approche de déréplication utilisée pour révéler la présence de 26 DKP différentes dans l'extrait brut de Sphingobacterium sp. Le fractionnement bioguidé a conduit à l'isolement de 12 d'entre elles, dont l'identité a été confirmée par HRMS et RMN. Une approche de synthèse verte a été développée pour synthétiser 3 DKP symétriques. L'activité biologique de toutes les DKP a été évaluée par le développement d'un test in vitro utilisant l'immunocytochimie pour révéler la présence de carboxyméthyl-lysine AGE dans les fibroblastes dermiques humains. CONCLUSION: Nos travaux montrent pour la première fois que les DKP diminuent la quantité de carboxyméthyl-lysine AGE dans les fibroblastes dermiques humains âgés cultivés in vitro. Par conséquent, les dicétopipérazines peuvent être considérées comme des composés intéressants pour des applications dermatologiques et cosmétiques à visée anti-âge.


Asunto(s)
Factores de Edad , Dicetopiperazinas/farmacología , Productos Finales de Glicación Avanzada/efectos de los fármacos , Piel/efectos de los fármacos , Cromatografía Líquida de Alta Presión/métodos , Dicetopiperazinas/química , Femenino , Fibroblastos/efectos de los fármacos , Fibroblastos/metabolismo , Productos Finales de Glicación Avanzada/metabolismo , Humanos , Persona de Mediana Edad , Piel/citología , Piel/metabolismo , Sphingobacterium/química , Espectrometría de Masas en Tándem/métodos
3.
Arch Microbiol ; 200(10): 1481-1486, 2018 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-30159757

RESUMEN

A novel Gram-reaction-negative, rod-shaped, non-motile bacterium, designated as strain G2-10T was isolated from effluent of a dairy manure treatment plant. Growth occurred at 20-40 °C (optimum at 25-30 °C), pH 7.0-8.0 (optimum at pH 7.0). The range of NaCl concentration for growth was between 0% and 3% (w/v) (optimum 0-1%, w/v). Comparison of 16S rRNA gene sequence indicated that strain G2-10T was moderately related to the type strains of Sphingobacterium nematocida M-SX103T and Sphingobacterium suaedae T47T with a pair-wise sequence similarity of 94.3% and 94.0%, respectively. The major fatty acid constituents of strain G2-10T were identified as iso-C15:0 (37.6%), summed feature 3 (consisting of C16:1ω7c and/or C16:1ω6c, 29.6%) and iso-C17:0 3-OH (15.2%). Phosphatidylethanolamine was the major polar lipids of strain G2-10T. Sphingophospholipids were present. The isoprenoid quinone was composed of only MK-7. The DNA G + C content of strain G2-10T was found to be 42.5 mol%. The phenotypic, chemotaxonomic and phylogenetic properties suggest that strain G2-10T represents a novel species within the genus Sphingobacterium, for which the name Sphingobacterium praediipecoris is proposed. The type strain is G2-10T (= KCTC 52880T = NBRC 112848T).


Asunto(s)
Sphingobacterium/clasificación , Composición de Base , ADN Bacteriano/química , Industria Lechera , Ácidos Grasos/análisis , Estiércol , Fosfatidiletanolaminas/análisis , Filogenia , ARN Ribosómico 16S/genética , Sphingobacterium/química , Sphingobacterium/genética , Sphingobacterium/aislamiento & purificación
4.
Protein Expr Purif ; 114: 136-42, 2015 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-26145833

RESUMEN

An extracellular uricase producing bacterium (VITPCB5) was isolated from soil of the duck farm near Chidambaram, Tamilnadu, India and it was identified based on its 16S rRNA as Sphingobacterium thalpophilum. Uric acid was used as an effective inducer. The enzyme kinetics was studied using uric acid as a substrate. The Km and Vmax for the enzyme was found to be 0.28mM and 0.92µM/minml, respectively. Maximum uricase production was observed when lactose was used as a carbon source. Among the nitrogen sources tested, urea gave the maximum uricase production. The enzyme was successfully purified using a weak cation exchange convective interaction media carboxy methyl (CIM-CM) monolith column with a recovery of 79.7%±0.1 and 14.2±1.8-fold purification. The optimal reaction temperature of the enzyme was observed between 25 and 45°C. The pH optimum of the enzyme was 8.0. The enzyme activity was enhanced by copper and partially inhibited by calcium, iron, zinc and nickel ions. Treatment with ethylene diamine tetraacetic acid completely inhibited the enzyme activity. The in-gel trypsin digested peptides of 48-kDa uricase when analyzed using mass spectrometry, gave 32% sequence coverage with the uricase (30-kDa) from Cyberlindnera jadinii.


Asunto(s)
Proteínas Bacterianas/química , Proteínas Bacterianas/aislamiento & purificación , Sphingobacterium/enzimología , Urato Oxidasa/química , Urato Oxidasa/aislamiento & purificación , Proteínas Bacterianas/metabolismo , Sphingobacterium/química , Urato Oxidasa/metabolismo
5.
Folia Microbiol (Praha) ; 60(6): 483-92, 2015 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-25868895

RESUMEN

A mannanase-coding gene was cloned from Sphingobacterium sp. GN25 isolated from the feces of Grus nigricollis. The gene encodes a 371-residue polypeptide (ManAGN25) showing less than 74 % identity with a number of hypothetical proteins and putative glucanases and mannanases. Before experiment's performance, ManAGN25 was predicted to be a low-temperature active mannanase based on the molecular characterization, including (1) ManAGN25 shared the highest identity of 41.1 % with the experimentally verified low-temperature active mannanase (ManAJB13) from Sphingomonas sp. JB13; (2) compared with their mesophilic and thermophilic counterparts, ManAGN25 and ManAJB13 had increased number of amino acid residues around their catalytic sites; (3) these increased number of amino acid residues built longer loops, more α-helices, and larger total accessible surface area and packing volume. Then the experiments of biochemical characterization verified that the purified recombinant ManAGN25 is a low-temperature active mannanase: the enzyme showed apparently optimal activity at 35-40 °C and retained 78.2, 44.8, and 15.0 % of its maximum activity when assayed at 30, 20, and 10 °C, respectively; the half-life of the enzyme was approximately 60 min at 37 °C; the enzyme presented a K m of 4.2 mg/ml and a k cat of 0.4/s in McIlvaine buffer (pH 7.0) at 35 °C using locust bean gum as the substrate; and the activation energy for hydrolysis of locust bean gum by the enzyme was 36.0 kJ/mol. This study is the first to report the molecular and biochemical characterizations of a mannanase from a strain.


Asunto(s)
Proteínas Bacterianas/química , Sphingobacterium/enzimología , beta-Manosidasa/química , Secuencia de Aminoácidos , Proteínas Bacterianas/genética , Proteínas Bacterianas/aislamiento & purificación , Proteínas Bacterianas/metabolismo , Frío , Estabilidad de Enzimas , Cinética , Datos de Secuencia Molecular , Conformación Proteica , Alineación de Secuencia , Sphingobacterium/química , Sphingobacterium/genética , beta-Manosidasa/genética , beta-Manosidasa/aislamiento & purificación , beta-Manosidasa/metabolismo
6.
Appl Microbiol Biotechnol ; 97(18): 8031-9, 2013 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-23812276

RESUMEN

Using enrichment culture, Sphingobacterium multivorum GIN723 (KCCM80060) was isolated as having activity for deglycosylation of compound K and ginsenoside F1 to produce ginsenoside aglycons such as S-protopanaxadiol (PPD(S)) and S-protopanaxatriol (PPT(S)). Through BLAST search, purified enzyme from S. multivorum GIN723 was revealed to be the outer membrane protein. The purified enzyme from S. multivorum GIN723 has unique specificity for the glucose moiety. However, it has activity with PPD and PPT group ginsenosides such as ginsenosides Rb1, Rb2, Rb3, Rc, F2, CK, Rh2, Re, and F1. From these results, it was predicted that the enzyme has activity on several ginsenosides. Therefore, the biotransformation pathway from Rb1, which is a major, highly glycosylated compound of ginseng, was analyzed using high-performance liquid chromatography and electrospray ionization mass spectrometry/mass spectrometry. The dominant biotransformation pathway from Rb1 to PPD(S) was determined to be Rb1 → Gp-XVII → Gp-LXXV → CK → PPD(S). S. multivorum GIN723 can be used as a whole cell biocatalyst because its activity as whole cells is nine times higher than its activity as cell extracts. The specific activity of whole cells is 2.89 nmol/mg/min in the production of PPD(S). On the other hand, the specific activity of cell extracts is 0.32 nmol/mg/min. The productivity of this enzyme in whole cell form is 500 mg/1 l of cultured cell. Its optimum reaction condition is 10 mM of calcium ions added to a phosphate buffer with a pH of 8.5.


Asunto(s)
Ginsenósidos/metabolismo , Extractos Vegetales/metabolismo , Sapogeninas/metabolismo , Sphingobacterium/metabolismo , Biotransformación , Cromatografía Líquida de Alta Presión/métodos , Ginsenósidos/química , Glicosilación , Estructura Molecular , Extractos Vegetales/química , Sapogeninas/química , Sphingobacterium/química , Espectrometría de Masas en Tándem/métodos
7.
J Colloid Interface Sci ; 394: 368-79, 2013 Mar 15.
Artículo en Inglés | MEDLINE | ID: mdl-23332937

RESUMEN

The commercial application of a new biosurfactant such as the one produced by Sphingobacteriumdetergens needs a cost-effective process and knowledge of its properties. In the present study, a specific medium and a downstream process have been developed to enhance biosurfactant production. Optimal concentrations of nutrients in MCA medium were (g/L) the following: KH(2)PO(4), 1; K(2)HPO(4), 2; CO(NH(2))(2) 0.88; CaCl(2) 0.01; FeSO(4)·7H(2)O, 0.01; MgSO(4)·7H(2)O 0.5; KCl, 1.0; trace elements 0.05 mL. Biosurfactant production in the MCA medium required a bacterial co-metabolism of glucose and an n-alkane. A fed-batch culture with supernatant lyophilization prior to organic extraction produced 466 mg/L of organic extract, which represents a 6.9-fold increase in production. The newly obtained biosurfactant was a complex mixture of molecules. The three characterized fractions consisted of the complete fraction and two second-level purification fractions with apolar and polar characteristics. The complete and apolar fractions have been shown to self-aggregate in the form of lamellar liquid crystals at a high concentration and bilayers at lower concentrations. Negatively charged particles were identified, which were neutralized at a low pH with a concomitant increase in size. The pH affected the surface tension of the solutions congruently with phosphate headgroups.


Asunto(s)
Microbiología Industrial/métodos , Sphingobacterium/metabolismo , Tensoactivos/química , Tensoactivos/metabolismo , Técnicas de Cultivo Celular por Lotes , Sphingobacterium/química , Tensión Superficial , Tensoactivos/aislamiento & purificación
8.
J Colloid Interface Sci ; 361(1): 195-204, 2011 Sep 01.
Artículo en Inglés | MEDLINE | ID: mdl-21684551

RESUMEN

Strain 6.2S, isolated from soil and identified as a Sphingobacterium sp., is the first strain in this genus to be reported as a biosurfactant producer, being able to reduce the surface tension of its culture supernatant to 32 mN/m. In this work, biosurfactants from the culture supernatant were purified and partially characterized. The crude extract (10 g/L) was very effective in reducing surface tension (22 mN/m). Thin layer chromatography (TLC) indicated that a mixture of various biosurfactants was present in the 6.2S crude extract. After purification, Fraction A, a phospholipid mixture, reduced surface tension to 33 mN/m. Fraction B was a mixture of lipopetides and at least one glycolipid. The surface tension-concentration curve showed two plateaux, the first of which can be attributed to a critical aggregation concentration of the biosurfactant with a protein (2.7 g/L) and the second to the true cmc in water (6.3g/L).


Asunto(s)
Microbiología del Suelo , Sphingobacterium/química , Tensoactivos/aislamiento & purificación , Cromatografía en Capa Delgada , Glucolípidos/aislamiento & purificación , Lipopéptidos/aislamiento & purificación , Fosfolípidos/aislamiento & purificación , Tensión Superficial
9.
Chem Biodivers ; 7(9): 2228-53, 2010 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-20860026

RESUMEN

The analysis of the volatiles released by the novel bacterial isolate Chitinophaga Fx7914 revealed the presence of ca. 200 compounds including different methyl esters. These esters comprise monomethyl- and dimethyl-branched, saturated, and unsaturated fatty acid methyl esters that have not been described as bacterial volatiles before. More than 30 esters of medium C-chain length were identified, which belong to five main classes, methyl (S)-2-methylalkanoates (class A), methyl (S)-2,(ω-1)-dimethylalkanoates (class B), methyl 2,(ω-2)-dimethylalkanoates (class C), methyl (E)-2-methylalk-2-enoates (class D), and methyl (E)-2,(ω-1)-dimethylalk-2-enoates (class E). The structures of the compounds were verified by GC/MS analysis and synthesis of the target compounds as methyl (S)-2-methyloctanoate (28), methyl (S)-2,7-dimethyloctanoate ((S)-43), methyl 2,6-dimethyloctanoate (49), methyl (E)-2-methylnon-2-enoate (20a), and methyl (E)-2,7-dimethyloct-2-enoate (41a). Furthermore, the natural saturated 2-methyl-branched methyl esters showed (S)-configuration as confirmed by GC/MS experiments using chiral phases. Additionally, the biosynthetic pathway leading to the methyl esters was investigated by feeding experiments with labeled precursors. The Me group at C(2) is introduced by propanoate incorporation, while the methyl ester is formed from the respective carboxylic acid by a methyltransferase using S-adenosylmethionine (SAM).


Asunto(s)
Ácidos Grasos Insaturados/aislamiento & purificación , Ácidos Grasos Volátiles/aislamiento & purificación , Ácidos Grasos/aislamiento & purificación , Sphingobacterium/química , Medios de Cultivo , Ésteres , Ácidos Grasos/biosíntesis , Ácidos Grasos/química , Ácidos Grasos Insaturados/biosíntesis , Ácidos Grasos Insaturados/química , Ácidos Grasos Volátiles/biosíntesis , Ácidos Grasos Volátiles/química , Cromatografía de Gases y Espectrometría de Masas , Metilación , Estructura Molecular , Sphingobacterium/crecimiento & desarrollo , Sphingobacterium/metabolismo , Estereoisomerismo , Volatilización
10.
Chembiochem ; 11(13): 1914-9, 2010 Sep 03.
Artículo en Inglés | MEDLINE | ID: mdl-20680979

RESUMEN

2-Methyltetrahydrothiophen-3-one (3) is a volatile compound that plays an important role especially in food and flavour chemistry because it contributes to the aroma of several foodstuffs including wine. Although 3 can be formed by chemical reactions during food preparation, it is also produced by microorganisms. Recent studies with yeasts showed that methionine (1) is a potential precursor of 3, but the mechanism of the transformation is unknown. The biosynthetic pathway leading to 3 in the bacterium Chitinophaga Fx7914 was probed. Extensive feeding experiments with differently labelled precursors by using liquid cultures of Chitinophaga Fx7914 were performed. The volatiles released by the bacterium were collected by using a closed loop stripping apparatus (CLSA) and analysed by GC-MS. The observed incorporation pattern of the precursors into 3 led to the elucidation of the biosynthetic pathway. One part of the compound 2 originates from homocysteine (15), which is transformed into 3-mercaptopropanal (17). The second biosynthetic building block is pyruvate (14). An acyloin-forming reaction furnishes the key intermediate 21, which cyclises intramolecularly to a diol. Dehydration followed by tautomerisation lead to the cyclic ketone 3, which is produced by the bacterium in racemic form.


Asunto(s)
Sphingobacterium/metabolismo , Tiofenos/metabolismo , Homocisteína/química , Marcaje Isotópico , Espectrometría de Masas , Metionina/química , Ácido Pirúvico/química , Sphingobacterium/química , Estereoisomerismo , Tiofenos/química , Volatilización
11.
Biochemistry ; 47(48): 12750-9, 2008 Dec 02.
Artículo en Inglés | MEDLINE | ID: mdl-18991393

RESUMEN

Sensory rhodopsin I (SRI) is one of the most interesting photosensory receptors in nature because of its ability to mediate opposite signals depending on light color by photochromic one-photon and two-photon reactions. Recently, we characterized SRI from eubacterium Salinibacter ruber (SrSRI). This protein allows more detailed information about the structure and structural changes of SRI during its action to be obtained. In this paper, Fourier transform infrared (FTIR) spectroscopy is applied to SrSRI, and the spectral changes upon formation of the K and M intermediates are compared with those of other archaeal rhodopsins, SRI from Halobacterium salinarum (HsSRI), sensory rhodopsin II (SRII), bacteriorhodopsin (BR), and halorhodopsin (HR). Spectral comparison of the hydrogen out-of-plane (HOOP) vibrations of the retinal chromophore in the K intermediates shows that extended choromophore distortion takes place in SrSRI and HsSRI, as well as in SRII, whereas the distortion is localized in the Schiff base region in BR and HR. It appears that sensor and pump functions are distinguishable from the spectral feature of HOOP modes. The HOOP band at 864 cm(-1) in SRII, important for negative phototaxis, is absent in SrSRI, suggesting differences in signal transfer mechanism between SRI and SRII. The strongly hydrogen-bound water molecule, important for proton pumps, is observed at 2172 cm(-1) in SrSRI, as well as in BR and SRII. The formation of the M intermediate accompanies the appearance of peaks at 1753 (+) and 1743 (-) cm(-1), which can be interpreted as the protonation signal of the counterion (Asp72) and the proton release signal from an unidentified carboxylic acid, respectively. The structure and structural changes of SrSRI are discussed on the basis of the present infrared spectral comparisons with other rhodopsins.


Asunto(s)
Procesos Fotoquímicos , Rodopsinas Sensoriales/química , Sphingobacterium/química , Concentración de Iones de Hidrógeno , Luz , Estabilidad Proteica , Protones , Bases de Schiff/química , Rodopsinas Sensoriales/metabolismo , Espectroscopía Infrarroja por Transformada de Fourier , Relación Estructura-Actividad , Especificidad por Sustrato , Treonina , Vibración
12.
Int J Syst Evol Microbiol ; 58(Pt 7): 1576-9, 2008 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-18599698

RESUMEN

A novel exopolysaccharide-degrading bacterium, designated strain 10C(T), was isolated from soil from Kitahiroshima city, Hokkaido, Japan. The novel isolate was Gram-negative, strictly aerobic and chemoheterotrophic. The DNA G+C content was 36.9 mol%. Major fatty acids were C(16 : 1)omega7c, iso-C(15 : 0) 2-OH, iso-C(15 : 0) and iso-C(17 : 0 )3-OH. 16S rRNA gene sequence analysis and chemotaxonomic and morphological data indicated that the novel strain clearly belonged to the genus Sphingobacterium. Based on phenotypic properties and DNA-DNA hybridization data, the new isolate was assigned to the genus Sphingobacterium as Sphingobacterium kitahiroshimense sp. nov. The type strain is 10C(T) (=JCM 14970(T)=NCIMB 14398(T)).


Asunto(s)
Microbiología del Suelo , Sphingobacterium/clasificación , Japón , Datos de Secuencia Molecular , Fenotipo , Filogenia , ARN Ribosómico 16S/genética , Especificidad de la Especie , Sphingobacterium/química , Sphingobacterium/genética , Sphingobacterium/aislamiento & purificación , Esfingosina/análogos & derivados , Esfingosina/química
13.
Biochemistry ; 47(7): 2014-24, 2008 Feb 19.
Artículo en Inglés | MEDLINE | ID: mdl-18198898

RESUMEN

A gene for photoactive yellow protein (PYP) was identified from the genome sequence of the extremely halophilic aerobic bacterium Salinibacter ruber (Sr). The sequence is distantly related to the prototypic PYP from Halorhodospira halophila (Hh) (37% identity) and contains most of the amino acid residues identified as necessary for function. However, the Sr pyp gene is not flanked by its two biosynthetic genes as in other species. To determine as to whether the Sr pyp gene encodes a functional protein, we cloned and expressed it in Escherichia coli, along with the genes for chromophore biosynthesis from Rhodobacter capsulatus. The Sr PYP has a 31-residue N-terminal extension as compared to other PYPs that appears to be important for dimerization; however, truncation of these extra residues did not change the spectral and photokinetic properties. Sr PYP has an absorption maximum at 431 nm, which is at shorter wavelengths than the prototypical Hh PYP (at 446 nm). It is also photoactive, being reversibly bleached by either blue or white light. The kinetics of dark recovery is slower than any of the PYPs reported to date (4.27 x 10(-4) s(-1) at pH 7.5). Sr PYP appears to have a normal photocycle with the I1 and I2 intermediates. The presence of the I2' intermediate is also inferred on the basis of the effects of temperature and alchohol on recovery. Sr PYP has an intermediate spectral form in equilibrium with the 431 nm form, similar to R. capsulatus PYP and the Y42F mutant of Hh PYP. Increasing ionic strength stabilizes the 431 nm form at the expense of the intermediate spectral form, and the kinetics of recovery is accelerated 6.4-fold between 0 and 3.5 M salt. This is observed with ions from both the chaotropic and the kosmotropic series. Ionic strength also stabilizes PYP against thermal denaturation, as the melting temperature is increased from 74 degrees C in buffer alone to 92 degrees C in 2 M KCl. Sr accumulates KCl in the cytoplasm, like Halobacterium, to balance osmotic pressure and has very acidic proteins. We thus believe that Sr PYP is an example of a halophilic protein that requires KCl to electrostatically screen the excess negative charge and stabilize the tertiary structure.


Asunto(s)
Proteínas Bacterianas/aislamiento & purificación , Fotorreceptores Microbianos/aislamiento & purificación , Sphingobacterium/química , Secuencia de Aminoácidos , Proteínas Bacterianas/química , Proteínas Bacterianas/genética , Dimerización , Cinética , Datos de Secuencia Molecular , Fotorreceptores Microbianos/química , Fotorreceptores Microbianos/genética , Homología de Secuencia de Aminoácido , Sphingobacterium/genética
14.
Syst Appl Microbiol ; 30(7): 519-24, 2007 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-17629434

RESUMEN

A free-living Gram-negative bacterial strain CR11(T) was isolated from corn roots. Polyphasic taxonomy was performed, including API20 NE and API50 CH bacterial identification kits, Biolog analysis, lipids and fatty acid analysis, DNA-DNA hybridization, 16S rRNA and cpn60 gene sequence analyses. 16S rRNA gene sequence analysis indicated that strain CR11(T) belonged to the genus Sphingobacterium and was closely related to Sphingobacterium multivorum IFO 14947(T) (98% similarity) and Sphingobacterium. thalpophilum ATCC 43320(T) (97% similarity). DNA-DNA hybridization showed 11% and 13% DNA re-association with S. multivorum LMG 8342(T) and S. thalpophilum LMG 11520(T), respectively. Major fatty acids (16:0, 15:0 iso and 17:0 iso 3-OH) and the G+C content of the DNA (40.5 mol%), were also similar to those of the genus Sphingobacterium. The predominant respiratory quinone was MK-7. In all analyses, including phenotypic characterization, this isolate was found to be different from the closely related species, S. multivorum and S. thalpophilum. On the basis of these results, this strain represents a new species within the genus Sphingobacterium. The name Sphingobacterium canadense sp. nov. is suggested and the type strain is CR11(T) (=NCCB 100125(T)=LMG 23727(T)).


Asunto(s)
Raíces de Plantas/microbiología , Sphingobacterium/clasificación , Sphingobacterium/aislamiento & purificación , Zea mays/microbiología , Técnicas de Tipificación Bacteriana , Composición de Base , Chaperonina 60/genética , ADN Bacteriano/química , ADN Bacteriano/genética , ADN Ribosómico/química , ADN Ribosómico/genética , Ácidos Grasos/análisis , Genes de ARNr , Datos de Secuencia Molecular , Hibridación de Ácido Nucleico , Fosfolípidos/análisis , Filogenia , Quinonas/análisis , ARN Bacteriano/genética , ARN Ribosómico 16S/genética , Análisis de Secuencia de ADN , Homología de Secuencia de Ácido Nucleico , Sphingobacterium/química , Sphingobacterium/genética
15.
Int J Syst Evol Microbiol ; 57(Pt 7): 1590-1593, 2007 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-17625199

RESUMEN

A Gram-negative, strictly aerobic, short rod-shaped, non-motile bacterial strain designated 4M24(T) was isolated from cotton-waste compost. Analysis of the 16S rRNA gene sequence of strain 4M24(T) revealed that it is a member of the genus Sphingobacterium, sharing 88.5-94.5 % sequence similarity with type strains of the genus Sphingobacterium and being most closely related to Sphingobacterium daejeonense TR6-04(T) (94.5 % sequence similarity) and Sphingobacterium mizutaii ATCC 33299(T) (92.2 % similarity). The major fatty acids of strain 4M24(T) grown on trypticase soy agar medium were summed feature 3 (iso-C(15 : 0) 2-OH and/or C(16 : 1)omega7c; 37.5 %), iso-C(15 : 0) (29.5 %) and iso-C(17 : 0) 3-OH (19.7 %). The G+C content of the genomic DNA was 42.3 mol%. On the basis of phenotypic and genotypic characteristics, strain 4M24(T) represents a novel species of the genus Sphingobacterium, for which the name Sphingobacterium composti sp. nov. is proposed. The type strain is 4M24(T) (=KACC 11313(T)=DSM 18850(T)).


Asunto(s)
Microbiología del Suelo , Sphingobacterium/clasificación , Sphingobacterium/aislamiento & purificación , Aerobiosis , Técnicas de Tipificación Bacteriana , Composición de Base , ADN Bacteriano/química , ADN Bacteriano/genética , ADN Ribosómico/química , ADN Ribosómico/genética , Ácidos Grasos/análisis , Genes de ARNr , Gossypium/microbiología , Corea (Geográfico) , Locomoción , Datos de Secuencia Molecular , Filogenia , ARN Bacteriano/genética , ARN Ribosómico 16S/genética , Análisis de Secuencia de ADN , Homología de Secuencia de Ácido Nucleico , Suelo , Sphingobacterium/química , Sphingobacterium/genética
16.
Cell Mol Life Sci ; 64(18): 2323-8, 2007 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-17571211

RESUMEN

Retinal proteins function as photoreceptors and ion pumps. Xanthorhodopsin of Salinibacter ruber is a recent addition to this diverse family. Its novel and distinctive feature is a second chromophore, a carotenoid, which serves as light-harvesting antenna. Here we discuss the properties of this carotenoid/retinal complex most relevant to its function (such as the specific binding site controlled by the retinal) and its relationship to other retinal proteins (bacteriorhodopsin, archaerhodopsin, proteorhodopsin and retinal photoreceptors of archaea and eukaryotes). Antenna addition to a retinal protein has not been observed among the archaea and emerged in bacteria apparently in response to environmental conditions where light-harvesting becomes a limiting factor in retinal protein functioning.


Asunto(s)
Archaea/química , Proteínas Bacterianas/química , Carotenoides/química , Bombas de Protones/química , Rodopsina/química , Sphingobacterium/química , Archaea/metabolismo , Proteínas Arqueales/química , Proteínas Arqueales/metabolismo , Proteínas Bacterianas/metabolismo , Bombas de Protones/metabolismo , Rodopsina/metabolismo , Rodopsinas Microbianas , Sphingobacterium/metabolismo
17.
Biochim Biophys Acta ; 1635(2-3): 83-92, 2003 Dec 30.
Artículo en Inglés | MEDLINE | ID: mdl-14729071

RESUMEN

The unique feature of the genus Sphingobacterium is the presence of sphingophospholipids and ceramides, besides diacylglycerophospholipids. As major cellular lipid components, five kinds of sphingophospholipids were purified from Sphingobacterium spiritivorum ATCC 33861(T), the type species of genus Sphingobacterium. They were identified as ceramide phosphorylethanolamines (CerPE-1 and CerPE-2), ceramide phosphoryl-myo-inositols (CerPI-1 and CerPI-2), and ceramide phosphorylmannose (CerPM-1). The ceramide of CerPE-1, CerPI-1, and CerPM-1 was composed of 15-methylhexadecasphinganine (isoheptadeca sphinganine, iso-C17:0) and 13-methyltetradecanoic acid (isopentadecanoic acid, iso-C15:0), whereas that of CerPE-2 and CerPI-2 was composed of isoheptadeca sphinganine and 2-hydroxy-13-methyltetradecanoic acid (2-hydroxy isopentadecanoic acid, 2-OH iso-C15:0). These sphingophospholipids were also found in cellular lipids of Sphingobacterium multivorum ATCC 33613(T), Sphingobacterium mizutaii ATCC 33299(T), Sphingobacterium faecium IFO 15299(T), Sphingobacterium thalpophilum ATCC 43320(T), and Sphingobacterium antarcticum ATCC 51969(T). To our knowledge, the existence of CerPM-1 is a novel sphingophospholipid through eukaryotic and prokaryotic cells.


Asunto(s)
Fosfolípidos/química , Sphingobacterium/química , Esfingolípidos/química , Ceramidas/análisis , Cromatografía en Capa Delgada , Ácidos Grasos/análisis , Espectroscopía de Resonancia Magnética , Estructura Molecular , Fosfolípidos/aislamiento & purificación , Solubilidad , Espectrometría de Masa Bombardeada por Átomos Veloces , Espectrofotometría Infrarroja , Esfingolípidos/aislamiento & purificación
18.
Wei Sheng Wu Xue Bao ; 43(6): 813-6, 2003 Dec.
Artículo en Chino | MEDLINE | ID: mdl-16276908

RESUMEN

The novel heparinase-producing bacterial strain Sphingobacterium sp. was isolated and screened from soil. The optimum medium composition is (g/L): Soytone 20, NaCl 1, K2HPO4 2.5, MgSO4 0.5, Heparin 2, Sucrose 15, pH 7.5. The optimum temperature for growth and enzyme production was 32 degrees C. When cultured at a rotating shaker at 30 degrees C for 36 hours, 200 r/min, 50 mL medium in 500 mL flask, the production of heparinase reached 4000 U/L.


Asunto(s)
Proteínas Bacterianas/metabolismo , Liasa de Heparina/metabolismo , Microbiología del Suelo , Sphingobacterium/enzimología , Proteínas Bacterianas/química , Proteínas Bacterianas/genética , Estabilidad de Enzimas , Liasa de Heparina/química , Liasa de Heparina/genética , Sphingobacterium/química , Sphingobacterium/genética , Sphingobacterium/aislamiento & purificación , Temperatura
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