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1.
Int J Mol Sci ; 24(9)2023 May 05.
Artigo em Inglês | MEDLINE | ID: mdl-37176000

RESUMO

Proteus mirabilis is a Gram-negative Gammaproteobacterium and a major causative agent of urinary tract infections in humans. It is characterized by its ability to switch between swimming motility in liquid media and swarming on solid surfaces. Here, we used cryo-electron tomography and subtomogram averaging to reveal the structure of the flagellar motor of P. mirabilis at nanometer resolution in intact cells. We found that P. mirabilis has a motor that is structurally similar to those of Escherichia coli and Salmonella enterica, lacking the periplasmic elaborations that characterize other more specialized gammaproteobacterial motors. In addition, no density corresponding to stators was present in the subtomogram average suggesting that the stators are dynamic. Finally, several assembly intermediates of the motor were seen that support the inside-out assembly pathway.


Assuntos
Proteínas de Bactérias , Microscopia Crioeletrônica , Tomografia com Microscopia Eletrônica , Flagelos , Proteínas Motores Moleculares , Proteus mirabilis , Proteínas de Bactérias/química , Proteínas de Bactérias/metabolismo , Proteínas de Bactérias/ultraestrutura , Escherichia coli/química , Flagelos/química , Flagelos/metabolismo , Flagelos/ultraestrutura , Proteus mirabilis/química , Proteus mirabilis/citologia , Proteus mirabilis/ultraestrutura , Salmonella enterica/química , Proteínas Motores Moleculares/química , Proteínas Motores Moleculares/metabolismo , Proteínas Motores Moleculares/ultraestrutura
2.
Commun Biol ; 4(1): 1291, 2021 11 16.
Artigo em Inglês | MEDLINE | ID: mdl-34785766

RESUMO

Assembly of bacterial flagellar hook requires FlgD, a protein known to form the hook cap. Symmetry mismatch between the hook and the hook cap is believed to drive efficient assembly of the hook in a way similar to the filament cap helping filament assembly. However, the hook cap dependent mechanism of hook assembly has remained poorly understood. Here, we report the crystal structure of the hook cap composed of five subunits of FlgD from Salmonella enterica at 3.3 Å resolution. The pentameric structure of the hook cap is divided into two parts: a stalk region composed of five N-terminal domains; and a petal region containing five C-terminal domains. Biochemical and genetic analyses show that the N-terminal domains of the hook cap is essential for the hook-capping function, and the structure now clearly reveals why. A plausible hook assembly mechanism promoted by the hook cap is proposed based on the structure.


Assuntos
Proteínas de Bactérias/química , Flagelos/metabolismo , Salmonella enterica/química
3.
Int J Biol Macromol ; 176: 106-116, 2021 Apr 15.
Artigo em Inglês | MEDLINE | ID: mdl-33556398

RESUMO

Bio-hybrid materials have received a lot of attention in view of their bio-mimicking nature. One such biomimetic material with catalytic activity are the protein derived floral nanohybrid. Copper phosphate coordinated flakes can be curated to distinct floral morphology using proteins. Structurally two different proteins with similar size and with no known enzymatic activity are used to evaluate the role of protein structure and morphology, on the structure-activity relationship of the developed hybrid nanoflowers. Globular protein BSA and bacterial microcompartment domain protein PduBB' are selected. PduBB' because of self-assembling nature forms extended sheets, whereas BSA lacks specific assembly. The developed hybrid NFs differ in their morphology and also in their mimicry as a biological catalyst. The present investigation highlights the importance of the quaternary structure of proteins in tailoring the structure and function of the h-NFs. The results in this manuscript will motivate and guide designing, engineering and selection of glue material for fabricating biomacromolecule derived biohybrid material to mimic natural enzymes of potential industrial application.


Assuntos
Materiais Biomiméticos/química , Proteínas/química , Proteínas de Bactérias/química , Biocatálise , Cobre/química , Microscopia Eletrônica de Varredura , Microscopia Eletrônica de Transmissão , Nanoestruturas/química , Nanoestruturas/ultraestrutura , Fosfatos/química , Estrutura Quaternária de Proteína , Salmonella enterica/química , Soroalbumina Bovina/química , Espectroscopia de Infravermelho com Transformada de Fourier , Termodinâmica
4.
Food Microbiol ; 94: 103616, 2021 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-33279059

RESUMO

The objective of this study was to characterize the biofilms formed by Salmonella enterica serotype Agona, Listeria monocytogenes, methicillin-resistant Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococcus faecium (VRE) after 12, 48, 72, 120 and 240 h of incubation at 10 °C. Biofilms containing a single species, together with dual-species biofilms in which S. enterica and a Gram-positive bacterium existed in combination, were formed on polystyrene and evaluated by using confocal laser scanning microscopy (CLSM). All strains were able to form biofilm. The greatest biovolume in the observation field of 14,161 µm2 was observed for mono-species biofilms after 72 h, where biovolumes of 94,409.0 µm3 ± 2131.0 µm3 (S. enterica), 58,418.3 µm3 ± 5944.9 µm3 (L. monocytogenes), 68,020.8 µm3 ± 5812.3 µm3 (MRSA) and 59,280.0 µm3 ± 4032.9 µm3 (VRE) were obtained. In comparison with single-species biofilms, the biovolume of S. enterica was higher in the presence of MRSA or VRE after 48, 72 and 120 h. In dual-species biofilms, the bacteria showed a double-layer distribution pattern, with S. enterica in the top layer and Gram-positive bacteria in the bottom layer. This spatial disposition should be taken into account when effective strategies to eliminate biofilms are being developed.


Assuntos
Biofilmes , Enterococcus faecium/química , Listeria monocytogenes/química , Staphylococcus aureus Resistente à Meticilina/química , Salmonella enterica/química , Enterococcus faecium/fisiologia , Listeria monocytogenes/fisiologia , Staphylococcus aureus Resistente à Meticilina/fisiologia , Microscopia Confocal , Salmonella enterica/fisiologia
5.
Biochemistry ; 59(51): 4845-4855, 2020 12 29.
Artigo em Inglês | MEDLINE | ID: mdl-33326210

RESUMO

The P22 tailspike endorhamnosidase confers the high specificity of bacteriophage P22 for some serogroups of Salmonella differing only slightly in their O-antigen polysaccharide. We used several biophysical methods to study the binding and hydrolysis of O-antigen fragments of different lengths by P22 tailspike protein. O-Antigen saccharides of defined length labeled with fluorophors could be purified with higher resolution than previously possible. Small amounts of naturally occurring variations of O-antigen fragments missing the nonreducing terminal galactose could be used to determine the contribution of this part to the free energy of binding to be ∼7 kJ/mol. We were able to show via several independent lines of evidence that an unproductive binding mode is highly favored in binding over all other possible binding modes leading to hydrolysis. This is true even under circumstances under which the O-antigen fragment is long enough to be cleaved efficiently by the enzyme. The high-affinity unproductive binding mode results in a strong self-competitive inhibition in addition to product inhibition observed for this system. Self-competitive inhibition is observed for all substrates that have a free reducing end rhamnose. Naturally occurring O-antigen, while still attached to the bacterial outer membrane, does not have a free reducing end and therefore does not perform self-competitive inhibition.


Assuntos
Bacteriófago P22/enzimologia , Glicosídeo Hidrolases/metabolismo , Antígenos O/metabolismo , Oligossacarídeos/metabolismo , Proteínas da Cauda Viral/metabolismo , Domínio Catalítico , Corantes Fluorescentes/química , Glicosídeo Hidrolases/antagonistas & inibidores , Glicosídeo Hidrolases/química , Hidrólise , Antígenos O/química , Oligossacarídeos/química , Ligação Proteica , Salmonella enterica/química , Proteínas da Cauda Viral/antagonistas & inibidores , Proteínas da Cauda Viral/química
6.
Dalton Trans ; 49(27): 9393-9403, 2020 Jul 21.
Artigo em Inglês | MEDLINE | ID: mdl-32588863

RESUMO

The ZinT mediated Zn(ii) uptake is one of the major differences in the metabolism of human and bacterial cells that can be challenged when looking for possible highly selective metal-based therapeutics. ZinT is a 216-amino acid periplasmic protein expressed by Gram-negative bacteria, which shuttles Zn(ii) ions to the ZnuABC transporter under zinc-limiting conditions. The suggested metal-binding sites of ZinT correspond to a domain containing three highly conserved histidine residues (His 167, 176 and 178) and to the N-terminal histidine-rich loop HGHHXH (residues 24-29). The coordination chemistry of the ZinT complexes with Zn(ii) and Cu(ii) has been investigated. The present work is focused on the protected peptides Ac-24HGHHSH29-NH2 and Ac-166DHIIAPRKSSHFH178-NH2 as models for the putative metal binding sites of ZinT from Escherichia coli (EcZinT), and Ac-24HGHHAH29-NH2 and Ac-166DHIIAPRKSAHFH178-NH2 from the ZinT protein expressed by Salmonella enterica sv. Typhimurium (SeZinT). The investigated peptides are able to form stable mono-nuclear complexes where the histidine residues represent the principal metal anchoring sites. The ZnuA (a periplasmic component of the ZnuABC transporter) metal binding site exhibits higher affinity for Zn(ii) than ZinT, suggesting that the interaction of the two proteins through the formation of a binary complex may involve the metal transfer from ZinT to ZnuA. In contrast, this would not occur in Cu(ii), since the ZinT complexes are more stable. Furthermore, at acidic pH, where the antimicrobial peptide calcitermin is biologically active, it also binds the metal ions with higher affinity than ZinT, representing a possible efficient competitor and antagonist of ZinT in the host human organism.


Assuntos
Proteínas de Bactérias/química , Cobre/química , Escherichia coli/química , Salmonella enterica/química , Zinco/química , Sítios de Ligação , Concentração de Íons de Hidrogênio
7.
Anal Bioanal Chem ; 412(15): 3595-3604, 2020 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-32248395

RESUMO

The detection of Salmonella spp. in food samples is regulated by the ISO 6579:2002 standard, which requires that precise procedures are followed to ensure the reliability of the detection process. This standard requires buffered peptone water as a rich medium for the enrichment of bacteria. However, the effects of different brands of buffered peptone water on the identification of microorganisms by Raman spectroscopy are unknown. In this regard, our study evaluated the discrimination between two bacterial species, Salmonella enterica and Escherichia coli, inoculated and analyzed with six of the most commonly used buffered peptone water brands. The results showed that bacterial cells behaved differently according to the brand used in terms of biomass production and the spectral fingerprint. The identification accuracy of the analyzed strains was between 85% and 100% depending on the given brand. Several batches of two brands were studied to evaluate the classification rates between the analyzed bacterial species. The chemical analysis performed on these brands showed that the nutrient content was slightly different and probably explained the observed effects. On the basis of these results, Raman spectroscopy operators are encouraged to select an adequate culture medium and continue its use throughout the identification process to guarantee optimal recognition of the microorganism of interest.


Assuntos
Escherichia coli/isolamento & purificação , Salmonella enterica/isolamento & purificação , Análise Espectral Raman/métodos , Técnicas de Tipagem Bacteriana/métodos , Soluções Tampão , Escherichia coli/química , Infecções por Escherichia coli/microbiologia , Humanos , Peptonas/análise , Salmonella enterica/química , Água/análise
8.
Nat Commun ; 10(1): 4927, 2019 10 30.
Artigo em Inglês | MEDLINE | ID: mdl-31666527

RESUMO

Raman optical spectroscopy promises label-free bacterial detection, identification, and antibiotic susceptibility testing in a single step. However, achieving clinically relevant speeds and accuracies remains challenging due to weak Raman signal from bacterial cells and numerous bacterial species and phenotypes. Here we generate an extensive dataset of bacterial Raman spectra and apply deep learning approaches to accurately identify 30 common bacterial pathogens. Even on low signal-to-noise spectra, we achieve average isolate-level accuracies exceeding 82% and antibiotic treatment identification accuracies of 97.0±0.3%. We also show that this approach distinguishes between methicillin-resistant and -susceptible isolates of Staphylococcus aureus (MRSA and MSSA) with 89±0.1% accuracy. We validate our results on clinical isolates from 50 patients. Using just 10 bacterial spectra from each patient isolate, we achieve treatment identification accuracies of 99.7%. Our approach has potential for culture-free pathogen identification and antibiotic susceptibility testing, and could be readily extended for diagnostics on blood, urine, and sputum.


Assuntos
Antibacterianos/uso terapêutico , Bactérias/classificação , Infecções Bacterianas/diagnóstico , Aprendizado Profundo , Análise Espectral Raman/métodos , Bactérias/química , Infecções Bacterianas/tratamento farmacológico , Infecções Bacterianas/microbiologia , Técnicas de Tipagem Bacteriana , Candida/química , Candida/classificação , Enterococcus/química , Enterococcus/classificação , Escherichia coli/química , Escherichia coli/classificação , Humanos , Klebsiella/química , Klebsiella/classificação , Modelos Logísticos , Staphylococcus aureus Resistente à Meticilina/química , Staphylococcus aureus Resistente à Meticilina/classificação , Testes de Sensibilidade Microbiana , Redes Neurais de Computação , Análise de Componente Principal , Proteus mirabilis/química , Proteus mirabilis/classificação , Pseudomonas aeruginosa/química , Pseudomonas aeruginosa/classificação , Salmonella enterica/química , Salmonella enterica/classificação , Análise de Célula Única , Staphylococcus aureus/química , Staphylococcus aureus/classificação , Streptococcus/química , Streptococcus/classificação , Máquina de Vetores de Suporte
9.
Photochem Photobiol Sci ; 18(11): 2730-2739, 2019 Nov 01.
Artigo em Inglês | MEDLINE | ID: mdl-31560013

RESUMO

Photodynamic therapy (PDT) of bacterial strains presents an attractive potential alternative to antibiotic therapies in search of the solution for the chemoresistance problem. The efficacy of the treatment is dependent on the interaction of photochemically active substances called photosensitizers (PSs) with the bacterial cell wall or their intracellular accumulation. In addition to exogenous PSs, other molecules such as 5-aminolevulinic acid (5-ALA), a natural precursor of heme, are gaining interest. When provided exogenously to cells, 5-ALA uptake results in the overproduction of various photoactive porphyrins. The pattern of their intracellular accumulation and release to the surroundings depends on incubation conditions such as the applied 5-ALA concentration, cell density and incubation duration. The detection of endogenously synthesized porphyrins in samples of Salmonella enterica cells and supernatants was accomplished after 4 h and 20 h incubation periods by means of fluorescence spectroscopy. The relative proportions of different types of porphyrins were assessed by modeling the registered spectra with the fluorescence spectra of standard porphyrins. After the shorter incubation period, the dominant porphyrins in the supernatant medium were coproporphyrins. The longer incubation period shifted the relative proportion of intracellular porphyrins from protoporphyrin IX towards water-soluble porphyrins such as uroporphyrin I, which interfered with additional by-products. The time-dependent changes in compositions of both intracellular and extracellular porphyrins imply that 5-ALA-induced sensitization might have triggered a complex protective mechanism of bacterial cells. Thus, identification and evaluation of the relative amounts of porphyrins, which accumulate in bacterial cells and are extruded outside after different time periods, could provide access to valuable information, working towards more efficient applications of 5-ALA-based antibacterial PDT.


Assuntos
Ácido Aminolevulínico/química , Fármacos Fotossensibilizantes/química , Porfirinas/química , Salmonella enterica/química , Espectrometria de Fluorescência , Ácido Aminolevulínico/farmacologia , Farmacorresistência Bacteriana/efeitos dos fármacos , Fármacos Fotossensibilizantes/farmacologia , Porfirinas/metabolismo , Salmonella enterica/efeitos dos fármacos
10.
Microbiol Spectr ; 7(4)2019 07.
Artigo em Inglês | MEDLINE | ID: mdl-31373267

RESUMO

Periplasmic flagella are complex nanomachines responsible for distinctive morphology and motility of spirochetes. Although bacterial flagella have been extensively studied for several decades in the model systems Escherichia coli and Salmonella enterica, our understanding of periplasmic flagella in many disease-causing spirochetes remains incomplete. Recent advances, including molecular genetics, biochemistry, structural biology, and cryo-electron tomography, have greatly increased our understanding of structure and function of periplasmic flagella. In this chapter, we summarize some of the recent findings that provide new insights into the structure, assembly, and function of periplasmic flagella.


Assuntos
Proteínas de Bactérias/metabolismo , Borrelia burgdorferi/metabolismo , Flagelos/metabolismo , Periplasma/metabolismo , Proteínas de Bactérias/genética , Borrelia burgdorferi/química , Borrelia burgdorferi/genética , Escherichia coli/química , Escherichia coli/genética , Escherichia coli/metabolismo , Flagelos/química , Flagelos/genética , Periplasma/química , Periplasma/genética , Salmonella enterica/química , Salmonella enterica/genética , Salmonella enterica/metabolismo
11.
Comput Biol Chem ; 83: 107110, 2019 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-31445418

RESUMO

Salmonella, an Enterobacteria is a therapeutically important pathogen for the host. The advancement of genome sequencing of S. enterica serovar Enteritidis have identified a distinct ROD9 pathogenic island, imparting virulence. The occurrence of 17 ROD9 hypothetical proteins, necessitates subsequent bioinformatics approach for structural and functional aspects of protein-protein relations or networks in different pathogenic phenotypes express. A collective analysis using predictive bioinformatics tools that includes NCBI-BLASTp and BLAST2GO annotated the motif patterns and functional significance. The VFDB identified 10 virulence proteins at both genomic and metagenomic level. Phylogenetic analysis revealed a divergent and convergent relationship between 17 ROD9 and 41 SP-1 proteins. Here, combining a comprehensive approach from sequence based, motif recognitions, domain identification, virulence ability to structural modelling provides a precise function to ROD9 proteins biological network, for which no experimental information is available.


Assuntos
Proteínas de Bactérias/análise , Anotação de Sequência Molecular , Salmonella enterica/química , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Bases de Dados de Proteínas , Fenótipo , Salmonella enterica/metabolismo
12.
Inorg Chem ; 58(16): 11091-11099, 2019 Aug 19.
Artigo em Inglês | MEDLINE | ID: mdl-31353893

RESUMO

Several bacterial species have evolutionary developed protein systems specialized in the control of intracellular gold ion concentration. In order to prevent the detrimental consequences that may be induced even at very low concentrations, bacteria such as Salmonella enterica and Cupriavidus metallidurans utilize Au-specific merR-type transcriptional regulators that detect these toxic ions and control the expression of specific resistance factors. Among these highly specialized proteins, golB has been investigated in depth, and X-ray structures of both apo and Au(I)-bound golB have been recently reported. Here, the binding of Au(I) at golB was investigated by means of multilevel computational approaches. Molecular dynamics simulations evidenced how conformations amenable for the Au(I) chelation through the Cys-XX-Cys motif on helix 1 are extensively sampled in the phase space of apo-golB. Hybrid QM/MM calculations on metal-bound structures of golB also allowed to characterize the most probable protonation state for gold binding motif and to assess the structural features mostly influencing the Au(I) coordination in this protein. Consistently with experimental evidence, we found that golB may control its Au(I) affinity by conformational changes that affect the distance between Cys10 and Cys13, thus being able to switch between the Au(I) sequestration/release-prone states in response to external stimuli. The protein structure enveloping the metal binding motif favors the thiol-thiolate protonation state of Au(I)-golB, thus probably enhancing the binding selectivity for Au(I) compared to other cations.


Assuntos
Proteínas de Bactérias/química , Ouro/química , Metaloproteínas/química , Simulação de Dinâmica Molecular , Teoria Quântica , Cupriavidus/química , Salmonella enterica/química
13.
ACS Infect Dis ; 5(7): 1214-1222, 2019 07 12.
Artigo em Inglês | MEDLINE | ID: mdl-31083918

RESUMO

Gram-negative bacteria are protected from their environment by an outer membrane that is primarily composed of lipopolysaccharides (LPSs). Under stress, pathogenic serotypes of Salmonella enterica remodel their LPSs through the PhoPQ two-component regulatory system that increases resistance to both conventional antibiotics and antimicrobial peptides (AMPs). Acquired resistance to AMPs is contrary to the established narrative that AMPs circumvent bacterial resistance by targeting the general chemical properties of membrane lipids. However, the specific mechanisms underlying AMP resistance remain elusive. Here we report a 2-fold increase in bacteriostatic concentrations of human AMP LL-37 for S. enterica with modified LPSs. LPSs with and without chemical modifications were isolated and investigated by Langmuir films coupled with grazing-incidence X-ray diffraction (GIXD) and specular X-ray reflectivity (XR). The initial interactions between LL-37 and LPS bilayers were probed using all-atom molecular dynamics simulations. These simulations suggest that initial association is nonspecific to the type of LPS and governed by hydrogen bonding to the LPS outer carbohydrates. GIXD experiments indicate that the interactions of the peptide with monolayers reduce the number of crystalline domains but greatly increase the typical domain size in both LPS isoforms. Electron densities derived from XR experiments corroborate the bacteriostatic values found in vitro and indicate that peptide intercalation is reduced by LPS modification. We hypothesize that defects at the liquid-ordered boundary facilitate LL-37 intercalation into the outer membrane, whereas PhoPQ-mediated LPS modification protects against this process by having innately increased crystallinity. Since induced ordering has been observed with other AMPs and drugs, LPS modification may represent a general mechanism by which Gram-negative bacteria protect against host innate immunity.


Assuntos
Membrana Externa Bacteriana/química , Catelicidinas/farmacologia , Lipopolissacarídeos/química , Salmonella enterica/efeitos dos fármacos , Peptídeos Catiônicos Antimicrobianos , Membrana Externa Bacteriana/efeitos dos fármacos , Proteínas de Bactérias/metabolismo , Farmacorresistência Bacteriana , Humanos , Ligação de Hidrogênio , Lipopolissacarídeos/genética , Testes de Sensibilidade Microbiana , Modelos Moleculares , Mutação , Domínios Proteicos , Salmonella enterica/química , Difração de Raios X
14.
Braz J Microbiol ; 50(3): 839-848, 2019 07.
Artigo em Inglês | MEDLINE | ID: mdl-31055774

RESUMO

The Escherichia coli GhoT/GhoS system is a type V toxin-antitoxin system in which the antitoxin GhoS cleaves the GhoT mRNA, controlling its translation. GhoT is a small hydrophobic protein that damages bacterial membranes. OrtT is a GhoT-like toxin, but it apparently lacks a corresponding antitoxin and serves a different physiologic role. Using a profile hidden Markov model approach, a Salmonella enterica serovar Houten genome was screened to obtain homologs of GhoT/OrtT. We only found one protein (referred to here as OrtT-Sal) that shared more sequence identity with OrtT than GhoT. The chromosomal region around the coding sequence of OrtT-Sal suggests that it is an orphan toxin and can be under RpoH activation. To study OrtT-Sal, we chemically synthesized and expressed in E. coli the whole toxin and its N- and C-terminal regions (OrtT-Sal1-29 and OrtT-Sal29-57, respectively). Our findings have shown that the overproduction of the polypeptides resulted in severe growth inhibition and cell lysis. Using circular dichroism, we found that OrtT-Sal, OrtT-Sal1-29, and OrtT-Sal29-57 form an alpha-helical structure in the presence of SDS micelles or TFE. Finally, using carboxyfluorescein-loaded lipid vesicles, we determined that the polypeptides damage lipid membrane directly.


Assuntos
Proteínas de Bactérias/metabolismo , Toxinas Bacterianas/metabolismo , Salmonella enterica/metabolismo , Antitoxinas/metabolismo , Proteínas de Bactérias/genética , Toxinas Bacterianas/química , Genoma Bacteriano , Estrutura Molecular , Salmonella enterica/química , Salmonella enterica/genética
15.
Proteins ; 87(8): 679-692, 2019 08.
Artigo em Inglês | MEDLINE | ID: mdl-30968972

RESUMO

Peptidase E (PepE) is a nonclassical serine peptidase with a Ser-His-Glu catalytic triad. It is specific for dipeptides with an N-terminal aspartate residue (Asp-X dipeptidase activity). Its homolog from Listeria monocytogenes (PepElm) has a Ser-His-Asn "catalytic triad." Based on sequence alignment we predicted that the PepE homolog from Deinococcus radiodurans (PepEdr) would have a Ser-His-Asp "catalytic triad." We confirmed this by solving the crystal structure of PepEdr to 2.7 Å resolution. We show that PepElm and PepEdr lack the Asp-X dipeptidase activity. Our analyses suggest that absence of P1 pocket in the active site could be the main reason for this lack of typical activity. Sequence and structural data reveal that the PepE homologs can be divided into long and short PepEs based on presence or absence of a C-terminal tail which adopts a ß-hairpin conformation in the canonical PepE from Salmonella enterica. A long PepE from Bacillus subtilis with Ser-His-Asp catalytic triad exhibits Asp-X dipeptidase activity. Whereas the three long PepEs enzymatically characterized till date have been found to possess the Asp-X dipeptidase activity, the three enzymatically characterized short PepEs lack this activity irrespective of the nature of their catalytic triads. This study illuminates the structural and functional heterogeneity in the S51 family and also provides structural basis for the functional variability among PepE homologs.


Assuntos
Aminopeptidases/química , Bacillus subtilis/enzimologia , Deinococcus/enzimologia , Listeria monocytogenes/enzimologia , Salmonella enterica/enzimologia , Bacillus subtilis/química , Domínio Catalítico , Cristalografia por Raios X , Deinococcus/química , Listeria monocytogenes/química , Modelos Moleculares , Conformação Proteica , Salmonella enterica/química
16.
J Phys Chem B ; 123(19): 4258-4270, 2019 05 16.
Artigo em Inglês | MEDLINE | ID: mdl-31030523

RESUMO

The surface charge densities, apparent equilibrium binding constants, and free energies of binding of nickel ions to supported and suspended lipid membranes prepared from POPC and two types of lipopolysaccharide (LPS) are reported. Second- and third-order nonlinear optical mixing shows that rough LPS (rLPS)-incorporated bilayers carry the highest charge density and provide the most binding sites for nickel ions while LPS-free bilayers exhibit the lowest charge density and fewest binding sites. Ni2+ binding is almost fully reversible at low concentrations but less so at higher Ni2+ concentrations. Ni2+ adsorption isotherms exhibit hysteresis loops. The role of interfacial depth on the observed second harmonic generation (SHG) responses is discussed in the context of complementary dynamic light scattering, X-ray spectroscopy, and cryogenic transmission electron microscopy experiments. The latter reveal considerable Ni2+-induced structural deformations to the bacterial membrane models containing the short, O-antigen-free rLPS, consistent with complex formation on the vesicle surfaces that involve Ni2+ ions and carboxylate groups in the inner core of rLPS. In contrast, Ni2+ ion complexation to the charged groups (phosphates and carboxylate) of the considerably longer O-antigen units in sLPS appears to protect the phospholipid backbone against metal binding and thus preserve the vesicle structure.


Assuntos
Bicamadas Lipídicas/metabolismo , Lipopolissacarídeos/química , Níquel/metabolismo , Antígenos O/metabolismo , Sítios de Ligação , Bicamadas Lipídicas/química , Níquel/química , Antígenos O/química , Fosfatidilcolinas/química , Fosfatidilcolinas/metabolismo , Ligação Proteica , Salmonella enterica/química , Eletricidade Estática
17.
J Appl Microbiol ; 126(5): 1496-1507, 2019 May.
Artigo em Inglês | MEDLINE | ID: mdl-30761711

RESUMO

AIM: To investigate the use of a light scattering sensor, BActerial Rapid Detection using Optical scattering Technology (BARDOT) coupled with a multipathogen selective medium, Salmonella, Escherichia and Listeria (SEL), for concurrent detection of the three major foodborne pathogens in a single assay. METHODS AND RESULTS: BARDOT was used to detect and distinguish the three major pathogens, Salmonella enterica, Shiga toxin-producing Escherichia coli (STEC) and Listeria monocytogenes from food based on colony scatter signature patterns on SEL agar (SELA). Multiple strains of three test pathogens were grown on SELA, and BARDOT was used to generate colony scatter image libraries for inclusive (SEL Library) and exclusive (non-SEL Library) bacterial group. These pathogens were further differentiated using the SEL scatter image library. Raw chicken and hotdog samples were artificially inoculated with pathogens (100 CFU per 25 g each), and enriched in SEL broth at 37°C for 18 h and colonies were grown on SELA for 11-22 h before screening with BARDOT. The BARDOT sensor successfully detected and differentiated Salmonella, STEC and Listeria on SELA with high classification accuracy 92-98%, 91-98% and 83-98% positive predictive values (PPV) respectively; whereas the nontarget strains showed only 0-13% PPV. BARDOT-identified colonies were further confirmed by multiplex PCR targeting inlB gene of L. monocytogenes, stx2 of STEC and sefA of S. enterica serovar Enteritidis. CONCLUSIONS: The results show that BARDOT coupled with SELA can efficiently screen for the presence of three major pathogens simultaneously in a test sample within 29-40 h. SIGNIFICANCE AND IMPACT OF THE STUDY: This innovative SELA-BARDOT detection platform can reduce turnaround time and economic burden on food industries by offering a label-free, noninvasive on-plate multipathogen screening technology for reducing microbial food safety and public health concerns.


Assuntos
Escherichia coli , Microbiologia de Alimentos/métodos , Listeria monocytogenes , Salmonella enterica , Espalhamento de Radiação , Animais , Galinhas , Escherichia coli/química , Escherichia coli/isolamento & purificação , Luz , Listeria monocytogenes/química , Listeria monocytogenes/isolamento & purificação , Carne/microbiologia , Salmonella enterica/química , Salmonella enterica/isolamento & purificação
18.
Methods Enzymol ; 617: 323-362, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-30784408

RESUMO

Biocatalysis is emerging as an alternative approach to chemical synthesis of industrially relevant complex molecules. To obtain suitable yields of compounds in a cost-effective manner, biocatalytic reaction cascades must be efficient, robust, and self-sufficient. One approach is to immobilize biocatalysts on a solid support, stabilizing the enzymes and providing optimal microenvironments for reaction sequences. Protein-based scaffolds can be designed as immobilization platforms for biocatalysts, enabling the genetically encoded spatial organization of single enzymes and multistep enzyme cascades. Additionally, protein scaffolds are versatile, are easily adapted, and remain robust under different reaction conditions. In this chapter, we describe methods for the design and production of a self-assembling protein scaffold system for in vitro coimmobilization of biocatalytic cascade enzymes. We provide detailed methods for the characterization of the protein scaffolds, as well as approaches to load biocatalytic cargo enzymes and test activity of immobilized cascades. In addition, we also discuss methods for the development of a scaffold building block toolbox with different surface properties, which could be adapted for a diversity of biocatalysts requiring alternative microenvironments for function.


Assuntos
Proteínas de Bactérias/química , Enzimas Imobilizadas/química , Salmonella enterica/química , Biocatálise , Biotecnologia/métodos , Modelos Moleculares , Proteínas Recombinantes/química , Propriedades de Superfície
19.
J Microbiol ; 57(1): 1-8, 2019 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-30552630

RESUMO

When Salmonella enterica is not in a planktonic state, it persists in organised communities encased in extracellular polymeric substances (EPS), defined as biofilms. Environmental conditions ultimately dictate the key properties of the biofilms such as porosity, density, water content, charge, sorption and ion exchange properties, hydrophobicity and mechanical stability. S. enterica has been extensively studied due to its ability to infect the gastrointestinal environment. However, only during the last decades studies on its persistence and replication in soil, plant and abiotic surfaces have been proposed. S. enterica is an environmental bacterium able to effectively persist outside the human host. It does so by using EPS as tools to cope with environmental fluctuations. We therefore address this mini-review to classify those EPS that are produced by Salmonella with focus on the environment (plant, soil, and abiotic surfaces) by using a classification of EPS proposed by Flemming and collaborators in 2007. The EPS are therefore classified as structural, sorptive, surface-active, active, and informative.


Assuntos
Proteínas de Bactérias/metabolismo , Biopolímeros/metabolismo , Matriz Extracelular de Substâncias Poliméricas/metabolismo , Plantas/microbiologia , Salmonella enterica/metabolismo , Proteínas de Bactérias/genética , Biofilmes , Biopolímeros/química , Biopolímeros/genética , Matriz Extracelular de Substâncias Poliméricas/química , Matriz Extracelular de Substâncias Poliméricas/genética , Salmonella enterica/química , Salmonella enterica/genética
20.
Anat Rec (Hoboken) ; 301(12): 2103-2111, 2018 12.
Artigo em Inglês | MEDLINE | ID: mdl-30312538

RESUMO

The ingestion of enteropathogenic Escherichia coli (EPEC), Listeria monocytogenes, or Salmonella enterica serovar Typhimurium leads to their colonization of the intestinal lumen, which ultimately causes an array of ailments ranging from diarrhea to bacteremia. Once in the intestines, these microbes generate various actin-rich structures to attach, invade, or move within the host intestinal epithelial cells. Although an assortment of actin-associated proteins has been identified to varying degrees at these structures, the localization of many actin stabilizing proteins have yet to be analyzed. Here, we examined the recruitment of the actin-associated proteins, calponin 1 and 2 at EPEC pedestals, L. monocytogenes actin clouds, comet tails and listeriopods, and S. Typhimurium membrane ruffles. In other systems, calponins are known to bind to and stabilize actin filaments. In EPEC pedestals, calponin 1 was recruited uniformly throughout the structures while calponin 2 was enriched at the apical tip. During L. monocytogenes infections, calponin 1 was found through all the actin-rich structures generated by the bacteria, while calponin 2 was only present within actin-rich structures formed by L. monocytogenes near the host cell membrane. Finally, both calponins were found within S. Typhimurium-generated membrane ruffles. Taken together, we have shown that although calponin 1 is recruited to actin-rich structures formed by the three bacteria, calponin 2 is specifically recruited to only membrane-bound actin-rich structures formed by the bacteria. Thus, our findings suggest that calponin 2 is a novel marker for membrane-bound actin structures formed by pathogenic bacteria. Anat Rec, 301:2103-2111, 2018. © 2018 Wiley Periodicals, Inc.


Assuntos
Actinas/metabolismo , Proteínas de Ligação ao Cálcio/metabolismo , Escherichia coli Enteropatogênica/metabolismo , Listeria monocytogenes/metabolismo , Proteínas dos Microfilamentos/metabolismo , Salmonella enterica/metabolismo , Actinas/análise , Células CACO-2 , Proteínas de Ligação ao Cálcio/análise , Membrana Celular/química , Membrana Celular/metabolismo , Membrana Celular/ultraestrutura , Escherichia coli Enteropatogênica/química , Humanos , Listeria monocytogenes/química , Proteínas dos Microfilamentos/análise , Salmonella enterica/química
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