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1.
Breast Cancer Res Treat ; 206(2): 245-259, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38643348

ABSTRACT

PURPOSE: Programmed death receptor ligand-1 (PD-L1) expression and tumor mutational burden (TMB) are approved screening biomarkers for immune checkpoint inhibition (ICI) in advanced triple negative breast cancer. We examined these biomarkers along with characterization of the tumor microenvironment (TME) between breast tumors (BrTs), axillary metastases (AxMs), liver metastases (LvMs), non-axillary lymph node metastases, and non-liver metastases to determine differences related to site of metastatic disease. METHODS: 3076 unpaired biopsies from breast cancer patients were analyzed using whole transcriptome sequencing and NextGen DNA depicting TMB within tumor sites. The PD-L1 positivity was determined with VENTANA PD-L1 (SP142) assay. The immune cell fraction within the TME was calculated by QuantiSeq and MCP-counter. RESULTS: Compared to BrT, more LvM samples had a high TMB (≥ 10 mutations/Mb) and fewer LvM samples had PD-L1+ expression. Evaluation of the TME revealed that LvM sites harbored lower infiltration of adaptive immune cells, such as CD4+, CD8+, and regulatory T-cells compared with the BrT foci. We saw differences in innate immune cell infiltration in LvM compared to BrT, including neutrophils and NK cells. CONCLUSIONS: LvMs are less likely to express PD-L1+ tumor cells but more likely to harbor high TMB as compared to BrTs. Unlike AxMs, LvMs represent a more immunosuppressed TME and demonstrate lower gene expression associated with adaptive immunity compared to BrTs. These findings suggest biopsy site be considered when interpreting results that influence ICI use for treatment and further investigation of immune composition and biomarkers expression by metastatic site.


Subject(s)
B7-H1 Antigen , Biomarkers, Tumor , Breast Neoplasms , Liver Neoplasms , Tumor Microenvironment , Humans , Tumor Microenvironment/immunology , Female , Liver Neoplasms/secondary , Liver Neoplasms/immunology , Liver Neoplasms/genetics , Biomarkers, Tumor/genetics , Biomarkers, Tumor/metabolism , B7-H1 Antigen/metabolism , B7-H1 Antigen/genetics , Breast Neoplasms/pathology , Breast Neoplasms/immunology , Breast Neoplasms/genetics , Breast Neoplasms/metabolism , Mutation , Lymphatic Metastasis , Middle Aged , Lymphocytes, Tumor-Infiltrating/immunology , Lymphocytes, Tumor-Infiltrating/metabolism
2.
Ann Bot ; 2024 Jun 08.
Article in English | MEDLINE | ID: mdl-38850278

ABSTRACT

BACKGROUND AND AIMS: Climate change is a global phenomenon species are experiencing, which in arid regions will translate into more frequent and intense drought. The Sonoran Desert is becoming hotter and drier, and many organisms are rapidly changing in abundance and distribution. These population attributes directly depend on the dynamics of the population, which in turn depends on the vital rates of its individuals; yet few studies have documented the effects of climate change on the population dynamics of keystone species such as the saguaro cactus (Carnegiea gigantea). Although saguaros have traits that enable them to withstand present environmental conditions, climate change could make them vulnerable if forced beyond their tolerance limits. METHODS: We evaluated the effect of climate change on 13 saguaro populations spanning most of the species' distribution range. Using field data from 2014 to 2016, we built an integral projection model (IPM) describing the environmentally-explicit dynamics of the populations. We used this IPM, along with projections of two climate change and one no-change scenarios, to predict population sizes (N) and growth rates (λ) from 2017 to 2099 and compared these scenarios to demonstrate the effect of climate change on saguaro's future. KEY RESULTS: We found that all populations will decline, mainly due to future increases in drought, mostly hindering recruitment. However, the decline will be differential across populations, since those located near the coast will be affected by harsher drought events than those located further inland. CONCLUSIONS: Our study demonstrates that climate change and its associated increase in drought pose a significant threat to the saguaro cactus populations in the Sonoran Desert. Our findings indicate that the recruitment of saguaros, vital for establishing new individuals, is particularly vulnerable to intensifying drought conditions. Importantly, regional climate trends will have different impacts on saguaro populations across their distribution range.

3.
Parasitol Res ; 123(7): 274, 2024 Jul 17.
Article in English | MEDLINE | ID: mdl-39017738

ABSTRACT

The North African hedgehog (Atelerix algirus) is an introduced species from Northwest Africa and is currently distributed in the Canary Islands. This species of hedgehog has been studied as a reservoir of enteropathogens, including Cryptosporidium spp. However, there are no data at species level. Therefore, the aim of the present study was to identify the Cryptosporidium species present in a population of hedgehogs (n = 36) in the Canary Islands. Molecular screening was performed using conventional polymerase chain reaction (PCR) targeting the small subunit ribosomal RNA (18S rRNA) gene of Cryptosporidium spp. Seven of the 36 fecal samples (19.45%) were positive and confirmed by nested PCR targeting the 18S rRNA gene and Sanger sequencing. Cryptosporidium parvum and Cryptosporidium muris were identified in 11.1% (4/36) and 5.6% (2/36) of the samples, respectively, while one sample could only be identified at the genus level. The zoonotic subtypes IIdA15G1 (n = 1), IIdA16G1b (n = 1), and IIdA22G1 (n = 1) of C. parvum were identified by nested PCR followed by analysis of the 60 kDa glycoprotein (gp60) gene sequence. This study is the first genetic characterization of Cryptosporidium spp. in A. algirus, identifying zoonotic species and subtypes of the parasite.


Subject(s)
Cryptosporidiosis , Cryptosporidium , Hedgehogs , Phylogeny , Animals , Cryptosporidiosis/parasitology , Cryptosporidiosis/epidemiology , Cryptosporidium/genetics , Cryptosporidium/classification , Cryptosporidium/isolation & purification , DNA, Protozoan/genetics , DNA, Ribosomal/genetics , DNA, Ribosomal/chemistry , Feces/parasitology , Genotype , Hedgehogs/parasitology , Molecular Sequence Data , Polymerase Chain Reaction , RNA, Ribosomal, 18S/genetics , Sequence Analysis, DNA , Spain
4.
Rev Esp Enferm Dig ; 114(4): 238-239, 2022 04.
Article in English | MEDLINE | ID: mdl-34856808

ABSTRACT

A 4-month-old girl was admitted to the Emergency Department with gastric vomiting and bloody diarrhea. On physical examination, the abdomen was distended, painful, with evidence of peritoneal irritation. The abdominal X-ray showed the presence of intraluminal gas in the ascending colon, sigmoid and rectum.


Subject(s)
Pneumatosis Cystoides Intestinalis , Child , Female , Humans , Infant , Pneumatosis Cystoides Intestinalis/complications , Pneumatosis Cystoides Intestinalis/diagnostic imaging , Radiography, Abdominal , Rectum , Tomography, X-Ray Computed
5.
Med Chem Res ; 31(10): 1705-1715, 2022 Oct.
Article in English | MEDLINE | ID: mdl-37065467

ABSTRACT

Oxacillin is a first-line antibiotic for the treatment of methicillin-sensitive Staphylococcus aureus (MSSA) infections but is ineffective against methicillin-resistant S. aureus (MRSA) due to resistance. Here we present results showing that co-administering oxacillin with the FtsZ-targeting prodrug TXA709 renders oxacillin efficacious against MRSA. The combination of oxacillin and the active product of TXA709 (TXA707) is associated with synergistic bactericidal activity against clinical isolates of MRSA that are resistant to current standard-of-care antibiotics. We show that MRSA cells treated with oxacillin in combination with TXA707 exhibit morphological characteristics and PBP2 mislocalization behavior similar to that exhibited by MSSA cells treated with oxacillin alone. Co-administration with TXA709 renders oxacillin efficacious in mouse models of both systemic and tissue infection with MRSA, with this efficacy being observed at human-equivalent doses of oxacillin well below that recommended for daily adult use. Pharmacokinetic evaluations in mice reveal that co-administration with TXA709 also increases total exposure to oxacillin. Viewed as a whole, our results highlight the clinical potential of repurposing oxacillin to treat MRSA infections through combination with a FtsZ inhibitor.

6.
Med Chem Res ; 31(10): 1679-1704, 2022 Oct.
Article in English | MEDLINE | ID: mdl-37077288

ABSTRACT

MreB is a cytoskeleton protein present in rod-shaped bacteria that is both essential for bacterial cell division and highly conserved. Because most Gram (-) bacteria require MreB for cell division, chromosome segregation, cell wall morphogenesis, and cell polarity, it is an attractive target for antibacterial drug discovery. As MreB modulation is not associated with the activity of antibiotics in clinical use, acquired resistance to MreB inhibitors is also unlikely. Compounds, such as A22 and CBR-4830, are known to disrupt MreB function by inhibition of ATPase activity. However, the toxicity of these compounds has hindered efforts to assess the in vivo efficacy of these MreB inhibitors. The present study further examines the structure-activity of analogs related to CBR-4830 as it relates to relative antibiotic activity and improved drug properties. These data reveal that certain analogs have enhanced antibiotic activity. In addition, we evaluated several representative analogs (9, 10, 14, 26, and 31) for their abilities to target purified E. coli MreB (EcMreB) and inhibit its ATPase activity. Except for 14, all these analogs were more potent than CBR-4830 as inhibitors of the ATPase activity of EcMreB with corresponding IC50 values ranging from 6 ± 2 to 29 ± 9 µM.

7.
Entropy (Basel) ; 24(5)2022 Apr 30.
Article in English | MEDLINE | ID: mdl-35626521

ABSTRACT

Nowadays, in Mexico, most of the installed electricity generation capacity corresponds to combined cycles, representing 37.1%. For this reason, it is important to maintain these cycles in good operating conditions, with the least environmental impacts. An exergoeconomic and environmental analysis is realized to compare the operation of the combined cycle, with and without postcombustion, with the comparison of exergoeconomic and environmental indicators. With the productive structure of the energy system, the process of formation of the final products and the residues are identified, and an allocation criterion is also used to impute the formation cost of residue to the productive components related to its formation. This criterion considers the irreversibilities generated in each productive component that participates in the formation of a residue. The compositions of pollutant gases emitted are obtained, and their environmental impact is determined. The unit exergoeconomic cost of the power output in the gas turbine is lower in the combined cycle with postcombustion, indicating greater efficiency in the process of obtaining this energy stream, and the environmental indicators of global warming, smog formation and acid rain formation are higher in the combined cycle with postcombustion, these differences being 5.22%, 5.53% and 5.30%, respectively.

8.
J Bacteriol ; 203(16): e0020421, 2021 07 22.
Article in English | MEDLINE | ID: mdl-34031040

ABSTRACT

Methicillin-resistant Staphylococcus aureus (MRSA) is a multidrug-resistant pathogen of acute clinical importance. Combination treatment with an FtsZ inhibitor potentiates the activity of penicillin binding protein (PBP)-targeting ß-lactam antibiotics against MRSA. To explore the mechanism underlying this synergistic behavior, we examined the impact of treatment with the FtsZ inhibitor TXA707 on the spatial localization of the five PBP proteins expressed in MRSA. In the absence of drug treatment, PBP1, PBP2, PBP3, and PBP4 colocalize with FtsZ at the septum, contributing to new cell wall formation. In contrast, PBP2a localizes to distinct foci along the cell periphery. Upon treatment with TXA707, septum formation becomes disrupted, and FtsZ relocalizes away from midcell. PBP1 and PBP3 remain significantly colocalized with FtsZ, while PBP2, PBP4, and PBP2a localize away from FtsZ to specific sites along the periphery of the enlarged cells. We also examined the impact on PBP2a and PBP2 localization of treatment with ß-lactam antibiotic oxacillin alone and in synergistic combination with TXA707. Significantly, PBP2a localizes to the septum in approximately 15% of the oxacillin-treated cells, a behavior that likely contributes to the ß-lactam resistance of MRSA. Combination treatment with TXA707 causes both PBP2a and PBP2 to localize in malformed septum-like structures. Our collective results suggest that PBP2, PBP4, and PBP2a may function collaboratively in peripheral cell wall repair and maintenance in response to FtsZ inhibition by TXA707. Cotreatment with oxacillin appears to reduce the availability of PBP2a to assist in this repair, thereby rendering the MRSA cells more susceptible to the ß-lactam. IMPORTANCE MRSA is a multidrug-resistant bacterial pathogen of acute clinical importance, infecting many thousands of individuals globally each year. The essential cell division protein FtsZ has been identified as an appealing target for the development of new drugs to combat MRSA infections. Through synergistic actions, FtsZ-targeting agents can sensitize MRSA to antibiotics like the ß-lactams that would otherwise be ineffective. This study provides key insights into the mechanism underlying this synergistic behavior as well as MRSA resistance to ß-lactam drugs. The results of this work will help guide the identification and optimization of combination drug regimens that can effectively treat MRSA infections and reduce the potential for future resistance.


Subject(s)
Anti-Bacterial Agents/pharmacology , Bacterial Proteins/antagonists & inhibitors , Cytoskeletal Proteins/antagonists & inhibitors , Methicillin-Resistant Staphylococcus aureus/metabolism , Penicillin-Binding Proteins/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Cell Wall/genetics , Cell Wall/metabolism , Cytoskeletal Proteins/genetics , Cytoskeletal Proteins/metabolism , Drug Synergism , Methicillin-Resistant Staphylococcus aureus/drug effects , Methicillin-Resistant Staphylococcus aureus/genetics , Oxacillin/pharmacology , Penicillin-Binding Proteins/genetics , Protein Transport/drug effects , beta-Lactams/pharmacology
9.
Molecules ; 26(18)2021 Sep 21.
Article in English | MEDLINE | ID: mdl-34577181

ABSTRACT

In this study, we report the lowest energy structure of bare Cu13 nanoclusters as a pair of enantiomers at room temperature. Moreover, we compute the enantiomerization energy for the interconversion from minus to plus structures in the chiral putative global minimum for temperatures ranging from 20 to 1300 K. Additionally, employing nanothermodynamics, we compute the probabilities of occurrence for each particular isomer as a function of temperature. To achieve that, we explore the free energy surface of the Cu13 cluster, employing a genetic algorithm coupled with density functional theory. Moreover, we discuss the energetic ordering of isomers computed with various density functionals. Based on the computed thermal population, our results show that the chiral putative global minimum strongly dominates at room temperature.

10.
Entropy (Basel) ; 23(3)2021 Mar 15.
Article in English | MEDLINE | ID: mdl-33804170

ABSTRACT

This paper considers the criterion of minimum compression work to derive an expression for the interstage pressure of a multistage compressor with intercooling that includes the gas properties, pressure drops in the intercoolers, different suction gas temperatures, and isentropic efficiencies in each compression stage. The analytical expression for the interstage pressures is applied to estimate the number of compression stages and to evaluate its applicability in order to estimate interstage pressures in the operation of multistage compressors, which can be especially useful when their measurements are not available.

11.
Proc Biol Sci ; 287(1922): 20192873, 2020 03 11.
Article in English | MEDLINE | ID: mdl-32156208

ABSTRACT

Interactions between species are influenced by different ecological mechanisms, such as morphological matching, phenological overlap and species abundances. How these mechanisms explain interaction frequencies across environmental gradients remains poorly understood. Consequently, we also know little about the mechanisms that drive the geographical patterns in network structure, such as complementary specialization and modularity. Here, we use data on morphologies, phenologies and abundances to explain interaction frequencies between hummingbirds and plants at a large geographical scale. For 24 quantitative networks sampled throughout the Americas, we found that the tendency of species to interact with morphologically matching partners contributed to specialized and modular network structures. Morphological matching best explained interaction frequencies in networks found closer to the equator and in areas with low-temperature seasonality. When comparing the three ecological mechanisms within networks, we found that both morphological matching and phenological overlap generally outperformed abundances in the explanation of interaction frequencies. Together, these findings provide insights into the ecological mechanisms that underlie geographical patterns in resource specialization. Notably, our results highlight morphological constraints on interactions as a potential explanation for increasing resource specialization towards lower latitudes.


Subject(s)
Birds , Ecosystem , Pollination , Animals , Biodiversity , Geography , Plants
12.
Mol Biol Rep ; 47(12): 9429-9439, 2020 Dec.
Article in English | MEDLINE | ID: mdl-33259012

ABSTRACT

Biological response to stress depends on the type, timing, and severity of the stressor. Acute stressful environments may positively activate molecular and cellular mechanisms to favor adaptation; however, chronic stress is often associated with detrimental health effects. Colon cancer (CC) is one of the leading causes of death associated with cancer and has been mentioned as a stress-related disease. In the present work, the effect of chronic stress on the initial phase of CC was evaluated, and special emphasis was placed on ornithine decarboxylase (ODC) expression and polyamines for their role in hyperproliferative diseases. BALB/c mice (n = 5/group) were administered the pro-carcinogen 1,2-dimethylhydrazine (DMH) for 8 weeks (20 mg/kg body weight/week) to induce colon carcinogenesis, and then exposed for 4 weeks to two physical stressors: restraint and forced-swimming. Distal colon inflammatory lesions and histomorphological changes were evaluated by hematoxylin-eosin staining; plasma corticosterone levels, colon ODC expression, and urinary polyamines were determined by competitive ELISA, RT-qPCR, Western Blot, and HPLC, respectively. The short-term exposure to DMH triggered colon inflammation, initiated colon carcinogenesis and increased ODC expression; meanwhile, the exposure to chronic stress activated the hypothalamic-pituitary-adrenal (HPA) axis, elicited the production of plasmatic corticosterone, and decreased ODC expression. The exposure of DMH-treated mice to chronic stress counteracted the inflammatory effect of DMH and maintained ODC homeostasis. In early phase of carcinogenesis, the exposure of DMH-treated mice to chronic stress had a positive effect against colon inflammation and maintained ODC homeostasis. The cross-talk between corticosterone, ODC expression, and inflammation in a tumor environment is discussed.


Subject(s)
1,2-Dimethylhydrazine/adverse effects , Carcinogenesis/drug effects , Carcinogenesis/metabolism , Carcinogens/administration & dosage , Colonic Neoplasms/blood , Colonic Neoplasms/chemically induced , Ornithine Decarboxylase/metabolism , Signal Transduction/drug effects , Stress, Physiological , 1,2-Dimethylhydrazine/administration & dosage , Animals , Colon/metabolism , Colonic Neoplasms/urine , Corticosterone/blood , Female , Hypothalamo-Hypophyseal System/metabolism , Mice , Mice, Inbred BALB C , Polyamines/urine
13.
Oecologia ; 192(2): 439-448, 2020 Feb.
Article in English | MEDLINE | ID: mdl-31938884

ABSTRACT

Population projections coupled with downscaled climate projections are a powerful tool that allows predicting future population dynamics of vulnerable plants in the face of a changing climate. Traditional approaches used to predict the vulnerability of plants to climate change (e.g. species distribution models) fail to mechanistically describe the basis of a population's dynamics and thus cannot be expected to correctly predict its temporal trends. In this study, we used a 23-year demographic dataset of the acuña cactus, an endangered species, to predict its population dynamics to the end of the century. We used integral projection models to describe its vital rates and population dynamics in relation to plant volume and key climatic variables. We used the resulting climate-driven IPM along with climatic projections to predict the population growth rates from 1991 to 2099. We found the average population growth rate of this population between 1991 and 2013 to be 0.70 (95% CI 0.61-0.79). This result confirms that the population of acuña cactus has been declining and that this decline is due to demographic structure and climate conditions. However, the projection model also predicts that, up to 2080, the population will remain relatively stable mainly due to the survival of its existing adult individuals. Notwithstanding, the long-term viability of the populations can only be achieved through the recruitment of new individuals.


Subject(s)
Cactaceae , Climate Change , Animals , Population Dynamics , Population Forecast , Population Growth
14.
Oecologia ; 193(4): 913-924, 2020 Aug.
Article in English | MEDLINE | ID: mdl-32772157

ABSTRACT

In semi-arid environments, the marked contrast in temperature and precipitation over the year strongly shapes ecological communities. The composition of species and their ecological interactions within a community may vary greatly over time. Although intra-annual variations are often studied, empirical information on how plant-bird relationships are structured within and among years, and how their drivers may change over time are still limited. In this study, we analyzed the temporal dynamics of the structure of plant-hummingbird interaction networks by evaluating changes in species richness, diversity of interactions, modularity, network specialization, nestedness, and ß-diversity of interactions throughout four years in a Mexican xeric shrubland landscape. We also evaluated if the relative importance of abundance, phenology, morphology, and nectar sugar content consistently explains the frequency of pairwise interactions between plants and hummingbirds across different years. We found that species richness, diversity of interactions, nestedness, and network specialization did vary within and among years. We also observed that the ß-diversity of interactions was high among years and was mostly associated with species turnover (i.e., changes in species composition), with a minor contribution of interaction rewiring (i.e., shifting partner species at different times). Finally, the temporal co-occurrence of hummingbird and plant species among months was the best predictor of the frequency of pairwise interactions, and this pattern was consistent within and among years. Our study underscores the importance of considering the temporal scale to understand how changes in species phenologies, and the resulting temporal co-occurrences influence the structure of interaction networks.


Subject(s)
Birds , Pollination , Animals , Mexico , Plant Nectar , Plants
15.
Entropy (Basel) ; 22(3)2020 Mar 05.
Article in English | MEDLINE | ID: mdl-33286073

ABSTRACT

In an energy system, it is important to identify the origin of residue formation in order to implement actions to reduce their formation or to eliminate them as well as to evaluate their impact on the production costs of the system. In the exergetic cost theory, although there are several criteria to allocate the cost formation of residues to the productive components, no unique indication on the best choice has been defined yet. In this paper, the production exergy costs are determined by allocating the residue cost formation to the irreversibilities of the productive components from which they originate. This criterion, based on the Gouy-Stodola theorem, is an extension of the criterion of entropy changes, and unlike this, it avoids the existence of a negative production cost. This criterion is applied to a combined cycle of three pressure levels, and the production exergy costs are compared with the criteria of entropy changes, distributed exergy, and entropy. The results of the proposed criterion are in agreement with the compared criteria.

16.
J Anim Ecol ; 88(9): 1417-1427, 2019 09.
Article in English | MEDLINE | ID: mdl-31286510

ABSTRACT

Sex in crocodilians is not determined by chromosomes, but by egg incubation temperature, where different temperatures produce different clutch sex ratios. Two patterns have been proposed to describe these changes in sex ratios: a 100% female proportion at low and high temperatures with male predominance at intermediate ones (FMF) or a simpler pattern with a single female-to-male transition (FM). Over the last three decades, researchers have provided empirical information to support either of these two patterns in different species; however, no consensus has been reached partly because data have not been analysed as a whole. Here, we aimed at gathering the existing data on these patterns to provide models of temperature-dependent sex determination in those crocodilians studied so far. Potentially relevant publications were searched on Web of Knowledge, Scopus, Scielo and Science Direct. Studies that reported results on the sexual identity of crocodilian hatchlings obtained from constant temperature incubation treatments were considered. Using statistical models varying in their underlying assumptions, we evaluated which sex-determination pattern was best supported for the studied crocodilians and constructed species-specific and latitude-specific models. Based on the 8,458 sexed hatchlings studied throughout 31 studies, we show that the evidence supports a shared FMF pattern in all the crocodilian species for which enough data are available. We find that such pattern changes between species and at different latitudes. These results suggest a lability of the FMF crocodilian sex-determination pattern, a key feature under the present climate change scenario.


Subject(s)
Alligators and Crocodiles , Animals , Female , Male , Models, Statistical , Sex Ratio , Temperature
17.
Biotechnol Lett ; 41(2): 241-252, 2019 Feb.
Article in English | MEDLINE | ID: mdl-30519796

ABSTRACT

OBJECTIVES: Ustilago maydis lipase A (UMLA) expressed in Pichia pastoris was compared with Candida antarctica lipase A (CALA) to study its biochemical properties such as thermostability and selectivity. RESULTS: UMLA had similar behavior to its homologue CALA regarding the effect of pH and temperature on enzymatic activity, substrate preference and selectivity. Both lipases were active on insoluble triglycerides as well as natural oils and hydrolyzed preferably esters with short and medium acyl and alkyl chains. Both enzymes were slightly selective for the (S)-glycidyl butyrate enantiomer and had a remarkable preference for the sn-2 position of triglycerides. The optimal activity was 40 and 50 °C for UMLA and CALA, respectively. However, temperature had a greater effect on the stability of UMLA compared to CALA, observing a half-life at 50 °C of 2.07 h and 12.83 h, respectively. CONCLUSIONS: UMLA shares some biochemical properties with CALA such as the sn-2 preference on triglyceride hydrolysis and transesterification. However, the high thermostability attributed to CALA was not observed in UMLA; this can be due to the lack of stabilization via AXXXA motifs in helices and fewer proline residues at the surface.


Subject(s)
Candida/enzymology , Lipase/genetics , Recombinant Proteins/chemistry , Recombinant Proteins/metabolism , Ustilago/enzymology , Enzyme Stability , Esterification , Fungal Proteins/chemistry , Fungal Proteins/genetics , Fungal Proteins/metabolism , Half-Life , Hydrogen-Ion Concentration , Hydrolysis , Lipase/chemistry , Lipase/metabolism , Substrate Specificity , Thermodynamics , Triglycerides/metabolism
18.
Molecules ; 24(17)2019 Aug 29.
Article in English | MEDLINE | ID: mdl-31470504

ABSTRACT

Brucellosis, also known as "undulant fever" is a zoonotic disease caused by Brucella, which is a facultative intracellular bacterium. Despite efforts to eradicate this disease, infection in uncontrolled domestic animals persists in several countries and therefore transmission to humans is common. Brucella evasion of the innate immune system depends on its ability to evade the mechanisms of intracellular death in phagocytic cells. The BvrR-BvrS two-component system allows the bacterium to detect adverse conditions in the environment. The BvrS protein has been associated with genes of virulence factors, metabolism, and membrane transport. In this study, we predicted the DNA sequence recognized by BvrR with Gibbs Recursive Sampling and identified the three-dimensional structure of BvrR using I-TASSER suite, and the interaction mechanism between BvrR and DNA with Protein-DNA docking and molecular dynamics (MD) simulation. Based on the Gibbs recursive Sampling analysis, we found the motif AAHTGC (H represents A, C, and T nucleotides) as a possible sequence recognized by BvrR. The docking and EMD simulation results showed that C-terminal effector domain of BvrR protein is likely to interact with AAHTGC sequence. In conclusion, we predicted the structure, recognition motif, and interaction of BvrR with DNA.


Subject(s)
Bacterial Proteins/chemistry , Brucella/chemistry , DNA/chemistry , Virulence Factors/chemistry , Amino Acid Motifs , Bacterial Proteins/metabolism , Binding Sites , Brucella/pathogenicity , DNA/metabolism , Molecular Docking Simulation , Molecular Dynamics Simulation , Nucleotide Motifs , Protein Binding , Protein Conformation, alpha-Helical , Protein Conformation, beta-Strand , Protein Interaction Domains and Motifs , Structural Homology, Protein , Thermodynamics , Virulence Factors/metabolism
19.
J Chem Phys ; 148(5): 054303, 2018 Feb 07.
Article in English | MEDLINE | ID: mdl-29421909

ABSTRACT

Non-covalent interactions (NCIs) play a crucial role in the behavior and properties of ionic liquids (ILs). These interactions are particularly important for non-equilibrium properties such as the change in viscosity due to shearing forces (shear viscosity). Therefore, a detailed understanding of these interactions can improve our understanding of these important classes of liquids. Here, we have employed quantum mechanical energy decomposition analysis (EDA) and NCI analysis to investigate a series of representative 1-butyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide ([bmim][Tf2N]) ion pairs extracted from classical equilibrium and non-equilibrium molecular dynamics simulations. EDA based on symmetry-adapted perturbation theory (SAPT) for the complete monomers, as well as fragment SAPT (FSAPT), for the functional fragments has been carried out. In general, the electrostatic component comprises ≈80% of the intermolecular interaction, and significant contributions from other components (induction and dispersion) are also observed, especially for interactions involving bifurcated hydrogen bonds. The FSAPT analysis suggests that caution is warranted when employing simplified assumptions for non-bonded interactions, e.g., focusing only on hydrogen bonds between functional fragments, since this view may not provide a complete picture of the complicated interactions between the ions. In non-equilibrium molecular dynamics, the total interaction energies of some fragments have a significant qualitative change as the shear rate increases. Our results indicate that the inter-fragment interactions play a fundamental role in the viscous behavior of ILs, suggesting that the exclusive use of geometric criteria to analyze inter-molecular interactions in these systems is not sufficient to investigate shear-thinning effects.

20.
Article in English | MEDLINE | ID: mdl-28630190

ABSTRACT

Methicillin-resistant Staphylococcus aureus (MRSA) is a multidrug-resistant pathogen that poses a significant risk to global health today. We have developed a promising new FtsZ-targeting agent (TXA707) with potent activity against MRSA isolates resistant to current standard-of-care antibiotics. We present here results that demonstrate differing extents of synergy between TXA707 and a broad range of ß-lactam antibiotics (including six cephalosporins, two penicillins, and two carbapenems) against MRSA. To explore whether there is a correlation between the extent of synergy and the preferential antibacterial target of each ß-lactam, we determined the binding affinities of the ß-lactam antibiotics for each of the four native penicillin-binding proteins (PBPs) of S. aureus using a fluorescence anisotropy competition assay. A comparison of the resulting PBP binding affinities with our corresponding synergy results reveals that ß-lactams with a high affinity for PBP2 afford the greatest degree of synergy with TXA707 against MRSA. In addition, we present fluorescence and electron microscopy studies that suggest a potential mechanism underlying the synergy between TXA707 and the ß-lactam antibiotics. In this connection, our microscopy results show a disruption of septum formation in TXA707-treated MRSA cells, with a concomitant mislocalization of the PBPs from midcell to nonproductive peripheral sites. Viewed as a whole, our results indicate that PBP2-targeting ß-lactam antibiotics are optimal synergistic partners with FtsZ-targeting agents for use in combination therapy of MRSA infections.


Subject(s)
Anti-Bacterial Agents/pharmacology , Bacterial Proteins/metabolism , Methicillin-Resistant Staphylococcus aureus/drug effects , Penicillin-Binding Proteins/metabolism , beta-Lactams/pharmacology , Methicillin/pharmacology , Methicillin Resistance/drug effects , Methicillin-Resistant Staphylococcus aureus/metabolism , Microbial Sensitivity Tests/methods
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