Zooplankton exposure to microplastic contamination in a estuarine plume-influenced region, in Northeast Brazil.

This work describes the spatio-temporal distribution of suspected plastic and microplastic (MP) particles in estuarine plumes and analyzes the microplastic/zooplankton ratio. Subsurface hauls with a conical-cylindrical net were deployed in the coastal area of Tamandare (Pernambuco, Brazil), covering the plume of two rivers and a bay adjacent to coral reefs. A total of 2079 suspected plastic particles were detected, mostly fibers and fragments (>60%). Organic matter digestion was made using a 30% hydrogen peroxide solution, of which approximately 50% of suspected particles were validated as MPs. The average MP abundance was significantly higher during the high rainfall season (53.8 ± 89.6 and 18.8 ± 32.3 particles/m³, respectively), with higher values registered in the plume area (108.9 ± 158.5 and 44.6 ± 55.5 particles/m³). Polymer identification using FT-IR confirmed that suspected particles were mainly polypropylene, polyamide, and polyurethane. These results confirm the hypothesis of a temporal transport variation of MPs from the river to the coastal environments, particularly since the plume influences debris input. Eleven animal phyla were identified, and the subclass Copepoda was predominant (90%), particularly the nauplius stage (70%). Over 70% of verified MPs range between 20 and 2000 µm, equivalent to the most common size of zooplanktonic organisms. Results support that coastal areas near estuarine plumes are exposed to microplastic contamination, affecting species dependent on zooplankton in marine coastal food webs.

Temperature-dependent phonon dynamics of Ag3PO4 microcrystals.

In this work, we present the study of the temperature-dependent behavior of silver orthophosphate (Ag3PO4) microcrystals using in situ Raman scattering. The Ag3PO4 as-synthesized microcrystals were prepared by the precipitation method and characterized by powder X-ray diffraction (XRD), scanning electron microscopy (SEM), Raman and infrared spectroscopy, and differential scanning calorimetry (DSC). Temperature-dependent phonon dynamics were performed on Ag3PO4 microcrystals and pointed to a first-order phase transition in the temperature range 500-515 °C: Phase I (25-500 °C) â†’ Phase II (515-590 °C). The phase transition is reversible and a temperature hysteresis was observed during the heating - cooling process: Phase II (590-470 °C) â†’ Phase I (455-25 °C). The reversible phase transition is related to the distortion of the tetrahedral symmetry of PO4 caused by the decrease in the crystalline order. DSC analysis confirmed the results of temperature-dependent Raman spectroscopy.

Heteroantagonismo entre estirpes de Enterobacter agglomerans isoladas de urubu (Coragyps atratus) como produtoras e Pseudomonas aeruginosa como reveladoras / Evaluation of the heteroantagonism between Enterobacter agglomerans strains isolated from vulture (Coragyps atratus) for production and Pseudomonas aeruginosa as developed

Avaliou-se o heteroantagonismo entre Enterobacter agglomerans isolada do trato gastrintestinal de urubu (Coragyps atratus) e Pseudomonas aeruginosa isoladas do ambiente hospitalar. Foram utilizados o método de sobrecamada ou lento e a técnica direta ou de poços. Pelo método da sobrecamada, de 196 testes realizados para pesquisa da atividade antagonista, foi detectada a presença de halos de inibição relacionados ao fenômeno de heteroantagonismo em 118 deles (60,2 por cento). Pelo método de poços, obtiveram-se resultados semelhantes. As sete amostras de E. agglomerans foram capazes de realizar heteroantagonismo nas condições testadas, que foram detectados pela formação de halos claros de inibição. O extrato de levedura adicionado a 1 por cento no meio de cultura foi um suplemento adequado para a demonstração do antagonismo.

The heteroantagonism between Enterobacter agglomerans, isolated from the gastrointestinal tract of American vulture Coragyps atratus, and Pseudomonas aeruginosa isolated from a hospital environment was evaluated. The slow (layer) and the wells (direct) techniques were tested, using agar and soy tryptone broth pH 7.3 at 37ºC. Through the slow method from 196 tests, inhibition growth halos, related heteroantagonism phenomenon observed in 118, corresponding to 60.2 percent positive results. Equivalent positive results were detected using wells (direct) methodology. The seven samples of E. agglomerans tested were capable of revealing heteroantagonism in the experimental conditions; antagonism reveled by the presence of a clear growth inhibition halo. The added 1 percent yeast extract to media was adequate for revealing antagonisms best.

Bactérias do acido láctico e leveduras associadas com o queijo-de-minas artesanal produzido na região da Serra do Salitre, Minas Gerais / Lactic acid bacteria and yeasts associated with the artisanal Minas cheese produced in the region of Serra do Salitre, Minas Gerais

Em 10 fazendas da região da Serra do Salitre, MG, foram coletadas amostras de leite, soro fermentado (pingo), coalhada e queijo frescal para avaliar a microbiota de bactérias láticas e leveduras presentes. Uma diversidade menor de bactérias láticas foi observada durante a produção do queijo quando comparada à de leveduras. As espécies de bactérias láticas mais freqüentes foram Lactococcus lactis, Enterococcus spp., Enterococcus faecalis e Streptococcus agalactiae e de leveduras foram Debaryomyces hansenii e Kluyveromyces lactis. Apenas as populações de Enterococcus spp., Enterococcus faecalis e Leuconostoc mesenteroides apresentaram aumento significativo durante a produção do queijo. As espécies de bactérias láticas e leveduras encontradas nos diferentes substratos estudados podem ser responsáveis pelas características de aroma e sabor do queijo artesanal da Serra do Salitre.

Samples of milk, curd, cheese whey, and cheese were collected in 10 farms located at the region of Serra do Salitre, Minas Gerais state. These samples were studied in relation to their lactic acid bacteria and yeast populations. The diversity of lactic acid bacteria species was lower than the diversity of yeasts in these samples. The isolated lactic acid bacteria were Lactococcus lactis, Enterococcus spp., Enterococcus faecalis, and Streptococcus agalactiae; and the yeasts were Debaryomyces hansenii and Kluyveromyces lactis. Only the species Enterococcus spp., Enterococcus faecalis, and Leuconostoc mesenteroides showed an increase in their populations during the production of the artisanal cheese. Lactic acid bacteria and yeasts found in this study could be responsible by the sensorial characteristics of the artisanal cheese produced in the region of Serra do Salitre.

Dois métodos diferentes para análise cinemática dos movimentos de cabeça durante a coordenação viso-cefálica de lactentes / Two different methods for kinematic analysis of head movements relating to eye-head coordination in infants

CONTEXTUALIZAÇÃO: A análise cinemática é um método de avaliação quantitativa empregada em diferentes áreas de estudo. Na área do desenvolvimento motor, essa análise pode proporcionar uma melhor compreensão da aquisição e do desenvolvimento das habilidades motoras. OBJETIVOS: Desenvolver e comparar dois arranjos experimentais para análise cinemática dos movimentos de cabeça durante a coordenação viso-cefálica (CVC) em lactentes. MATERIAIS E MÉTODOS: Foram testados dois arranjos experimentais (A e B) que diferiam quanto ao número e posicionamento das câmeras, bem como quanto ao volume do sistema de calibração. RESULTADOS: A acurácia dos dois arranjos experimentais foi de 2,47mm, indicando que ambos podem fornecer uma reconstrução verossímil do movimento. As três câmeras usadas no arranjo B favoreceram a visualização de toda a amplitude do movimento por pelo menos uma das câmeras. Isso levou à melhora da análise qualitativa e à redução do tempo de processamento dos dados quantitativos, reduzindo-o em 33 por cento quando comparado ao arranjo A. Além disso, o arranjo B apresentou melhor relação custo-benefício. CONCLUSÕES: Ambos os arranjos são adequados para a análise cinemática dos movimentos de cabeça durante a CVC de lactentes, entretanto, o arranjo B é mais vantajoso. A metodologia do arranjo B pode ser empregada em estudos que investigam o movimento de cabeça de lactentes, sejam eles típicos ou atípicos. Os resultados de tais estudos poderão ser empregados para complementar a avaliação de lactentes de risco e, conseqüentemente, auxiliar na intervenção precoce destes.

BACKGROUND: Kinematic analysis is a method for quantitative assessment applied in different fields of study. In the field of motor development, this analysis may promote better understanding of the acquisition and development of motor skills. OBJECTIVE: To develop and compare two experimental set-ups for kinematic analysis of head movements relating to eye-head coordination (EHC) in infants. METHODS: Two experimental set-ups (A and B) were tested. They differed from each other regarding the numbers and locations of the cameras, and regarding the volume of the calibration system. RESULTS: The accuracy of the two experimental set-ups was 2.47mm, thus indicating that both can provide realistic reconstructions of the movement. The three cameras used in set-up B made it possible to view the full range of motion with at least one of the cameras. This led to improvement of the qualitative analysis and reduction of the time taken to process quantitative data, which was 33 percent shorter than seen with set-up A. In addition, set-up B presented a better cost-benefit relationship. CONCLUSIONS: Although both set-ups were adequate for kinematic analysis of head movements relating to EHC in infants, set-up B is more advantageous. The methodology for set-up B can be used in studies investigating head movements in either typical or atypical infants. The results from such studies could be used to complement assessments on at-risk infants and consequently could assist in implementing early interventions.

Metabolic enzymes of mycobacteria linked to antioxidant defense by a thioredoxin-like protein.

Mycobacterium tuberculosis (Mtb) mounts a stubborn defense against oxidative and nitrosative components of the immune response. Dihydrolipoamide dehydrogenase (Lpd) and dihydrolipoamide succinyltransferase (SucB) are components of alpha-ketoacid dehydrogenase complexes that are central to intermediary metabolism. We find that Lpd and SucB support Mtb's antioxidant defense. The peroxiredoxin alkyl hydroperoxide reductase (AhpC) is linked to Lpd and SucB by an adaptor protein, AhpD. The 2.0 angstrom AhpD crystal structure reveals a thioredoxin-like active site that is responsive to lipoamide. We propose that Lpd, SucB (the only lipoyl protein detected in Mtb), AhpD, and AhpC together constitute a nicotinamide adenine dinucleotide (reduced)-dependent peroxidase and peroxynitrite reductase. AhpD thus represents a class of thioredoxin-like molecules that enables an antioxidant defense.

Ulp1-SUMO crystal structure and genetic analysis reveal conserved interactions and a regulatory element essential for cell growth in yeast.

Modification of cellular proteins by the ubiquitin-like protein SUMO is essential for nuclear processes and cell cycle progression in yeast. The Ulp1 protease catalyzes two essential functions in the SUMO pathway: (1) processing of full-length SUMO to its mature form and (2) deconjugation of SUMO from targeted proteins. Selective reduction of the proteolytic reaction produced a covalent thiohemiacetal transition state complex between a Ulp1 C-terminal fragment and its cellular substrate Smt3, the yeast SUMO homolog. The Ulp1-Smt3 crystal structure and functional testing of elements within the conserved interface elucidate determinants of SUMO recognition, processing, and deconjugation. Genetic analysis guided by the structure further reveals a regulatory element N-terminal to the proteolytic domain that is required for cell growth in yeast.

Structure and mechanism of yeast RNA triphosphatase: an essential component of the mRNA capping apparatus.

RNA triphosphatase is an essential mRNA processing enzyme that catalyzes the first step in cap formation. The 2.05 A crystal structure of yeast RNA triphosphatase Cet1p reveals a novel active site fold whereby an eight-stranded beta barrel forms a topologically closed triphosphate tunnel. Interactions of a sulfate in the center of the tunnel with a divalent cation and basic amino acids projecting into the tunnel suggest a catalytic mechanism that is supported by mutational data. Discrete surface domains mediate Cet1p homodimerization and Cet1p binding to the guanylyltransferase component of the capping apparatus. The structure and mechanism of fungal RNA triphosphatases are completely different from those of mammalian mRNA capping enzymes. Hence, RNA triphosphatase presents an ideal target for structure-based antifungal drug discovery.

Conformational changes in E. coli DNA topoisomerase I.

DNA topoisomerases are the enzymes responsible for maintaining the topological states of DNA. In order to change the topology of DNA, topoisomerases pass one or two DNA strands through transient single or double strand breaks in the DNA phosphodiester backbone. It has been proposed that both type IA and type II enzymes change conformation dramatically during the reaction cycle in order to accomplish these transformations. In the case of Escherichia coli DNA topoisomerase I, it has been suggested that a 30 kDa fragment moves away from the rest of the protein to create an entrance into the central hole in the protein. Structures of the 30 kDa fragment reveal that indeed this fragment can change conformation significantly. The fragment is composed of two domains, and while the domains themselves remain largely unchanged, their relative arrangement can change dramatically.

Characterization of PKCI and comparative studies with FHIT, related members of the HIT protein family.

We previously described the isolation of a human cDNA that encodes a protein termed protein kinase C inhibitor (hPKCI). We elucidated the three-dimensional structure of this protein and demonstrated that in vitro, it enzymatically hydrolyzes adenosine polyphosphates. To identify other proteins that interact with hPKCI, in the present study, we used the hPKCI as a bait in the yeast two-hybrid system, together with a mouse embryo cDNA library. This led to the isolation of a murine PKCI homologue (mPKCI). This finding is consistent with our previous structural studies indicating that hPKCI exists as a homodimer and indicates the strong conservation of the PKCI sequence during evolution. Northern blot analysis indicated that a 0.7-kb PKCI mRNA was expressed in several tissues obtained from adult mice and also in a variety of rodent and human cell lines. Western blot analyses, using a polyclonal antibody prepared against hPKCI, indicated that this protein is expressed at relatively high levels in several murine tissues and in a variety of human cell lines prepared from normal tissues or tumors. In contrast to these findings, parallel studies with a polyclonal antibody to FHIT, a related histidine triad (HIT) protein and putative tumor suppressor, indicated that FHIT was expressed at low or undetectable levels in some of the same cell lines. Microscopy of immunostained cells indicated that the PKCI protein was present mainly in the nucleus of both normal and tumor-derived epithelial cell lines. Evidence presented in this and previous studies suggest that in vivo the ubiquitously expressed PKCI protein does not function as an inhibitor of PKC but rather acts as an enzyme in a yet to be identified pathway.

Structure-based analysis of catalysis and substrate definition in the HIT protein family.

The histidine triad (HIT) protein family is among the most ubiquitous and highly conserved in nature, but a biological activity has not yet been identified for any member of the HIT family. Fragile histidine triad protein (FHIT) and protein kinase C interacting protein (PKCI) were used in a structure-based approach to elucidate characteristics of in vivo ligands and reactions. Crystallographic structures of apo, substrate analog, pentacovalent transition-state analog, and product states of both enzymes reveal a catalytic mechanism and define substrate characteristics required for catalysis, thus unifying the HIT family as nucleotidyl hydrolases, transferases, or both. The approach described here may be useful in identifying structure-function relations between protein families identified through genomics.

MAD analysis of FHIT, a putative human tumor suppressor from the HIT protein family.

BACKGROUND: The fragile histidine triad (FHIT) protein is a member of the large and ubiquitous histidine triad (HIT) family of proteins. It is expressed from a gene located at a fragile site on human chromosome 3, which is commonly disrupted in association with certain cancers. On the basis of the genetic evidence, it has been postulated that the FHIT protein may function as a tumor suppressor, implying a role for the FHIT protein in carcinogenesis. The FHIT protein has dinucleoside polyphosphate hydrolase activity in vitro, thus suggesting that its role in vivo may involve the hydrolysis of a phosphoanhydride bond. The structural analysis of FHIT will identify critical residues involved in substrate binding and catalysis, and will provide insights into the in vivo function of HIT proteins. RESULTS: The three-dimensional crystal structures of free and nucleoside complexed FHIT have been determined from multiwavelength anomalous diffraction (MAD) data, and they represent some of the first successful structures to be measured with undulator radiation at the Advanced Photon Source. The structures of FHIT reveal that this protein exists as an intimate homodimer, which is based on a core structure observed previously in another human HIT homolog, protein kinase C interacting protein (PKCI), but has distinctive elaborations at both the N and C termini. Conserved residues within the HIT family, which are involved in the interactions of the proteins with nucleoside and phosphate groups, appear to be relevant for the catalytic activity of this protein. CONCLUSIONS: The structure of FHIT, a divergent HIT protein family member, in complex with a nucleotide analog suggests a metal-independent catalytic mechanism for the HIT family of proteins. A structural comparison of FHIT with PKCI and galactose-1-phosphate uridylyltransferase (GaIT) reveals additional implications for the structural and functional evolution of the ubiquitous HIT family of proteins.

Three-dimensional structure of human protein kinase C interacting protein 1, a member of the HIT family of proteins.

The three-dimensional structure of protein kinase C interacting protein 1 (PKCI-1) has been solved to high resolution by x-ray crystallography using single isomorphous replacement with anomalous scattering. The gene encoding human PKCI-1 was cloned from a cDNA library by using a partial sequence obtained from interactions identified in the yeast two-hybrid system between PKCI-1 and the regulatory domain of protein kinase C-beta. The PKCI-1 protein was expressed in Pichia pastoris as a dimer of two 13.7-kDa polypeptides. PKCI-1 is a member of the HIT family of proteins, shown by sequence identity to be conserved in a broad range of organisms including mycoplasma, plants, and humans. Despite the ubiquity of this protein sequence in nature, no distinct function has been shown for the protein product in vitro or in vivo. The PKCI-1 protomer has an alpha+beta meander fold containing a five-stranded antiparallel sheet and two helices. Two protomers come together to form a 10-stranded antiparallel sheet with extensive contacts between a helix and carboxy terminal amino acids of a protomer with the corresponding amino acids in the other protomer. PKCI-1 has been shown to interact specifically with zinc. The three-dimensional structure has been solved in the presence and absence of zinc and in two crystal forms. The structure of human PKCI-1 provides a model of this family of proteins which suggests a stable fold conserved throughout nature.

Three-dimensional structure of the 67K N-terminal fragment of E. coli DNA topoisomerase I.

The three-dimensional structure of the 67K amino-terminal fragment of Escherichia coli DNA topoisomerase I has been determined to 2.2 A resolution. The polypeptide folds in an unusual way to give four distinct domains enclosing a hole large enough to accommodate a double-stranded DNA. The active-site tyrosyl residue, which is involved in the transient breakage of a DNA strand and the formation of a covalent enzyme-DNA intermediate, is present at the interface of two domains. The structure suggests a plausible mechanism by which E. coli DNA topoisomerase I and other members of the same DNA topoisomerase subfamily could catalyse the passage of one DNA strand through a transient break in another strand.

Crystallization of a 67 kDa fragment of Escherichia coli DNA topoisomerase I.

Escherichia coli DNA topoisomerase I is a well-studied type I DNA topoisomerase that catalyzes the breakage and rejoining of one DNA strand to allow passage of the other strand. We have cloned and over-expressed a 67 kDa amino-terminal fragment of the protein, and shown that it retains the ability of the intact enzyme to cleave single-stranded DNA. High-quality crystals of the purified 67 kDa fragment have been obtained. The crystals belong to space group P2(1)2(1)2(1), with cell dimensions a = 64.0 A, b = 79.9 A and c = 142.3 A. They diffract to at least 2.8 A at low temperature and, when cooled to cryogenic temperatures, to at least 1.9 A in a synchrotron source. A complete native data set and two derivative data sets have been collected. A multiple isomorphous replacement map to 3 A resolution shows clear secondary structural elements. Final structure determination is in progress.