Application of PolyPRep tools on HIV protease polyproteins using molecular docking

Abstract In recent years, the development of high-throughput technologies for obtaining sequence data leveraged the possibility of analysis of protein data in silico. However, when it comes to viral polyprotein interaction studies, there is a gap in the representation of those proteins, given their size and length. The prepare for studies using state-of-the-art techniques such as Machine Learning, a good representation of such proteins is a must. We present an alternative to this problem, implementing a fragmentation and modeling protocol to prepare those polyproteins in the form of peptide fragments. Such procedure is made by several scripts, implemented together on the workflow we call PolyPRep, a tool written in Python script and available in GitHub. This software is freely available only for noncommercial users.

Resumo Nos últimos anos, o desenvolvimento de tecnologias de alto rendimento para obtenção de dados sequenciais potencializou a possibilidade de análise de dados proteicos in silico. No entanto, quando se trata de estudos de interação de poliproteínas virais, existe uma lacuna na representação dessas proteínas, devido ao seu tamanho e comprimento. Para estudos utilizando técnicas de ponta como o Aprendizado de Máquina, uma boa representação dessas proteínas é imprescindível. Apresentamos uma alternativa para este problema, implementando um protocolo de fragmentação e modelagem para preparar essas poliproteínas na forma de fragmentos de peptídeos. Tal procedimento é feito por diversos scripts, implementados em conjunto no workflow que chamamos de PolyPRep, uma ferramenta escrita em script Python e disponível no GitHub. Este software está disponível gratuitamente apenas para usuários não comerciais.

Application of PolyPRep tools on HIV protease polyproteins using molecular docking / Aplicação da ferramenta PolyPRep em poliproteínas de protease de HIV usando docking molecular

Abstract In recent years, the development of high-throughput technologies for obtaining sequence data leveraged the possibility of analysis of protein data in silico. However, when it comes to viral polyprotein interaction studies, there is a gap in the representation of those proteins, given their size and length. The prepare for studies using state-of-the-art techniques such as Machine Learning, a good representation of such proteins is a must. We present an alternative to this problem, implementing a fragmentation and modeling protocol to prepare those polyproteins in the form of peptide fragments. Such procedure is made by several scripts, implemented together on the workflow we call PolyPRep, a tool written in Python script and available in GitHub. This software is freely available only for noncommercial users.

Resumo Nos últimos anos, o desenvolvimento de tecnologias de alto rendimento para obtenção de dados sequenciais potencializou a possibilidade de análise de dados proteicos in silico. No entanto, quando se trata de estudos de interação de poliproteínas virais, existe uma lacuna na representação dessas proteínas, devido ao seu tamanho e comprimento. Para estudos utilizando técnicas de ponta como o Aprendizado de Máquina, uma boa representação dessas proteínas é imprescindível. Apresentamos uma alternativa para este problema, implementando um protocolo de fragmentação e modelagem para preparar essas poliproteínas na forma de fragmentos de peptídeos. Tal procedimento é feito por diversos scripts, implementados em conjunto no workflow que chamamos de PolyPRep, uma ferramenta escrita em script Python e disponível no GitHub. Este software está disponível gratuitamente apenas para usuários não comerciais.

Integridad Del ADN Espermático Y La Toxicidad Reproductiva Del Nitrato De Plomo En Ratones Machos Adultos

Introducción: La toxicidad del plomo se ha relacionado a diferentes patologías en humanos y varias evidencias sugieren una fuerte relación con el daño observado sobre la función reproductiva en humanos y roedores. Método: Se proporcionó a ratones una dosis única de nitrato de plomo (NP) (50mg/kg/pc), los cuales fueron eutanizados siete días postinyección con el objetivo de evaluar los espermatozoides que han salido de los túbulos seminíferos y están en tránsito por el epidídimo; además, se evaluó la fragmentación del ADN espermático mediante el ensayo tunel. Resultados: La disminución del peso corporal en ratones, tratados con NP (p 0,05); de igual manera, los valores fisiológicos como conteo y movilidad espermática no disminuyeron con el tratamiento (p > 0.05). El tránsito y maduración de los espermatozoides en el epidídimo no sería afectado por el NP, y al no observar aumento en la fragmentación del ADN espermático en el grupo tratado (p > 0,05), la protaminación espermática estaría cumpliendo su rol protector sobre el material genético murino, por lo que no hubo daños genotóxicos por el NP. Conclusión: La administración intraperitoneal de 50mg/kg/pc de NP, por siete días, no causa toxicidad sistémica ni efecto en la espermatogénesis en ratón.

Introduction: Lead toxicity has been linked to different diseases in humans and several evidences suggest a strong relationship with the observed damage on reproductive function in humans and rodents. Methods: Mice were given a single dose of lead nitrate (NP) (50mg/kg/bw), which were euthanized seven days post-injection with the aim of evaluating sperm to come out from the seminiferous tubules and are in transit through the epididymis. Also, the Tunel test was done to evaluate the sperm DNA fragmentation. Results: The decrease in body weight in mice treated with ln (p 0.05), in the same way physiological values such as sperm concentration and motility didn´t decrease with the treatment (p > 0.05). Transit and sperm maturation in the epididymis would not be affected by the ln, and because we did not observe increased sperm DNA fragmentation in the treated group (p > 0.05), sperm protamination would be fulfilling its protective role on murine genetic material avoiding genotoxic damage by ln. Conclusion: The intraperitoneal administration of 50mg/kg/pc of ln for seven days does not cause systemic toxicity or effect on spermatogenesis in mice.

Pequenos mamíferos como hospedeiros e reservatórios de Hantavírus em uma área periurbana de Mata Atlântica

Mammals play key roles in the dynamics of ecosystems, performing different ecosystem services. Among the forest mammals of neotropical regions, small mammals form one of the most diverse ecological groups. The landscape structure reflects on the displacement of individuals, changing the density of different populations of animals, influencing the transmission rate of pathogens between these animals, and also between humans. Small mammals are potential hosts and/or reservoirs of viruses that can cause zoonotic diseases. Among emerging zoonoses, in which the transmission cycle is related to these animals, hantaviruses are one of the most important. Literature data suggest that the viral detection rate in wild animals tends to be higher in degraded areas than in preserved areas. Data collected in a peri- urban area was compared with the scientific literature of similar analyses. Two field campaigns were carried out to capture small terrestrial mammals. For the detection of Hantavirus, oral and rectal swab samples were collected and analyzed from the captured specimens, and swab samples previously collected from chiroptera in the same location in 2021 were also analyzed. Of the 86 samples of small mammals analyzed by qPCR and by conventional PCR, all were negative for Hantavirus. The non-detection of Hantavirus in the small mammals sampled at the study site does not exclude the possibility of the presence of this virus in these animals in the sampled area and also in the region where this area is located, since this virus has already been found in nearby regions. It was not possible to verify if the hypothesis, that the incidence of Hantavirus in small mammals tends to be higher in degraded regions than in preserved regions, is true. It is necessary to have continuous monitoring, in small mammals and also in other wild animals, in order to have effective viral control and also to anticipate the emergence of new viruses of zoonotic origin.

Os mamíferos executam papéis fundamentais nas dinâmicas dos ecossistemas, protagonizando diferentes serviços ecossistêmicos. Dentre os mamíferos das florestas de regiões neotropicais, os pequenos mamíferos formam um dos grupos ecológicos mais diversificados. A estrutura da paisagem reflete no deslocamento de indivíduos, alterando a densidade de diferentes populações de animais, influenciando na taxa de transmissão de patógenos entre estes animais, e também entre humanos. Os pequenos mamíferos são potenciais hospedeiros e/ou reservatórios de vírus que podem ocasionar doenças zoonóticas. Dentre as zoonoses emergentes, em que o ciclo de transmissão está relacionado a esses animais, as hantaviroses são uma das mais importantes. Dados da literatura sugerem que a taxa de detecção viral em animais silvestres tende a ser maior em áreas degradadas do que em áreas preservadas. Comparou-se dados coletados em uma área de região periurbana com a literatura científica de análises semelhantes. Foram realizadas duas campanhas de campo para a captura de pequenos mamíferos terrestres. Para a detecção de Hantavírus, foram coletadas e analisadas amostras de swabs orais e retais dos espécimes capturados, e também foram analisadas amostras de swabs coletados anteriormente em quirópteros no mesmo local em 2021. Das 86 amostras de pequenos mamíferos analisadas por qPCR e por PCR convencional, todas foram negativas para Hantavírus. A não detecção de Hantavírus nos pequenos mamíferos amostrados no local de estudo não exclui a possibilidade de presença deste vírus nesses animais na área amostrada e também na região em que essa área se encontra, visto que este vírus já foi encontrado em regiões próximas. Não foi possível averiguar se a hipótese, de que a incidência de Hantavírus em pequenos mamíferos tende a ser maior em regiões degradadas do que em regiões preservadas, é verdadeira. É necessário que haja um monitoramento contínuo, em pequenos mamíferos e também em outros animais silvestres, para que se tenha um controle viral eficaz e também para antecipar o surgimento de novos vírus de origem zoonótica.

The effect of sperm DNA fragmentation on in vitro fertilization outcomes of unexplained infertility

Abstract Background Infertility is caused by heterogeneous risks, but most of them are unexplained. The sperm DNA Fragmentation Index (DFI) was increasingly acknowledged as a parameter for the evaluation of male infertility. This study aimed to investigate the association between sperm DFI and laboratory and clinical outcomes in a population with unexplained infertility. Methods The clinical data of an infertile population was collected for the selection of reproductive patients with unexplained infertility. The authors classified the patients with normal sperm parameters in a control group (DFI < 25%) and an observation group (DFI ≥ 25%) and compared the difference in basal characteristics, laboratory, and clinical outcomes between the two groups. The authors conducted a correlation analysis to examine the relationship between DFI and the number of D3 good-quality embryos, as well as the clinical pregnancy rate and live birth rate. A total of 176 cases were enrolled in the retrospective study. Results The observation group (n = 88) showed advanced male age, lower sperm concentration, progressive motility, and morphology assessment than the control group. In addition, lower No. of D3 good-quality embryos, clinical pregnancy rate, and the live birth rate were shown in the observation group. A negative correlation between the DFI and No. of D3 good-quality embryos (rs = -0.347, p < 0.001) or live birth rate (rs = -0.185, p = 0.028) was shown. Conclusions Sperm DFI was a good indicator for the prediction of D3 good-quality embryos in unexplained infertility couples, but it did not provide sufficient information regarding clinical pregnancy outcome but live pregnancy outcome.

Endoparasites of marsupials in fragments of the Atlantic rainforest, western Paraná State, Brazil / Endoparasitas de marsupiais em fragmentos de Mata Atlântica no oeste do Estado do Paraná, Brasil

Abstract Knowledge of taxonomy and biodiversity of parasites is fundamental to better understand ecosystem dynamics. The objective of this study was to describe the helminth fauna of two species of marsupials in five fragments of the Atlantic rainforest in the western region of Paraná State, Brazil. In a total of 4050 trap-nights, the animals were captured using Sherman, Tomahawk, and Pitfall traps, euthanized, necropsied, and their organs inspected for helminths. After identification of the parasites, descriptors of infection, such as prevalence, mean abundance, mean intensity, and range of intensity, were calculated. Collectively, six helminth species were observed in 18 animals. The following five species were observed in Marmosa paraguayana: Viannaia hamata (58.8%), Gracilioxyuris agilisis (52.9%), Travassostrongylus sextus (17.6%), Oncicola luehei (5.9%), and Pritchardia boliviensis (5.9%). Whereas the following two species were observed in Monodelphis dimidiata: Trichohelix tuberculata (100%) and Travassostrongylus sextus (100%). This study represents a new locality record for all helminths described herein, and a new host for four helminth species. This is the first report on the helminth fauna of Monodelphis dimidiata, expanding knowledge about marsupials in the Brazilian Atlantic Forest.

Resumo Conhecimentos taxonômicos e da biodiversidade parasitária são fundamentais para uma melhor compreensão da dinâmica do ecossistema. O objetivo do estudo foi descrever a helmintofauna de marsupiais em cinco fragmentos de Mata Atlântica, na região Oeste do Estado do Paraná, Brasil. Em um total de 4.050 armadilhas/noite, os animais foram capturados com as do tipo Sherman, Tomahawk e Pitfall, eutanasiados, necropsiados e seus órgãos inspecionados em busca de helmintos. Após a identificação do parasita, foram calculados os indicadores de infecção (prevalência, abundância média, intensidade média e variação de intensidade). Seis espécies de helmintos foram observadas em dezoito animais; cinco em Marmosa paraguayana: Viannaia hamata (58,8%), Gracilioxyuris agilisis (52,9%), Travassostrongylus sextus (17,6%), Oncicola luehei (5,9%) e Pritchardia boliviensis (5,9%), e duas em Monodelphis dimidiata: Trichohelix tuberculata (100%) e Travassostrongylus sextus (100%). Este estudo representa um novo registro de localidade para todos os helmintos descritos e um novo hospedeiro para quatro deles. Trata-se do primeiro relato da helmintofauna de Monodelphis dimidiata, expandindo-se os conhecimentos sobre marsupiais na mata Atlântica brasileira.

Effects of habitat loss on three insect assemblages in modified ecosystems of foothills of the Colombian Orinoquia / Efectos de la pérdida de hábitat en tres ensambles de insectos en ecosistemas modificados de Piedemonte en la Orinoquia colombiana

Abstract Introduction: The effects of habitat transformation have been widely studied and the effects are well-known at different levels of biological organization. However, few studies have focused on responses to this process at the level of multiple taxa in diverse taxonomic and functional groups. Objective: Determine the variations in taxonomic and functional diversity of ants, butterflies, and dung beetles, at a spatial and temporal level in a landscape mosaic of the ecoregion of the Colombian foothills. Methods: We assessed amount of natural habitat and landscape composition in four types of vegetation, during the highest and lowest rain periods. We collected butterflies with hand nets and used baited pitfall traps for dung beetles and ants. Results: Habitat loss positively affected ant and butterfly species richness, and negatively affected dung beetles. The abundance of ants and butterflies had a positive effect on the dominance of species in the transformed vegetation, for dung beetles the abundance was negatively affected by the absence of canopy cover. Habitat loss had no negative effect on functional diversity as there is no difference between natural and transformed vegetation. Conclusions: The amount of habitat, habitat connectivity and different types of vegetation cover were important factors in the maintenance of insect diversity in the modified ecosystems of foothills of the Colombian Orinoquia. The lack of a common spatial and temporal pattern shows that studies of multiple insect taxa should be carried out for biodiversity monitoring and conservation processes.

Resumen Introducción: Los efectos de la transformación del hábitat han sido ampliamente estudiados y son bien conocidos los efectos a diferentes niveles de organización biológica. Sin embargo, pocos estudios se han centrado en las respuestas a este proceso a nivel de múltiples taxones en diversos grupos taxonómicos y funcionales. Objetivo: Determinar las variaciones en la diversidad taxonómica y funcional de hormigas, mariposas y escarabajos coprófagos, a nivel espacial y temporal en un mosaico paisajístico de la ecorregión del piedemonte colombiano. Métodos: Evaluamos la cantidad de hábitat natural y la composición del paisaje en cuatro tipos de vegetación, durante los períodos de mayor y menor lluvia. Recolectamos mariposas con redes de mano y usamos trampas de caída con cebo para escarabajos coprófagos y hormigas. Resultados: La pérdida de hábitat afectó positivamente la riqueza de especies de hormigas y mariposas y afectó negativamente a los escarabajos peloteros. La abundancia de hormigas y mariposas tuvo un efecto positivo sobre la dominancia de especies en la vegetación transformada, para los escarabajos coprófagos la abundancia se vio afectada negativamente por la ausencia de cobertura de dosel. La pérdida de hábitat no tuvo un efecto negativo sobre la diversidad funcional ya que no hay diferencia entre la vegetación natural y la transformada. Conclusiones: La cantidad de hábitat, la conectividad del hábitat y los diferentes tipos de cobertura vegetal fueron factores importantes en el mantenimiento de la diversidad de insectos en los ecosistemas modificados del piedemonte de la Orinoquia colombiana. La falta de un patrón espacial y temporal común muestra que se deben realizar estudios de múltiples taxones de insectos para los procesos de monitoreo y conservación de la biodiversidad.

Morcellement du corps et chirurgie bariatrique. De l'organique au corporel dans leur rapport aux logiques structrurelles / Body fragmentation and bariatric surgery. From the organic to the corporeal in their relationship to structural logics / Fragmentação do corpo e cirurgia bariátrica. Do orgânico ao corpóreo em sua relação com a lógica estrutural / Fragmentación corporal y cirurgía bariátrica. De lo orgánico a lo corpóreo en su relación con las lógicas estructurales

Les auteurs, cliniciens et chercheurs en psychopathologie, développent un phénomène psychique transtructurel rencontré chez des patients obèses opérés d'une chirurgie bariatrique: des fantasmes et des délires de morcellement corporel. C'est à partir d'un cas clinique de névrose et un autre de psychose, que l'impact psychique de la chirurgie bariatrique sera étudié, avec la mise en lumière d'une altération de l'image du corps et de ses sensations qui serait à l'origine de ce phénomène de morcellement.

The authors, clinicians, and researchers in psychopathology, developed a trans-structural psychic phenomenon found in obese patients who have undergone bariatric surgery: fantasies and delusions of body fragmentation. The psychic impact of bariatric surgery was studied based on a clinical case of neurosis and another one of psychosis, highlighting an alteration of body image and its sensations which would be at the origin of this phenomenon of fragmentation.

Resumos Os autores, clínicos e pesquisadores em psicopatologia, desenvolvem um fenômeno psíquico transestrutural encontrado em pacientes obesos submetidos à cirurgia bariátrica: fantasias e delírios de fragmentação do corpo. Com base em um caso clínico de neurose e outro de psicose, será estudado o impacto psíquico da cirurgia bariátrica, destacando uma alteração na imagem do corpo e suas sensações, que estariam na origem desse fenômeno de fragmentação.

Los autores, clínicos e investigadores en el campo de la psicopatología, desarrollan un fenómeno psíquico transestructural encontrado en pacientes obesos sometidos a la cirugía bariátrica: fantasías y delirios de fragmentación del cuerpo. Desde un caso clínico de neurosis y otro de psicosis, se estudiará el impacto psíquico de la cirugía bariátrica, destacando una alteración de la imagen corporal y de sus sensaciones, que serían el origen de este fenómeno de fragmentación.

Effects of Jinkui Shenqi and Wuzi Yanzong pill on sperm motility and sperm DNA fragmentation rate in asthenospermia

This study was designed to compare the effects of Jinkui Shenqi and Wuzi Yanzong pill on sperm motility and sperm DNA fragmentation rate in patients with asthenospermia. 130 cases were randomly divided into an observation and control group (n=65). The control group was treated with the Wuzi Yanzong pill while the observation group with the Jinkui Shenqi pill. The sperm motility parameters rate (PR), semen concentration, sperm motility, DFI and α-glucosidase, fructose, seminal plasma zinc (Zn), acid phosphatase (ACP) in seminal plasma biochemistry and other indexes of were observed. The biochemical indexes of seminal plasma of α-glucosidase, fructose, Zn, ACP in two groups were significantly (p<0.05) improved after treatment. Compared with the control group, the indexes of the observation group improved more obviously after treatment. Pearson correlation analysis of DFI and PR indexes in 130 patients before treatment showed that sperm DFI and PR percentage were negatively correlated in asthenospermia patients (r =-0.572, P<0.05). There was no significant difference in DFI, semen concentration, PR, and sperm motility between the two groups before treatment. The DFI, semen concentration, PR and sperm viability of the two groups showed a tendency to improve after treatment, and the effect of the observation group was less significant than that of the control group (p<0.05). Two groups of patients have completed treatment successfully, no adverse events occurred during treatment. Jinkui Shenqi pill can effectively treat asthenospermia, which can effectively improve the effect of sperm motility in patients. It has less adverse reactions, safe and reliable, and is worthy of promotion.

The combined effect of lifestyle intervention and antioxidant therapy on sperm DNA fragmentation and seminal oxidative stress in IVF patients: a pilot study

ABSTRACT Purpose: Sperm DNA fragmentation (SDF) and seminal oxidative stress are emerging measurable factors in male factor infertility, which interventions could potentially reduce. We evaluated (i) the impact of lifestyle changes combined with oral antioxidant intake on sperm DNA fragmentation index (DFI) and static oxidation-reduction potential (sORP), and (ii) the correlation between DFI and sORP. Materials and Methods: We conducted a prospective study involving 93 infertile males with a history of failed IVF/ICSI. Ten healthy male volunteers served as controls. Semen analysis was carried out according to 2010 WHO manual, whereas seminal sORP was measured using the MiOXSYS platform. SDF was assessed by sperm chromatin structure assay. Participants with DFI >15% underwent a three-month lifestyle intervention program, primarily based on diet and exercise, combined with oral antioxidant therapy using multivitamins, coenzyme Q10, omega-3, and oligo-elements. We assessed changes in semen parameters, DFI, and sORP, and compared DFI results to those of volunteers obtained two weeks apart. Spearman rank correlation tests were computed for sORP and DFI results. Results: Thirty-eight (40.8%) patients had DFI >15%, of whom 31 participated in the intervention program. A significant decrease in median DFI from 25.8% to 18.0% was seen after the intervention (P <0.0001). The mean DFI decrease was 7.2% (95% CI: 4.8-9.5%; P <0.0001), whereas it was 0.42% (95%CI; -4.8 to 5.6%) in volunteers (P <0.00001). No differences were observed in sperm parameters and sORP. Based on paired sORP and DFI data from 86 patients, no correlation was observed between sORP and DFI values (rho=0.03). Conclusion: A 3-month lifestyle intervention program combined with antioxidant therapy reduced DFI in infertile men with elevated SDF and a history of failed IVF/ICSI. A personalized lifestyle and antioxidant intervention could improve fertility of subfertile couples through a reduction in DFI, albeit controlled trials evaluating reproductive outcomes are needed before firm conclusions can be made. Trial registration number and date: clinicaltrials.gov NCT03898752, April 2, 2019.

Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos / Uso da melatonina como inibidor do processo apoptotico para a criopreservação de embriões de zebrafish (Danio rerio)

This study investigated the use of melatonin to arrest the effects of apoptosis in vitrified zebrafish (D. rerio) embryos. Dechorionated embryos at 22-24 somite-stage were divided (n = 60/treatment) into a non-vitrified (Control Group, 0 M melatonin) and vitrified treatments with 0 M (T1), 1 µM (T2) and 1 mM of melatonin (T3). For vitrified treatments, a solution methanol/propylene glycol based was used and the embryos stored in -196 °C for a week. After thaw, survival rate, scanning electron microscopy, expression of anti (bcl-2) and pro-apoptotic (bax/caspase-3) genes, reactive oxygen species (ROS) formation and DNA fragmentation analyses were performed. No live embryos were obtained from vitrified treatments, observing a rapid degeneration immediately after thawing, with the vitelline layer rupture and leakage of its content, followed by breakdown of epithelial cells and melanisation of the tissue. Regarding the apoptotic process, T3 had the highest relative gene expression, for the three genes (P 0.05). The inclusion of 1 µM of melatonin in the vitrifying solution, countered the effects of apoptotic process in post-thaw embryos, suggesting its utility in cryopreserving fish embryos.

Este estudo investigou o uso da melatonina para conter os efeitos da apoptose em embriões vitrificados de zebrafish (D. rerio). Embriões descorionados no estágio de 22-24 somitos foram divididos (n = 60 / tratamento) em tratamento não vitrificado (Grupo Controle, melatonina 0 M) e tratamentos vitrificados com 0 M (T1), 1 µM (T2) e 1 mM de melatonina (T3). Para os tratamentos vitrificados, utilizou-se uma solução à base de metanol/propilenoglicol e os embriões foram armazenados em -196 °C por uma semana. Após o descongelamento, foram realizadas análises de taxa de sobrevivência, microscopia eletrônica de varredura, expressão dos genes anti (bcl-2) e pró-apoptóticos (bax/caspase-3), formação de espécies reativas de oxigênio (EROS) e análises de fragmentação de DNA. Não foram obtidos embriões vivos a partir dos tratamentos vitrificados, observando uma rápida degeneração imediatamente após o descongelamento, com ruptura da camada vitelina e vazamento de seu conteúdo, seguida de quebra das células epiteliais e melanização do tecido. Em relação ao processo apoptótico. T3 apresentou expressão gênica relativa alta para os três genes (P 0,05). A inclusão de 1 µM de melatonina na solução de vitrificação, contrariou os efeitos do processo apoptótico em embriões pós-descongelamento, sugerindo sua utilidade na criopreservação de embriões de peixes.

Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos

Abstract This study investigated the use of melatonin to arrest the effects of apoptosis in vitrified zebrafish (D. rerio) embryos. Dechorionated embryos at 22-24 somite-stage were divided (n = 60/treatment) into a non-vitrified (Control Group, 0 M melatonin) and vitrified treatments with 0 M (T1), 1 µM (T2) and 1 mM of melatonin (T3). For vitrified treatments, a solution methanol/propylene glycol based was used and the embryos stored in -196 °C for a week. After thaw, survival rate, scanning electron microscopy, expression of anti (bcl-2) and pro-apoptotic (bax/caspase-3) genes, reactive oxygen species (ROS) formation and DNA fragmentation analyses were performed. No live embryos were obtained from vitrified treatments, observing a rapid degeneration immediately after thawing, with the vitelline layer rupture and leakage of its content, followed by breakdown of epithelial cells and melanisation of the tissue. Regarding the apoptotic process, T3 had the highest relative gene expression, for the three genes (P 0.05) furthermore, T2 had similar expression of pro-apoptotic genes to CG (P 0.05). ROS formation revealed that CG presented lower percentage of embryo surface area affected (3.80 ± 0.40%) (P 0.05), in contrast, no differences were found among the other groups. T1 was most significantly (P 0.05) damaged by DNA fragmentation. The vitrified groups with melatonin had similar damage levels of CG (P > 0.05). The inclusion of 1 µM of melatonin in the vitrifying solution, countered the effects of apoptotic process in post-thaw embryos, suggesting its utility in cryopreserving fish embryos.

Resumo Este estudo investigou o uso da melatonina para conter os efeitos da apoptose em embriões vitrificados de zebrafish (D. rerio). Embriões descorionados no estágio de 22-24 somitos foram divididos (n = 60 / tratamento) em tratamento não vitrificado (Grupo Controle, melatonina 0 M) e tratamentos vitrificados com 0 M (T1), 1 µM (T2) e 1 mM de melatonina (T3). Para os tratamentos vitrificados, utilizou-se uma solução à base de metanol/propilenoglicol e os embriões foram armazenados em -196 °C por uma semana. Após o descongelamento, foram realizadas análises de taxa de sobrevivência, microscopia eletrônica de varredura, expressão dos genes anti (bcl-2) e pró-apoptóticos (bax/caspase-3), formação de espécies reativas de oxigênio (EROS) e análises de fragmentação de DNA. Não foram obtidos embriões vivos a partir dos tratamentos vitrificados, observando uma rápida degeneração imediatamente após o descongelamento, com ruptura da camada vitelina e vazamento de seu conteúdo, seguida de quebra das células epiteliais e melanização do tecido. Em relação ao processo apoptótico. T3 apresentou expressão gênica relativa alta para os três genes (P 0,05), além disso, T2 apresentou expressão semelhante as dos genes pró-apoptóticos de GC (P 0,05). A formação de EROS revelou que GC apresentou menor percentual de área de superfície embrionária afetada (3,80 ± 0,40%) (P 0,05), ao contrário, não foram encontradas diferenças entre os outros grupos. T1 foi mais significativamente (P 0,05) danificado pela fragmentação do DNA. Os grupos vitrificados com melatonina apresentaram níveis de dano semelhantes ao do GC (P> 0,05). A inclusão de 1 µM de melatonina na solução de vitrificação, contrariou os efeitos do processo apoptótico em embriões pós-descongelamento, sugerindo sua utilidade na criopreservação de embriões de peixes.

Sistemas de informação na gestão de recursos humanos em saúde da Secretaria de Estado de Saúde do Rio de Janeiro / Information systems in the administration of human resources in health at the Rio de Janeiro State Department of Health

Este estudo aborda o tema de sistemas de informação utilizados na gestão de recursos humanos em saúde na Secretaria de Estado de Saúde do Rio de Janeiro (SES/RJ), órgão da Administração Direta do Poder Executivo do Estado. A SES/RJ é responsável por definir políticas de saúde no Estado, a qual utiliza vários sistemas de informação para gestão de sua força de trabalho, com evidências de fragmentação dos dados, dificuldade na gestão das informações e prejuízo na definição de estratégias. Nesse sentido, este trabalho tem como objetivo descrever os sistemas de informação de recursos humanos em uso na SES/RJ, no contexto dos modelos de gestão adotados em suas unidades de saúde, e contribuir para melhorar a gestão de recursos humanos e das informações geradas no âmbito da instituição, fornecendo subsídios para o processo de tomada de decisão. Para tanto, fez-se, primeiramente, uma revisão bibliográfica sobre o tema desde o ano de 1995, período da Reforma do Estado, e uma pesquisa documental em portais e legislações, tanto da SES/RJ como de outros órgãos estaduais, assim como das esferas federal e municipal. Em seguida, o trabalho discute as possibilidades e os subsídios que possam favorecer a interoperabilidade desses sistemas e, assim, facilitar a gestão da força de trabalho na instituição.

This study investigates the use of information systems in the administration of human resources in health at the Rio de Janeiro State Department of Health (SES/RJ), which is part of the Direct Administration of the State Government. SES/RJ oversees establishing state health policies and managing its staff using a variety of information systems, with evidence of data fragmentation, information management challenges, and strategy development impairment. In this sense, this study aims to describe the human resources information systems in use at SES/RJ in relation to the management models used in its health units, as well as to contribute to improving human resources management and the information generated within the institution by providing decision-making inputs. To that end, we conducted a bibliographic review of the topic dating back to 1995, during the State Reform period, as well as document search in the portals and legislation of SES/RJ and other state agencies, as well as federal and municipal domains. The study then moves on to the possibilities and advantages that may encourage system interoperability and, as a result, make labor management in the institution easier.

Use of melatonin as an inhibitor of apoptotic process for cryopreservation of zebrafish (Danio rerio) embryos / Uso da melatonina como inibidor do processo apoptotico para a criopreservação de embriões de zebrafish (Danio rerio)

This study investigated the use of melatonin to arrest the effects of apoptosis in vitrified zebrafish (D. rerio) embryos. Dechorionated embryos at 22-24 somite-stage were divided (n = 60/treatment) into a non-vitrified (Control Group, 0 M melatonin) and vitrified treatments with 0 M (T1), 1 µM (T2) and 1 mM of melatonin (T3). For vitrified treatments, a solution methanol/propylene glycol based was used and the embryos stored in -196 °C for a week. After thaw, survival rate, scanning electron microscopy, expression of anti (bcl-2) and pro-apoptotic (bax/caspase-3) genes, reactive oxygen species (ROS) formation and DNA fragmentation analyses were performed. No live embryos were obtained from vitrified treatments, observing a rapid degeneration immediately after thawing, with the vitelline layer rupture and leakage of its content, followed by breakdown of epithelial cells and melanisation of the tissue. Regarding the apoptotic process, T3 had the highest relative gene expression, for the three genes (P < 0.05) furthermore, T2 had similar expression of pro-apoptotic genes to CG (P < 0.05). ROS formation revealed that CG presented lower percentage of embryo surface area affected (3.80 ± 0.40%) (P < 0.05), in contrast, no differences were found among the other groups. T1 was most significantly (P < 0.05) damaged by DNA fragmentation. The vitrified groups with melatonin had similar damage levels of CG (P > 0.05). The inclusion of 1 µM of melatonin in the vitrifying solution, countered the effects of apoptotic process in post-thaw embryos, suggesting its utility in cryopreserving fish embryos.

Este estudo investigou o uso da melatonina para conter os efeitos da apoptose em embriões vitrificados de zebrafish (D. rerio). Embriões descorionados no estágio de 22-24 somitos foram divididos (n = 60 / tratamento) em tratamento não vitrificado (Grupo Controle, melatonina 0 M) e tratamentos vitrificados com 0 M (T1), 1 µM (T2) e 1 mM de melatonina (T3). Para os tratamentos vitrificados, utilizou-se uma solução à base de metanol/propilenoglicol e os embriões foram armazenados em -196 °C por uma semana. Após o descongelamento, foram realizadas análises de taxa de sobrevivência, microscopia eletrônica de varredura, expressão dos genes anti (bcl-2) e pró-apoptóticos (bax/caspase-3), formação de espécies reativas de oxigênio (EROS) e análises de fragmentação de DNA. Não foram obtidos embriões vivos a partir dos tratamentos vitrificados, observando uma rápida degeneração imediatamente após o descongelamento, com ruptura da camada vitelina e vazamento de seu conteúdo, seguida de quebra das células epiteliais e melanização do tecido. Em relação ao processo apoptótico. T3 apresentou expressão gênica relativa alta para os três genes (P <0,05), além disso, T2 apresentou expressão semelhante as dos genes pró-apoptóticos de GC (P <0,05). A formação de EROS revelou que GC apresentou menor percentual de área de superfície embrionária afetada (3,80 ± 0,40%) (P <0,05), ao contrário, não foram encontradas diferenças entre os outros grupos. T1 foi mais significativamente (P <0,05) danificado pela fragmentação do DNA. Os grupos vitrificados com melatonina apresentaram níveis de dano semelhantes ao do GC (P> 0,05). A inclusão de 1 µM de melatonina na solução de vitrificação, contrariou os efeitos do processo apoptótico em embriões pós-descongelamento, sugerindo sua utilidade na criopreservação de embriões de peixes.

Seasonality and bait type driving the diversity of dung beetle (Scarabaeidae: Scarabaeinae) communities in urban remnants of the Atlantic Forest

ABSTRACT Describing dung beetle communities in tropical forest remnants located in disturbed/urbanized and conserved areas can provide information about the functioning of these ecosystems and support conservation plans. This study aimed to verify the effect of seasons and bait type on dung beetle communities in remnants of the Atlantic Forest in order to describe their composition and diversity parameters. The study was carried out during both the rainy and dry seasons in periurban and urban remnants. Eighteen pitfall traps baited with feces, carrion, and injured millipedes were established in each site. A total of 3501 individuals and 23 species were recorded. Urban remnant presented higher abundance of individuals in the dry season. On the other hand, in periurban remnant the higher abundance was verified in the rainy season. The diversity was higher in the rainy season in both sites. In urban remnant, Coprophanaeus ensifer was found to be generalist regarding its choice of bait (feces and carrion). The use of injured millipedes as bait allowed the record of the predatory species Deltochilum alpercata. Among the types of bait used, the injured millipedes proved to be very effective, capturing a greater diversity of dung beetles during the rainy season in both remnants, and allowed the collection of specialized, necrophages, and generalists species. Therefore, we propose the use of mixed-bait sampling designs in inventories and surveys to increase the chances of sampling species with different traits or dietary preferences, which are often rare in collections.

Actualización sobre COVID-19 e histofisiología del sistema reproductor masculino / Update on COVID-19 and histophysiology of the male reproductive system

RESUMEN: La reciente pandemia de la COVID-19 ha sacudido a la sociedad teniendo una importante repercusión en el campo de la salud y de la investigación. Dada su relevancia, se han llevado a cabo estudios sobre los efectos del SARS-CoV-2 en la fisiología humana. En concreto, sobre la posible presencia y transmisión del virus a través del sistema reproductor masculino y su posible efecto en el éxito reproductivo. Conocer si la presencia del virus altera los órganos responsables del desarrollo y maduración de las células de la serie espermatogénica podría revelarnos su implicación en la calidad seminal. Por ello, nos planteamos esta revisión, con el fin de analizar las principales evidencias científicas sobre los efectos del SARS-CoV-2 en la histofisiología del sistema reproductor masculino y sobre la capacidad fecundante de los espermatozoides.

SUMMARY: The recent COVID-19 pandemic has shaken up society, having a significant impact on the field of health and research. Given its relevance, studies have been performed on the effects of SARS-CoV-2 on human physiology. In particular, the possible presence and transmission of the virus through the male reproductive system could affect reproductive success. Knowing if the presence of the virus disrupts the organs responsible for the development and maturation of the cell lines involved in spermatogenesis could reveal its implications in sperm quality. For that reason, we proposed this review, in order to analyze the main scientific evidence on the effects of SARS-CoV-2 on the histophysiology of the male reproductive system and sperm fertilizing capacity.

Posibles impactos de la carretera Iquitos-Saramiriza sobre la biodiversidad de Loreto, Perú / Possible impacts of the Iquitos-Saramiriza highway on the biodiversity of Loreto, Peru

Resumen La construcción de la carretera Iquitos-Saramiriza proyectada en el departamento de Loreto plantea amenazas sobre la fauna y flora de una zona altamente biodiversa y poco alterada. Aquí, resumimos dichas amenazas en tres puntos: 1) impactos probables, identificados a través de revisión de literatura, 2) estimación de la deforestación, realizada por comparación con otras carreteras amazónicas peruanas y 3) especies más probablemente impactadas. La lista de impactos probables incluyó fragmentación de hábitat, deterioro ambiental, atropellos, dispersión de patógenos, especies invasoras, deforestación, caminos no oficiales y cacería. Estos impactos podrían afectar a unas 3961 especies de plantas y 1595 de vertebrados. La deforestación, en el transcurso de las tres próximas décadas, podría llegar a ser entre 1128 y 3200 km², lo que equivale a más del 80% de la deforestación que ha sufrido Loreto en los últimos 20 años. La fragmentación podría afectar principalmente a unas 83 especies arborícolas y ampliarse hasta la totalidad de fauna y flora en áreas con mayor deforestación. Los atropellos impactarían principalmente a unas 287 especies de animales terrestres, mientras la cacería podría dirigirse hacia unas 31 especies principales. Para 14 especies de vertebrados, la carretera corta completamente su distribución conocida, pudiendo generar poblaciones con poco o nulo intercambio genético. En base a los posibles impactos proyectados, proponemos acciones de mitigación, incluyendo el remplazo de un tramo por transporte fluvial, creación de áreas de protección estricta, instalación de pasos de fauna y la consideración de impactos indirectos en el EIA correspondiente y en otros instrumentos ambientales.

Abstract La construcción de la carretera Iquitos-Saramiriza proyectada en el departamento de Loreto plantea amenazas sobre la fauna y flora de una zona altamente biodiversa y poco alterada. Aquí, resumimos dichas amenazas en tres puntos: 1) impactos probables, identificados a través de revisión de literatura, 2) estimación de la deforestación, realizada por comparación con otras carreteras amazónicas peruanas y 3) especies más probablemente impactadas. La lista de impactos probables incluyó fragmentación de hábitat, deterioro ambiental, atropellos, dispersión de patógenos, especies invasoras, deforestación, caminos no oficiales y cacería. Estos impactos podrían afectar a unas 3961 especies de plantas y 1595 de vertebrados. La deforestación, en el transcurso de las tres próximas décadas, podría llegar a ser entre 1128 y 3200 km², lo que equivale a más del 80% de la deforestación que ha sufrido Loreto en los últimos 20 años. La fragmentación podría afectar principalmente a unas 83 especies arborícolas y ampliarse hasta la totalidad de fauna y flora en áreas con mayor deforestación. Los atropellos impactarían principalmente a unas 287 especies de animales terrestres, mientras la cacería podría dirigirse hacia unas 31 especies principales. Para 14 especies de vertebrados, la carretera corta completamente su distribución conocida, pudiendo generar poblaciones con poco o nulo intercambio genético. En base a los posibles impactos proyectados, proponemos acciones de mitigación, incluyendo el remplazo de un tramo por transporte fluvial, creación de áreas de protección estricta, instalación de pasos de fauna y la consideración de impactos indirectos en el EIA correspondiente y en otros instrumentos ambientales.

Estructura poblacional del árbol Avicennia germinans (Acanthaceae) en un manglar alterado del Golfo de México / Population structure of Avicennia germinans trees (Acanthaceae) in a disturbed mangrove in the Gulf of Mexico

Resumen Introducción: Los manglares están en declive en el mundo, conocer su estructura y regeneración en diferentes niveles de alteración puede ayudar a comprender la dinámica poblacional ante situaciones de estrés. Objetivo: La meta principal del estudio fue analizar la estructura comunitaria y estimar la trayectoria de las poblaciones de Avicenia germinans en diferentes sitios de manglar que presentan tres niveles de alteración. Métodos: Ocho transectos de aproximadamente 500 m de largo y colocados de manera perpendicular a la laguna de Tampamachoco, Veracruz, interceptaron tres niveles de alteración en los sitios estudiados del bosque de manglar. En cada transecto, cuadrantes de 10 x 10 m, 5 x 5 m, y 1 x 1 m sirvieron para contar todos los árboles de mangle por especie y estadio de madurez en 2017 y 2018. Resultados: La especie más abundante fue: A. germinans seguida de Rhizophora mangle y Laguncularia racemosa. Con base en su abundancia, se encontraron diferencias significativas según los tres grados de alteración (AM R = 0.6, P < 0.001), ilustrado en un análisis de ordenación no métrico (nMDS). Una tabla de vida para A. germinans permitió un análisis poblacional que mostró una tasa intrínseca de incremento poblacional (r) negativa para los sitios que presentan alteración (-0.0027 u -0.0774) y positiva (0.0289) en el sitio sin alteración aparente. La supervivencia del estadio de plántula a juvenil varia de 50 % en el sitio no alterados a 5 y 4 % en los otros dos sitios. Conclusiones: Se necesitan medidas para incrementar la sobrevivencia de las plántulas y revertir la disminución de las trayectorias en los sitios con alteración, de otra forma el manglar tendrá una viabilidad reducida en el término medio.

Abstract Introduction: Globally, mangroves are declining; characterizing their structure and regeneration at different disturbance levels can help understand their responses to stressful situations. Objective: The study's primary goal was to analyze the mangrove community structure and to estimate the populations' trajectories of Avicenia germinans at different mangrove sites that present three levels of disturbance. Methods: Eight transects of approximately 500 m in length and laid perpendicular to the Tamapamchoco lagoon, Veracruz, intersected three levels of disturbance currently present on the mangrove forest. On each transect, 10 x 10 m, 5 x 5 m, and 1 x 1 m quadrants served to account for all mangrove trees by species and stage of maturity in 2017 and 2018. Results: The most abundant species was: A. germinans followed by Rhizophora mangle and Laguncularia racemosa. Based on their abundance, we found significant differences for the three levels of disturbance (ANOSIM R = 0.6, P < 0.001) presented in a non-metric ordination (nMDS). A life table for A. germinans allowed a population analysis that showed an intrinsic rate of population increase (r) that was negative at the disturbed sites (-0.0027 and -0.0774) and positive (0.0289) at the apparently undisturbed site. Seedling to juvenile stage survival ranged from 50 % at the undisturbed site to 5 and 4 % at the disturbed sites. Conclusions: Measures to increase the survival of seedlings are necessary to reverse the decreasing population trajectories at the disturbed sites; otherwise, the mangrove will have reduced viability in the medium term.

In pieces: fragmentation in the work of sándor ferenczi / Em pedaços: a fragmentação na obra de sándor ferenczi

RESUMO: Existem duas maneiras de se pensar a fragmentação subjetiva na obra de Ferenczi. Os fragmentos podem resultar de um choque ou podem estar relacionados a uma multiplicidade original da qual a própria subjetividade deriva. Neste artigo, levo em consideração as duas perspectivas nos textos ferenczianos, enfocando mais uma delas - o fragmento como irredutível à unidade. Trata-se de uma questão contemporânea, uma vez que as subjetividades e suas relações afetivas, estéticas e políticas funcionam hoje, predominantemente, sob forma fragmentária.

Abstract: There are two ways to conceive the idea of fragmentation in Ferenczi's work. They may result from a shock or they may be related to an original multiplicity from which subjectivity itself derives. In this paper I take into consideration the two perspectives of fragments in Ferenczian articles, but focusing more on one of them - the idea of fragment as irreducible to a unity. It is a contemporary issue, since subjectivities, and their affective, aesthetic and political relations work predominantly in fragmentary mode today.

Oxidative origin of sperm DNA fragmentation in the adult varicocele

ABSTRACT Purpose: Sperm DNA fragmentation is a major cellular mechanism underlying varicocele-related male infertility. However, the type of DNA fragmentation - whether oxidative or of another nature - remains unknown. Thus, the aim of this study was to evaluate single- and double-stranded sperm DNA fragmentation, and oxidative-induced sperm DNA damage in men with varicocele. Materials and Methods: A cross-sectional study was performed, including 94 normozoospermic adults, of which 39 men without varicocele (controls) and 55 men with varicocele grades II or III, uni- or bilaterally. All men collected semen by masturbation. After semen analysis, the remaining volume was used for evaluation of three types of sperm DNA damage: (i) total DNA fragmentation, using an alkaline comet assay, (ii) double-stranded DNA fragmentation, using a neutral comet assay, and (iii) oxidative DNA damage, using an alkaline comet assay associated with the DNA glycosylase formamidopyrimidine enzyme. In each assay, percentage of sperm with any degree of DNA fragmentation, and with high DNA fragmentation were compared between the groups using an unpaired Student's t test or a Mann-Whitney test. Results: The varicocele group presented a higher rate of sperm with fragmented DNA (both any and high DNA fragmentation), considering single-stranded DNA fragmentation, double-stranded DNA fragmentation, or a combination of both, as well as oxidative- induced DNA fragmentation. Conclusions: Patients with varicocele have an increase in sperm DNA fragmentation levels, particularly in oxidative stress-induced sperm DNA damage.