Methods of analysis and number of replicates for trials with large numbers of soybean genotypes

ABSTRACT: The aim of this study was to evaluate the experimental precision of different methods of statistical analysis for trials with large numbers of soybean genotypes, and their relationship with the number of replicates. Soybean yield data (nine trials; 324 genotypes; 46 cultivars; 278 lines; agricultural harvest of 2014/15) were used. Two of these trials were performed at the same location, side by side, forming a trial with six replicates. Each trial was analyzed by the randomized complete block, triple lattice design, and use of the Papadakis method. The selective accuracy, least significant difference, and Fasoulas differentiation index were estimated, and model assumptions were tested. The resampling method was used to study the influence of the number of replicates, by varying the number of blocks and estimating the precision measurements. The experimental precision indicators of the Papadakis method are more favorable as compared to the randomized complete block design and triple lattice. To obtain selective accuracy above the high experimental precision range in trials with 324 soybean genotypes, two repetitions can be used, and data can be analyzed using the randomized complete block design or Papadakis method

Repeatability of associations between analytical methods of adaptability, stability, and productivity in soybean

<div><p>Abstract: The objective of this work was to evaluate the association between estimates of adaptability, stability, and productivity in soybean (Glycine max), and to estimate the repeatability coefficient of these associations between years. A total of 22 genotypes were evaluated in 27 environments in the 2012/2013 crop season and in 19 environments in 2013/2014. In the next crop seasons, 28 genotypes were evaluated in 26 environments, in 2014/2015, and in 25 environments in 2015/2016, totalizing 97 trials. Fourteen methods were evaluated; Spearman correlation coefficients were obtained for the parameters of stability, adaptability, and productivity; and the repeatability coefficients, as well as the minimum number of required environments for a coefficient of determination of 80 and 90%, were calculated. The minimum number of environments required to estimate the degree of association between the parameters was low (seven sites). The methods of Eberhart & Russell and GGE biplot are essential in the evaluation of productivity, adaptability, and stability in soybean because they are able to encompass these aspects using a minimum set of methods. The methods of Annicchiarico (AN), Silva & Barreto (SB), Cruz (CR), and Storck & Vencovsky (SV) can be used to generate complementary information, such as: stability for general, favorable, and unfavorable environments (AN); adaptability in favorable and unfavorable environments (SB, CR, and SV); and average productivity in all environments and in favorable or unfavorable environments (SV).</p></div

Treinamento em natação atenua a disfução contrátil de cardiomiócitos de ratos diabéticos

FUNDAMENTO: O diabete experimental promove disfunção contrátil em cardiomiócitos, mas os efeitos do treinamento em natação nesta disfunção não são conhecidos. OBJETIVO: Testar os efeitos de um programa de treino em natação (PTN) sobre a disfunção contrátil de cardiomiócitos de ratos com diabete experimental. MÉTODOS: Ratos Wistar (idade: 30 dias; peso corporal médio: 84,19 g) com diabete induzida por estreptozotocina (60 mg/kg de peso corporal; glicemia > 300 mg/dl) foram alocados em diabéticos sedentários (DS, n = 10) e diabéticos exercitados (DE, n = 13). Animais da mesma idade e peso serviram de controles sedentários (CS, n = 10) e controles exercitados (CE, n = 06). Os animais DE e CE foram submetidos a um PTN (05 dias/semana, 90 min/dia), por 08 semanas. Os miócitos do ventrículo esquerdo (VE) foram isolados e estimulados eletricamente a 3,0 Hz em temperatura ambiente (&#8764; 25º C). RESULTADOS: O diabete reduziu a função contrátil nos cardiomiócitos dos animais em relação aos controles (i.e., menor amplitude de contração, maior tempo de contração e relaxamento). O PTN atenuou a redução na amplitude de contração (CS, 11 ± 0,2% vs DE, 11,6 ± 0,2%), o tempo para o pico de contração (CS, 319 ± 5,8 ms vs DE, 333 ± 4,8 ms) e o tempo para 50% de relaxamento (CS, 619 ± 22,2 ms vs DE, 698 ± 18,6 ms) dos cardiomiócitos dos animais diabéticos. O diabete reduziu as dimensões dos cardiomiócitos, porém, o PTN minimizou a redução da largura e volume celular, sem alterar o comprimento. CONCLUSÃO: O programa de treino em natação atenuou a disfunção contrátil dos miócitos do VE de ratos com diabete experimental

Embracing Monogenic Parkinson's Disease: The MJFF Global Genetic PD Cohort

BACKGROUND: As gene-targeted therapies are increasingly being developed for Parkinson's disease (PD), identifying and characterizing carriers of specific genetic pathogenic variants is imperative. Only a small fraction of the estimated number of subjects with monogenic PD worldwide are currently represented in the literature and availability of clinical data and clinical trial-ready cohorts is limited. OBJECTIVE: The objectives are to (1) establish an international cohort of affected and unaffected individuals with PD-linked variants; (2) provide harmonized and quality-controlled clinical characterization data for each included individual; and (3) further promote collaboration of researchers in the field of monogenic PD. METHODS: We conducted a worldwide, systematic online survey to collect individual-level data on individuals with PD-linked variants in SNCA, LRRK2 VPS35, PRKN, PINK1, DJ-1, as well as selected pathogenic and risk variants in GBA and corresponding demographic, clinical, and genetic data. All registered cases underwent thorough quality checks, and pathogenicity scoring of the variants and genotype-phenotype relationships were analyzed. RESULTS: We collected 3888 variant carriers for our analyses, reported by 92 centers (42 countries) worldwide. Of the included individuals 3185 had a diagnosis of PD (ie, 1306 LRRK2, 115 SNCA, 23 VPS35 429 PRKN, 75 PINK1, 13 DJ-1, and 1224 GBA) and 703 were unaffected (ie, 328 LRRK2, 32 SNCA, 3 VPS35, 1 PRKN, 1 PINK1, and 338 GBA). In total, we identified 269 different pathogenic variants; 1322 individuals in our cohort (34\%) were indicated as not previously published. CONCLUSIONS: Within the MJFF Global Genetic PD Study Group, we (1) established the largest international cohort of affected and unaffected individuals carrying PD-linked variants; (2) provide harmonized and quality-controlled clinical and genetic data for each included individual; (3) promote collaboration in the field of genetic PD with a view toward clinical and genetic stratification of patients for gene-targeted clinical trials. 2023 The Authors. Movement Disorders published by Wiley Periodicals LLC on behalf of International Parkinson and Movement Disorder Society

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field