Separating the wheat from the chaff: unbiased filtering of background tandem mass spectra improves protein identification

Only a small fraction of spectra acquired in LC-MS/MS runs matches peptides from target proteins upon database searches. The remaining, operationally termed background, spectra originate from a variety of poorly controlled sources and affect the throughput and confidence of database searches. Here, we report an algorithm and its software implementation that rapidly removes background spectra, regardless of their precise origin. The method estimates the dissimilarity distance between screened MS/MS spectra and unannotated spectra from a partially redundant background library compiled from several control and blank runs. Filtering MS/MS queries enhanced the protein identification capacity when searches lacked spectrum to sequence matching specificity. In sequence-similarity searches it reduced by, on average, 30-fold the number of orphan hits, which were not explicitly related to background protein contaminants and required manual validation. Removing high quality background MS/MS spectra, while preserving in the data set the genuine spectra from target proteins, decreased the false positive rate of stringent database searches and improved the identification of low-abundance proteins.

Characterization of the Wheat Grain PKABA1-Interacting Protein TaWD40

Abscisic acid (ABA)-mediated gene expression is a critical component of plant responses to this important hormone, which affects plant growth, development, and responses to environmental stresses. Plant responses to ABA are mediated by a number of factors including PKABA1, an ABA induced protein kinase involved in ABA-suppressed gene expression in cereal grains, and TaWD40, which has previously been shown to physically interact with PKABA1. A full-length 1.9 kb TaWD40 cDNA, CK210682, was sequenced as part of this project. Based on the deduced protein sequence, it is thought that TaWD40 may belong to the family of E3 ubiquitin ligases, possibly targeting PKABA1 for destruction. Construction of expression plasmids for overproduction of the TaWD40 polypeptide in E. coli is currently underway. The TaWD40 cDNA has been successfully amplified from the source plasmid and inserted into an intermediate plasmid, pCR2.1. The TaWD40 cDNA is currently being cloned from the pCR2.1 intermediate plasmid into two different expression vectors, pRSET-A and pMAL-c2x, for future protein production and purification.

Changes in physical properties of extruded sour cassava starch and quinoa flour blend snacks

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Effects of plant density and proportion on the interaction between wheat with alexandergrass plants

A determinação das relações competitivas entre espécies de plantas requer delineamentos experimentais e métodos de análise apropriados. A hipótese da pesquisa foi que duas espécies crescendo em convivência têm comportamento de crescimento e desenvolvimento distintos em função da sua competitividade relativa. O objetivo desta pesquisa foi quantificar a competitividade relativa da cultura do trigo com o capim-marmelada através da medida dos efeitos da densidade e da proporção de plantas, usando experimentos em série substitutiva. Monoculturas foram cultivadas em densidades de 1, 3, 5, 10 e 15 plantas por caixa e analisadas por regressão dos dados de massa seca, em 2006. Experimento em mistura foi cultivado nas proporções trigo:capim-marmelada de 0:6, 1:5, 2:4, 3:3, 4:2, 5:1 e 6:0 plantas por caixa e analisado através de interpretação gráfica de características de crescimento e produção, em 2007. Ambos os experimentos foram realizados em delineamento completamente casualizado com quatro repetições. Capim-marmelada foi mais sensível que trigo à competição intraespecífica. Capim-marmelada foi levemente mais competitivo que trigo. Número e massa de espigas e número de afilhos foram as características do trigo mais afetadas pela interferência do capim-marmelada.

Crescimento e esporulação de duas espécies de arthrobotrys corda em diferentes meios de cultura e dois ambientes

The researches on the biological control of nematodes with nematophagous fungi has been intensified in recent years. The knowledge of the ecological conditions for the growth and sporulation of these fungi is a prerequisite for attainment of pure cultures needed to attend the demand for formulation of these organisms. With the objective to evaluate the micelial growth and sporulation of Arthrobotrys musiformis and A. oligospora in two environments (B.O.D at 25 +/- 1 degrees C and the environment of the Laboratory), 20 cultures media prepared with common materials found in the communities and industrialized media such as mycological agar, PDA and CMA were evaluated. The media were tested in Petri dishes, being the micelial growth of the fungi evaluated daily, during six days. The measured sporulation at the end of the experiment was done by estimation of the number of conidia/Petri dish. The experiment was carried out in a random design following a factorial arrangement of 20 x 2 x 2, corresponding to 20 media, two fungi and two environments, with five replicates. The variance analysis of the data evidenced significant statistical difference by the F Test, at 1% probability, among media x fungi x environment interaction. Fifty percent of the tested media provided the adequate micelial growth of A. musiformis and there was no statistical difference among them, namely: cassava meal (FM), sweet starch (PD), "corn meal agar" (CMA), oat in fine flakes (AFF), agar-water + dextrose (AA+D), mycological agar (AM), potato dextrose agar (BDA), meal of maize (FMI), flour of wheat (FT) and wheat for kibble (TK). In relation to A. oligospora, 75% of the tested media promoted the maximum growth of the fungus, which are: AFF, AM, FM, PD, CMA, AA+D, BDA, FT, TK, the water from the decoction of rice (AAZ), rice in grains (AZG), triturated rice (AZT), thread flour (FR), oats flour (FA), oats in thick flakes (AFG) and flour of maize (FU). In relation to the sporulation the media that had better role for A. musiformis, in decreasing order, were: FR, TK, AFG, BDA, FA, AFF, AM, FMI, AZT and FM, varying between 1,01 x 10(6) and 1,4 x 10(4) conidia/Petri dish. For the A. oligospora sporulation, the CMA medium provided the maximum level with an estimated average of 5,7 x 10(6) conidia/Petri dish. In the general, the best media for the micelial growth and sporulation of A. musiformis had also been the best for A. oligospora. However, some that had been the best for the A. oligospora did not had been efficient for the micelial growth or the sporulation of A. musiformis, indicating that the isolate of A. musiformis in case is more demanding than that A. oligospora one. The evidences from the study indicate that, in Jaboticabal, São Paulo state, the growth and the sporulation of these fungi do not demand special chambers. Some adaptations of an environment at the laboratory, enough to obliterate the light are sufficient.

Response of wheat to foliar application of zinc

Wheat is grown in Brazil, mostly in no-till, a system in which the zinc can become potentially deficient, due to excessive application of acidity corrective and phosphate fertilizers in surface and, or at shallow depths. This study aimed to evaluate the effect of foliar application of zinc in agronomic characteristics and yield of wheat. The experimental design was randomized blocks with five replications. Treatments consisted of four doses of zinc (0, 54, 108 and 216g ha(-1) Zn), divided into two foliar applications, the first at tillering (18 days after plant emergence) and the second at the boot stage (65 days after emergence). Foliar application of zinc increased the number of fertile tillers and yield of wheat, however, have little effect on the agronomic characteristics of no-tilled crop with high nutrient content in soil.

Tillering of two wheat genotypes as affected by phosphorus levels

A participação de perfilhos na produção de grãos é de grande importância para a cultura do trigo, sendo influenciável pelas características do genótipo e condições do ambiente. O presente trabalho teve o objetivo de estudar o efeito de doses de fósforo (P) na emissão, sobrevivência e contribuição produtiva de perfilhos de duas cultivares de trigo. O experimento foi conduzido em casa de vegetação em Botucatu, Estado de São Paulo. Foi adotado um esquema fatorial 2 x 5 em blocos casualizados com quatro repetições, sendo avaliadas duas cultivares de trigo (IAC 370 e IAC 375) e cinco doses de P (0, 150, 300, 450 e 600 mg dm-3). Quanto maior a dose de P, maior a emissão, a sobrevivência e a participação de perfilhos na produção total de grãos, em especial para perfilhos secundários. A cultivar IAC 370 apresentou altas taxas de abortamento de perfilhos, enquanto a IAC 375 manteve grande parte dos perfilhos emitidos.

Leaf application of silicic acid to white oat and wheat

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Physiological quality of soybean and wheat seeds produced with alternative potassium sources

O uso de fontes não convencionais para fornecimento de K às plantas tem sido amplamente estudado, mas os efeitos de materiais alternativos na qualidade fisiológica das sementes não são conhecidos. Este estudo teve como objetivo avaliar a qualidade fisiológica de sementes de soja e trigo em função da aplicação fontes de potássio em uma sucessão de culturas. O delineamento experimental foi o de blocos ao acaso com quatro repetições. Os tratamentos constaram de três fontes de K (KCl, rocha alcalina e fonolito moído, com 58%, 11% e 8.42% de K2O, respectivamente) aplicados em quatro doses (0, 25, 50 e 100 kg K2O ha-1). As doses de potássio foram aplicadas na soja e seu efeito residual foi avaliado na cultura do trigo, cultivado em sucessão. Logo após a colheita, as sementes de soja e trigo foram avaliadas pelos testes de teor de água, massa de sementes, germinação, primeira contagem, condutividade elétrica, comprimento de plântulas e massa da matéria seca de plântulas. Plantas de soja adubadas com fontes alternativas para fornecimento de K produzem sementes com maior massa e menor permeabilidade de membranas comparado às com KCl; maior qualidade fisiológica de sementes de soja e massa de sementes de trigo são obtidas com maiores doses de K2O independente da fonte.

Foliar fertilization with molybdenum in wheat

The objective of this work was to evaluate the effect of foliar application of molybdenum on agronomic characteristics and yield of wheat in a no-till system. The experiment was carried out in a clayey Rhodic Hapludox, in Maripa, State of Parana, Brazil. The experimental design was randomized blocks with five replications. Treatments consisted of four doses of molybdenum (0, 13.8, 27.6 and 55.2 g ha(-1) Mo), divided into two foliar applications, the first at tillering (18 days after plant emergence) and the second at the boot stage (65 days after emergence). The foliar application of Mo up to a dose of 35 g ha-1 increased the number of spikes per square meter and yield of wheat; however, it had no effect on the agronomic characteristics of the crop in a no-till system.

Silicon leaf application and physiological quality of white oat and wheat seeds

Plant nutrition can positively influence quality of seeds by improving plant tolerance to adverse climate. In this context, silicon is currently considered a micronutrient and it is beneficial to plant growth, especially Poaceaes such as white oat and wheat, thereby improving physiological quality of seeds. This study had the objective of evaluating the effects of silicon leaf application on plant tillering, silicon levels and physiological quality of white oat and wheat seeds besides establishing correlations between them. Two experiments were carried out in winter with white oat and wheat. The experimental design was the completely randomized block with eight replications. Treatments consisted of foliar application of silicon (0.8% of soluble silicon, as stabilized orthosilicic acid) and a control (with no application). Silicon levels in leaves were determined at flowering whereas the number of plants and panicles/spikes per area was counted right before harvest. Seed quality was evaluated right after harvest through mass, germination and vigor tests. Data was submitted to variance analysis and means were compared by the Tukey test at a probability level of 5%. Person's linear correlation test was performed among silicon level in plants, tillering and seed quality data. Silicon leaf application increases root and total length of white oat seedlings as an effect of higher Si level in leaves. Silicon leaf application increases mass of wheat seeds without affecting germination or vigor.

Análise técnica e econômica do processo de obtenção de espaguetes com adição de farinha de trigo integral e farinha de linhaça

This work studies the fabrication of spaghetti through the process at high temperatures through the use of flour added to flour and flaxseed meal, with the aim of evaluating the final product quality and estimate the cost of production. The values of moisture, ash, protein, wet gluten, gluten index, falling number and grain of flour and mixtures to test to be the possible use in mass manufacturing and technological criteria for compliance with current legislation. Spaghetti noodles type were manufactured by adding 10% and 20% flour and 10% and 20% flaxseed meal with performance of physical-chemical, sensory and rheological properties of the products. Further analysis was performed on the product acceptance and estimation of production cost in order to create subsidies to enable the introduction of products with greater acceptance and economic viability in the market by the food industry. On the rheology of the product test was cooking the pasta, specifying the volume increase, cooking time and percentage of solid waste. In the sensory evaluation was carried out the triangular test of product differentiation with 50 trained judges and acceptance testing by a hedonic scale with evaluation of the aspects color, taste, smell and texture. In defining the sensory profile of the product was performed with ADQ 9 judges recruited and trained at the factory, using unstructured scale of 9 cm, assessing the attributes of flavor of wheat, flax flavor, consistency, texture of raw pasta, raw pasta color and color of cooked pasta. The greater acceptance of product quality was good and the pasta with 20% flour, 10% followed by the full product, 10% and 20% flaxseed characterized the average quality of the criterion of loss analysis of solids, together with mass full commercial testing. In assessing the estimated cost of production, the two products more technologically feasible and acceptable (20% whole and 10% flaxseed) were evaluated in high temperature processes. With total cost of R $ 4,872.5 / 1,000 kg and R $ 5,354.9 / 1,000 kg respectively, the difference was related to the addition of lower inputs and higher added value in the market, flour and flaxseed meal. The comparative analysis of cases was confirmed the reduction in production time (10h), more uniform product to the drying process at high temperature compared to conventional

Boron rates for triticale and wheat crops

No Brasil não existem registros de respostas de adubação com boro para a cultura do triticale, sendo a ação deste nutriente uma incógnita, tanto em relação a deficiência quanto a toxidez, causas que levam a redução de produtividade. O objetivo deste trabalho foi avaliar a resposta do triticale a diferentes níveis de boro em comparação com o trigo (Triticum aestivum). Utilizou-se um Latossolo Vermelho distrófico com teor inicial de boro de 0,08 mg dm-3. O delineamento foi um fatorial 4 ´ 4, distribuído em blocos casualizados, com quatro repetições, quatro níveis de boro: 0; 0,62; 1,24 e 1,86 mg dm-3 de B e três cultivares de triticale, IAC 3, BR 4 e BR 53, mais um cultivar de trigo, IAPAR 38, para comparação. Cada cultivar respondeu de forma diferente com relação às variáveis estudadas em função da aplicação de diferentes níveis de boro. O trigo (IAPAR 38) apresenta maior eficiência na absorção de boro. A cultivar de triticale mais responsiva quanto à absorção foi a IAC 3, que apresentou característica semelhante ao trigo, seguida da cultivar BR 4, demonstrando serem cultivares tolerantes a maiores níveis de boro no solo. Para a BR 53, não ocorreu efeito para absorção, com a cultivar apresentando sensibilidade à toxidez de boro. A eficiência de absorção é diferenciada para cada genótipo possibilitando a escolha e utilização de plantas que possuam maior adaptação ao meio.

Thermal analysis as a screening technique for the characterization of babassu flour and its solid fractions after acid and enzymatic hydrolysis

The babassu (Orbignya phalerata) is a native tree found in northern Brazil. Extracts of the babassu coconut have been widely used in industry. Babassu flour has about 60% starch, thus, besides nourishment it can be used as an alternative biofuel source. However, the properties of this starch lack of study and understanding. The main purpose of this study was to investigate the thermal behavior of raw babassu flour and its solid hydrolyzed fraction. The analyses were carried out using SHIMADZU DSC and TG thermic analyzers. The results demonstrated a reduction in thermal stability of the solid hydrolyzed fraction compared to raw matter. The kinetic parameters were investigated using non-isothermal methods and the parameters obtained for its decomposition process were an E(a) of 166.86 kJ mol(-1) and a frequency factor (beta) of 6.283 x 1014 min(-1); this was determined to be a first order reaction (n = 1). (C) 2011 Elsevier B.V. All rights reserved.

Response of irrigated wheat cultivars to different nitrogen rates and sources

Altas produtividades de trigo requerem um bom manejo da adubação nitrogenada. O objetivo deste trabalho foi avaliar os efeitos de diferentes doses de nitrogênio na semeadura usando o Entec (fonte de N com inibidor de nitrificação), ou em cobertura, utilizando a ureia, em quatro cultivares de trigo. O experimento foi desenvolvido em área experimental pertencente à Faculdade de Engenharia de Ilha Solteira - UNESP, em um Latossolo Vermelho distrófico epieutrófico álico textura argilosa, o qual foi nativamente ocupado por vegetação de Cerrado. O delineamento estatístico foi o de blocos ao acaso, com quatro doses de N (0, 60, 120 e 180 kg ha-1) na semeadura, usando o Entec, ou em cobertura aos 40 dias (início do alongamento), empregando a ureia e os cultivares E 21, E 22, E 42 e IAC 370, em quatro repetições. Os cultivares de trigo mais produtivos foram o E 21 e o E 42. O cultivar E 22 apresentou maior altura de plantas e altas notas de acamamento, com consequente menor produtividade de grãos. Não houve diferença significativa entre o Entec (aplicado na semeadura) e a ureia (aplicada em cobertura) para produtividade de grãos e para nenhuma das outras avaliações, porém a ureia proporcionou maior teor de N foliar, e o Entec, maior número de espiguetas não desenvolvidas. O incremento das doses de N influenciou negativamente a massa hectolítrica, alterando assim a qualidade dos grãos de trigo. O N aumentou a produtividade de grãos de trigo até a dose de 82 kg ha-1 de N, usando Entec aplicado na semeadura ou ureia aplicada em cobertura.