Genetic diversity and path analysis for nitrogen use efficiency in popcorn inbred lines

Popcorn inbred lines with more efficient nitrogen use are better able to uptake nitrogen from the soil and convert it into higher grain yield, resulting in lower environmental and economic impacts caused by nitrogen fertilization. The objectives of this study were to (i) identify inbred lines superior in nitrogen use (ii) assess the genetic diversity between popcorn inbred lines under high and low N conditions and (iii) investigate the causal effects of several traits in nitrogen use efficiency (NUE). We evaluated 25 popcorn inbred lines under high and low N, and several traits related to NUE and its components were measured. Efficient and inefficient inbred lines under both N levels were identified and can be useful for generating a segregating population for quantitative trait loci mapping. The genetic diversity assessment based on phenotypic traits grouped the inbred lines into four clusters under both N levels, and the efficient inbred lines were grouped together, as were the inefficient lines. The most divergent inbred lines under high N were classified as efficient and intermediate and can be useful to generate a divergent breeding population with a high frequency of favorable genes for NUE. Nitrogen uptake efficiency (NUpE) was considered the most important trait for NUE. To improve the accuracy of selection for NUE, a selection index involving the total root length (TRL), daily growth and NUpE traits under both N levels is recommended, as these traits had high correlations with and direct effects on NUE.     

Flaxseed (Linum usitatissimum L.) and Its Total Non-digestible Fraction Influence the Expression of Genes Involved in Azoxymethane-induced Colon Cancer in Rats

The influence of flaxseed (Linum usitatissimum L.) and its total non-digestible fraction (TNDF) on the expression of genes involved in azoxymethane (AOM)-induced colon cancer in Sprague Dawley rats was analyzed. The dose used in the animal model was two tablespoons of flaxseed per day, which is the dose recommended for humans. Flaxseed significantly decreased the crypt multiplicity (10.50?±?3.5) compared with the AOM treatment (34.00?±?11.0), which suggests that flaxseed exhibits a preventive effect against colon cancer. Both treatments (flaxseed and TNDF) influence the overexpression of genes involved in cell cycle arrest and mitochondrial apoptosis: p53, p21, bcl-2, bax and caspase-3. Flaxseed induced the expression of p53 and p21, whereas TNDF triggered the p21-independent expression of p53. This finding suggests that both of these treatments induced cell cycle arrest. In addition, TNDF induced mitochondrial apoptosis because the TNDF + AOM group exhibited the expression of caspase-3, decreased bcl-2 expression and increased bax expression. These results suggest that the expression of the analyzed genes is associated with the presence of dietary antioxidants linked to the cell wall of flaxseed.     

Relationship Between Height Growth and Foliar Nutrient N and P Concentration in a Eucalyptus grandis Plantation in Northeastern Argentina

The relationship between the height growth, foliar concentrations of nitrogen (N) and phosphorus (P), and the N:P ratio was analyzed in a fourth rotation plantation that did not respond to fertilization with these nutrients. Spearman's nonparametric correlation analysis was used to evaluate the association between growth in height—calculated as the difference between heights measured at 1 yr and 2 yr after planting—and foliar N and P concentrations, as well as N:P ratio, determined in the 1-yr-old plantation. Only a weak positive correlation between height growth and foliar P concentration in planted seedlings was found. A significant negative relation was observed between the growth and N:P ratio in seedlings. Foliar concentrations suggest that there were neither P nor N limitations for growth in the analyzed period. This may be due to the management of harvest residues, which were abandoned on-site without burning.     

Identification of origin and analysis of population structure of field-selected imidazolinone-herbicide resistant red rice (<Emphasis Type="Italic">Oryza sativa</Emphasis>)

Several red rice biotypes have evolved resistance to imidazolinone herbicides. The origin of resistance has been attributed to gene flow from the herbicide-resistant rice cultivars, but independent evolution of spontaneous mutation can also contribute to the herbicide resistance. The objective of this study was to quantify the occurrence of gene flow and independent selection as the mechanisms of origin of imidazolinone-resistance in red rice to correctly define the management practices for red rice control. Three single nucleotide polymorphism markers were used to identify acetolactate synthase (ALS) gene mutations, and four simple sequence repeat markers were used to identify hybrids of imidazolinone-resistant rice cultivars and red rice. In addition, genetic diversity and population structure analyses were performed. Artificial hybrids were used as controls. Gene flow was the main origin of imidazolinone herbicide resistance, but independent selection occurred in 1.1 % of the evaluated red rice plants. Two red rice plants that independently evolved herbicide resistance had the ALS gene mutation, Gly₆₅₄Glu. Population structure analysis also indicated intense gene flow from rice cultivars to red rice, but some populations maintained a high genetic identity based on a small amount of gene introgression from the rice cultivars. These results indicate the importance of adopting controls of red rice escapees to avoid gene flow from the imidazolinone-resistant rice, and the necessity of biotechnological approaches to mitigating gene flow in the development of new herbicide-resistant rice cultivars.     

Using binary and probabilistic habitat availability indices derived from graph theory to model bird occurrence in fragmented forests

Loss of connectivity is one of the main causes of decreases in habitat availability and, thus, in species abundance and occurrence in fragmented landscapes. It is therefore important to measure habitat connectivity for conservation purposes, but there are several difficulties in quantifying connectivity, including the need for species movement behavioral data and the existence of few consistent indices to describe such data. In the present study, we used a graph theoretical framework to measure habitat availability, and we evaluate whether this variable is adequate to explain the occurrence pattern of an Atlantic rainforest bird (Pyriglena leucoptera, Thamnophilidae). The playback technique was used to parameterize the connectivity component of habitat availability indices and to determine the presence or absence of the study species in forest patches. Patch- and landscape-level habitat availability indices were considered as explanatory variables. Two of these were landscape-level indices, which varied in terms of how inter-patch connections are defined, using either a binary or probabilistic approach. This study produced four striking results. First, even short open gaps may disrupt habitat continuity for P. leucoptera. Second, the occurrence of P. leucoptera was positively affected by habitat availability. Third, proper measures of this explanatory variable should account for the landscape context around the focal patch, emphasizing the importance of habitat connectivity. Finally, habitat availability indices should consider probabilistic and not binary inter-patch connections when intending to explain the occurrence of bird species in fragmented landscapes. We discuss some conservation implications of our results, stressing the advantages of an ecologically scaled graph theoretical framework.     

Optimized protocol for multiplex nested polymerase chain reaction to detect and differentiate Haemophilus parasuis,Streptococcus suis,and Mycoplasma hyorhinis in formalin-fixed,paraffin-embedded tissues from pigs with polyserositis

An optimized protocol was developed for the simultaneous detection and differentiation of Haemophilus parasuis, Streptococcus suis, and Mycoplasma hyorhinis in formalin-fixed, paraffin-embedded (FFPE) tissues with multiplex nested polymerase chain reaction (PCR). This method also determines the prevalence of these bacteria in pigs with polyserositis. DNA extraction with a combination of a commercial reagent and proteinase K resulted in more frequent detection of the pathogens than DNA extraction with proteinase K alone. Among FFPE tissue samples from 312 cases of polyserositis in which at least 1 bacterial species was detected, multiplex nested PCR detected H. parasuis in 239 (77%), S. suis in 124 (40%), and M. hyorhinis in 40 (13%). The disease was caused by a single pathogen in 224 (72%) of the cases and multiple pathogens in 88 (28%). Among the pigs positive for H. parasuis, S. suis, and M. hyorhinis by multiplex nested PCR, the pathogen was isolated from only 11%, 35%, and 28%, respectively. Therefore, the PCR protocol developed in this study is a useful diagnostic method when samples are negative after isolation methods and even for samples in which only 1 pathogen was isolated.     

Geostatistical analysis of fruit yield and detachment force in coffee

The aim of this study was to use geostatistical analysis to evaluate the spatial variation in the detachment force of coffee fruit and coffee yield by variograms and kriging for precision agriculture. This study was conducted at Brej?o farm, Três Pontas, Minas Gerais, Brazil. The detachment force of green and mature coffee fruit was measured with a prototype dynamometer and georeferenced. The yield data were obtained from manual harvesting and were georeferenced. The data were evaluated by variograms estimated by residual maximum likelihood (REML), which provided a satisfactory approach for modeling all the variables with a small sample size. Spherical and exponential models were fitted, the first provided the better fit to mature fruit detachment force and the latter provided the better fit to coffee yield and green fruit detachment force. They were used to describe the structure and magnitude of spatial variation in the variables studied. Kriged estimates were obtained with the best fitting variogram models and mapped. The statistical and geostatistical analyses enabled us to characterize the spatial variation of the detachment force of green and mature coffee fruit and coffee yield and to visualize the spatial relations among these variables. The precision agriculture techniques used in this paper to collect, map and analyze the variables studied will help coffee farmers to manage their fields. Maps of coffee yield will enable farmers to apply nutrients site-specifically and manage harvesting either manually or mechanically. In addition, maps of detachment force of coffee fruit can enable farmers to harvest coffee selectively by choosing the appropriate places and the right time to start. This will improve the quality of the final product and also increase profits.     

Analysis of longitudinal data of beef cattle raised on pasture from northern Brazil using nonlinear models

This study was undertaken to aim of estimating the genetic parameters and trends for asymptotic weight (A) and maturity rate (k) of Nellore cattle from northern Brazil. The data set was made available by the Brazilian Association of Zebu Breeders and collected between the years of 1997 and 2007. The Von Bertalanffy, Brody, Gompertz, and logistic nonlinear models were fitted by the Gauss?CNewton method to weight?Cage data of 45,895 animals collected quarterly of the birth to 750?days old. The curve parameters were analyzed using the procedures GLM and CORR. The estimation of (co)variance components and genetic parameters was obtained using the MTDFREML software. The estimated heritability coefficients were 0.21?±?0.013 and 0.25?±?0.014 for asymptotic weight and maturity rate, respectively. This indicates that selection for any trait shall results in genetic progress in the herd. The genetic correlation between A and k was negative (?0.57?±?0.03) and indicated that animals selected for high maturity rate shall result in low asymptotic weight. The Von Bertalanffy function is adequate to establish the mean growth patterns and to predict the adult weight of Nellore cattle. This model is more accurate in predicting the birth weight of these animals and has better overall fit. The prediction of adult weight using nonlinear functions can be accurate when growth curve parameters and their (co)variance components are estimated jointly. The model used in this study can be applied to the prediction of mature weight in herds where a portion of the animals are culled before they reach the adult age.     

Safety and efficacy of an E2 glycoprotein subunit vaccine produced in mammalian cells to prevent experimental infection with bovine viral diarrhoea virus in cattle

Bovine viral diarrhea (BVD) infection caused by bovine viral diarrhea virus (BVDV), a Pestivirus of the Flaviviridae family, is an important cause of morbidity, mortality and economical losses in cattle worldwide. E2 protein is the major glycoprotein of BVDV envelope and the main target for neutralising antibodies (NAbs). Different studies on protection against BVDV infection have focused on E2, supporting its putative use in subunit vaccines. A truncated version of type 1a BVDV E2 (tE2) expressed in mammalian cells was used to formulate an experimental oleous monovalent vaccine. Immunogenicity was studied through immunisation of guinea pigs and followed by trials in cattle. Calves of 8-12?months were vaccinated, twice with a 4?week interval, with either a tE2 subunit vaccine (n?=?8), a whole virus inactivated vaccine (n?=?8) or left untreated as negative control group (n?=?8). Four weeks after the last immunisation the animals were experimentally challenged intranasally with a non-cythopathic BVDV strain. Following challenge, BVDV was isolated from all unvaccinated animals, while 6 out of 8 animals vaccinated with tE2 showed complete virological protection indicating that the tE2 vaccine presented a similar performance to a satisfactory whole virus inactivated vaccine.     

Multidrug and multispecies resistance in sheep flocks from São Paulo state, Brazil

The economic importance of sheep production is increasing worldwide simultaneously with the emergence of parasitic resistance. This study aimed to survey the current situation of management practices and parasite resistance in sheep flocks in S?o Paulo state, Brazil. A questionnaire was given to 35 sheep farmers to obtain information related to flock management practices. Of these flocks, 30 were submitted to the fecal egg count reduction test (FECRT) with at least one of the five following anthelmintics: albendazole, closantel, ivermectin, levamisole, and moxidectin, for comparison against an untreated control group. In the survey, the median number animals per flock was 301, mainly of the Santa Ines breed (in 75.8% of the flocks) and crossbred animals (in 54.5% of the flocks). The predominant farming system was semi-intensive (82.9%), using rotational grazing (80%). Selective treatment was based on FAMACHA grade (47.1%) and in clinical signs (41.2%). The most often applied anthelmintics were macrocyclic lactones (42.9-54.2% in the last three applications). Considering the anthelmintics employed in this study, 10.7% of the farms' flocks were resistant to three, 35.7% to four, and 53.6% to all five anthelmintics. The main helminth genera observed before and after treatments were Haemonchus sp. (75.8%) and Trichostrongylus sp. (19.1%), but all observed genera (Cooperia sp., Oesophagostomum sp., and Strongyloides sp.) were detected by the FECRT. Considering efficacy values less than or equal to 90% in the FECRT as resistant, 100% of flocks were resistant to albendazole and ivermectin, 96.6% to moxidectin, 92.9% to closantel, and 53.6% to levamisole. It is thus possible to conclude that multidrug resistance is widespread in sheep flocks in S?o Paulo state, Brazil, and this involves all prevalent helminth genera.