Variation in blood serum proteins and association with somatic cell count in dairy cattle from multi-breed herds

Blood serum proteins are significant indicators of animal health. Nevertheless, several factors should be considered to appropriately interpret their concentrations in blood. Therefore, the objectives of this study were (1) to assess the effect of herd productivity, breed, age and stage of lactation on serum proteins and (2) to investigate association between serum proteins and somatic cell count (SCC) in dairy cattle. Milk and blood samples were collected from 1508 cows of six different breeds (Holstein Friesian, Brown Swiss, Jersey, Simmental, Rendena and Alpine Grey) that were housed in 41 multi-breed herds. Milk samples were analyzed for composition and SCC, while blood samples were analyzed for serum proteins (i.e. total protein, albumin, globulin and albumin-to-globulin ratio (A : G)). Herds were classified as low or high production, according to the cow’s average daily milk energy yield adjusted for breed, days in milk (DIM) and parity. Data were analyzed using a linear mixed model that included the fixed effects of DIM, parity, SCS, breed, herd productivity and the random effect of the Herd-test date within productivity level. Cows in high producing herds (characterized also by greater use of concentrates in the diet) had greater serum albumin concentrations. Breed differences were reported for all traits, highlighting a possible genetic mechanism. The specialized breed Jersey and the two dual-purpose local breeds (Alpine Grey and Rendena) had the lowest globulin concentration and greatest A : G. Changes in serum proteins were observed through lactation. Total protein reached the highest concentration during the 4th month of lactation. Blood albumin increased with DIM following a quadratic pattern, while globulin decreased linearly. As a consequence, A : G increased linearly during lactation. Older cows had greater total protein and globulin concentrations, while albumin concentration seemed to be not particularly affected by age. A linear relationship between serum proteins and SCS was observed. High milk SCS was associated with greater total protein and globulin concentrations in blood. The rise in globulin concentration, together with a decrease in albumin concentrations, resulted in a decline in A : G as SCS of milk increased. In conclusion, such non-genetic factors must be considered to appropriately interpret serum proteins as potential animal welfare indicator and their evaluation represents an important first-step for future analysis based on the integration of metabolomics, genetic and genomic information for improving the robustness of dairy cows.     

Does the presence of an observer affect a bird's occurrence rate or singing rate during a point count?

The approach or presence of an observer may affect the behavior of nearby birds, rendering them either more or less detectable than when no observer is present due to a change in singing rates. To test whether there are systematic detection biases associated with the presence of an observer during point count bird surveys, we compared the occurrence and singing rates of birds during a 10-min period immediately preceding the time when an observer arrived to conduct a count and during the formal count itself by extracting song information from autonomous sound recorders. We obtained recordings of 36 species of birds detected at ≥5 locations in one of three vegetation types, including burned conifer forest, green conifer/riparian streamside forest, and riparian bottomland/marshland. We found that species richness and both the probability of occurrence and singing rate for any of the species recorded were unaffected by the presence of an observer. In addition, the probability of occurrence did not differ significantly among four 2.5-min recording sessions during 10-min counts when an observer was present. Thus, the presence of an observer did not appear to introduce any detectable systematic bias that would make bird lists or unadjusted occurrence rates inaccurate on that basis alone. In addition, rates of bird occurrence across 2.5-min temporal subsets of a 10-min count did not vary in a systematic way that would violate the assumption of equal occupancy across adjacent time periods as sometimes used to build detection histories in occupancy modeling.     

The French aerobiological monitoring network: two years of clinical experience (1986–1987)

Summary Two years of clinical experience on allergic patients strictly related to tree and grass pollen counts have been reported. In order to carry out investigations, the Institut Pasteur in Paris utilized a questionnaire on which symptoms and drug scores have been daily reported. Together with the pollen concentration, temperature variations and rainfalls have been checked. These investigations pointed out a great variability of the factors taken into account; thus, the way of forecasting allergic symptons seems difficult to find.     

Habitat utilisation and nesting behaviour of two sympatric weavers in Mbalmayo District,Cameroon

Avian ecology and behaviour data provides crucial information for bird conservation and management, but are still missing for many species, particularly in developing countries. This study examines habitat utilisation, nesting behaviour, anthropogenic disturbances and impacts on agricultural crops of Village Weaver Ploceus cucullatus and Vieillot’s Black Weaver Ploceus nigerrimus in Mbalmayo District, Cameroon. Abundance was estimated by nest counts and point counts of birds at 40 previously located colonies, where also tree metrics and anthropogenic disturbances were measured. In total, more than 1 700 birds of the two species were estimated within a 9 km2 study area, divided into two blocks and five different habitat types. Village Weavers were generally more abundant, especially in the urban habitat, whereas Vieillot’s Black Weavers were most numerous in the rural habitat. Among the tree species used for nesting, mango Mangifera indica and African border tree Newbouldia laevis had the highest nest counts, which also was positively related to canopy cover diameter. Traffic noise disturbance was associated with lower bird and nest counts, whereas the opposite was observed on farming disturbance. The relative impacts on agricultural crops were estimated for African oil palm Elaeis guineensis (38%), maize Zea mays (36%), Musa spp. (18%) and Mangifera indica (8%). The implications for long-term coexistence between farmland birds and humans are discussed, and the challenge is to minimise both kinds of bird–human interactions, i.e. anthropogenic disturbances and agricultural crop damage.     

Bridging neuronal correlations and dimensionality reduction

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Pollen counts statistics and its relevance to precision

In the day to day management of pollen counts from aerobiological samples of national networks, only a small proportion (usually from 12 to 15%) of the daily microscope slide is read. It is generally believed that, otherwise, too much time will be spent reading slides for a minimal increase in precision. Different networks use different slide sampling methods (longitudinal, transverse or at random) and a different number of lines are routinely read. However, the topic of the precision of the different pollen count strategies has seldom been the object of serious investigation. In this study, the precision of different sampling methods of 12 pollen types was investigated by: a) counting pollen grains over the whole slide (3 slides per taxa), b) spatially (i.e. microscope field per microscope field) recording over the 3120 fields found at 400× the location of each pollen grain, c) sub-sampling, by macro procedures, this population by selecting a number of transverse (1 to 48) or longitudinal (1 to 20) lines, or a number of random fields (90 to 2340), so that between 0.96 to 46.15% (transverse), 3 to 66.6% (longitudinal) or 3 to 75% (random) of the whole slide was artificially counted. Between nine and twelve procedures were built per reading strategy. The error found is much higher than what is normally believed, and it was significantly correlated with the abundance of a pollen taxa on the sampled slide. It is only with a total count over 1000 (corresponding to a concentration of above 500 m–3) that the mean error of 4 longitudinal lines (or 13.3% of the slide), the standard protocol of both the Italian Association of Aerobiology (AIA) and the Spanish Aerobiology Network (REA), was always below 30%.     

The Rücker–Markov invariants of complex Bio-Systems: Applications in Parasitology and Neuroinformatics

Rücker's walk count (WC) indices are well-known topological indices (TIs) used in Chemoinformatics to quantify the molecular structure of drugs represented by a graph in Quantitative structure–activity/property relationship (QSAR/QSPR) studies. In this work, we introduce for the first time the higher-order (kth order) analogues (WC_k) of these indices using Markov chains. In addition, we report new QSPR models for large complex networks of different Bio-Systems useful in Parasitology and Neuroinformatics. The new type of QSPR models can be used for model checking to calculate numerical scores S(L_ij) for links L_ij (checking or re-evaluation of network connectivity) in large networks of all these fields. The method may be summarized as follows: (i) first, the WC_k(j) values are calculated for all jth nodes in a complex network already created; (ii) A linear discriminant analysis (LDA) is used to seek a linear equation that discriminates connected or linked (L_ij = 1) pairs of nodes experimentally confirmed from non-linked ones (L_ij = 0); (iii) The new model is validated with external series of pairs of nodes; (iv) The equation obtained is used to re-evaluate the connectivity quality of the network, connecting/disconnecting nodes based on the quality scores calculated with the new connectivity function. The linear QSPR models obtained yielded the following results in terms of overall test accuracy for re-construction of complex networks of different Bio-Systems: parasite–host networks (93.14%), NW Spain fasciolosis spreading networks (71.42/70.18%) and CoCoMac Brain Cortex co-activation network (86.40%). Thus, this work can contribute to the computational re-evaluation or model checking of connectivity (collation) in complex systems of any science field.     

Multivariate hierarchical frameworks for modeling delayed reporting in count data

In many fields and applications, count data can be subject to delayed reporting. This is where the total count, such as the number of disease cases contracted in a given week, may not be immediately available, instead arriving in parts over time. For short-term decision making, the statistical challenge lies in predicting the total count based on any observed partial counts, along with a robust quantification of uncertainty. We discuss previous approaches to modeling delayed reporting and present a multivariate hierarchical framework where the count generating process and delay mechanism are modeled simultaneously in a flexible way. This framework can also be easily adapted to allow for the presence of underreporting in the final observed count. To illustrate our approach and to compare it with existing frameworks, we present a case study of reported dengue fever cases in Rio de Janeiro. Based on both within-sample and out-of-sample posterior predictive model checking and arguments of interpretability, adaptability, and computational efficiency, we discuss the relative merits of different approaches.