Effects of stratification and misspecification of covariates on species distribution models for abundance estimation from virtual line transect survey data

The aim of this study was to examine the effects of stratification of the survey region on the performance of species distribution models (SDMs) described by generalized linear models or generalized additive models when estimating school abundance by using a line transect survey. True covariates that define spatial school distribution are not always obtainable explanatory variables. When the true covariates differ from explanatory variables in the model, the explanatory variables are determined to be misspecified. We evaluated the performance of SDMs in abundance estimation with misspecified covariates by using dummy datasets for which the true abundance was known. Simulated replicates of spatial distributions of a whale school and sighting data were generated from possible scenarios motivated by the spatial school distribution of Antarctic minke whales Balaenoptera bonaerensis. This distribution was obtained from the Japanese Whale Research Program under Special Permit in the Antarctic. Our results showed that the relative bias of the abundance estimators was large when covariates were misspecified and a survey region was stratified. Although stratification of the survey region is intended to produce a conventional line transect estimator with a smaller variance than that of non-stratified survey region, it also acts to increase the bias of the abundance estimate obtained from SDMs.     

Quantification of the distributions of gluten, starch and air bubbles in dough at different mixing stages by fluorescence fingerprint imaging

A method combining fluorescence fingerprint (FF) measurement with an imaging technique was developed to visualize the distributions of gluten and starch in dough. The fluorescence images of dough at the under-, optimum- and over-mixing stages were acquired in multiple excitation and emission wavelengths constructing the FF. This data containing the FF data of each pixel in the sample image was colored according to the similarity of the FF of each pixel and the FF of gluten or starch. Furthermore, the areas corresponding to air bubbles in the dough were masked in black. The resulting image, referred to as the FF pseudocolor image, showed the distributions of gluten and starch in the dough with the incorporated bubbles. Quantitative parameters concerning gluten and starch distributions and bubble area were extracted from the dough images at each mixing stage, showing the homogenization of gluten and starch and the incorporation of bubbles with mixing. This imaging method is suggested to have an advantage over conventional imaging methods since there is no need to preprocess the sample, and any constituent in the sample can be visualized as long as there is information about the FF of the pure target constituent.     

Genetic parameter estimates of meat quality traits in Duroc pigs selected for average daily gain, longissimus muscle area, backfat thickness, and intramuscular fat content

Using a multitrait animal model BLUP, selection was conducted over seven generations for growth rate (ADG), real-time ultrasound LM area (LMA), backfat thickness (BF), and intramuscular fat content (IMF) to develop a new line of purebred Duroc pigs with enhanced meat production and meat quality. This selection experiment examined 543 slaughtered pigs (394 barrows and 153 gilts) from the first to the seventh generation for meat quality traits. Further, electric impedance and collagen content of loin meat were measured from the fourth to sixth generation. The present study was intended to estimate genetic parameters of the correlated traits of tenderness (TEND), meat color (pork color standard: PCS; lightness = L*), drip loss (DL), cooking loss (CL), pH (PH), electric impedance (IMP), and collagen (COL) of the LM, and the genetic trends of these traits. Respective heritability estimates for IMF, TEND, DL, CL, PCS, L*, PH, IMP, and COL were 0.39, 0.45, 0.14, 0.09, 0.18, 0.16, 0.07, 0.22, and 0.23. Genetic correlations of IMF with ADG and BF were low and positive, but low and negative with LMA. Tenderness was correlated negatively with ADG (-0.44) and BF (-0.59), but positively correlated with LMA (0.32). The genetic correlation between LMA and DL was positive and high (0.64). The genetic correlations of TEND with IMF and COL were low (-0.09 and 0.26, respectively), but a moderate genetic correlation (0.43) between COL and IMF was estimated, suggesting related increases of IMF and connective tissue. Genetic correlations among meat quality traits suggested that when IMF increases, the water holding capacity improves. Genetic trends of meat quality traits showed increased IMF and lighter meat color.     

Pathogenicity by parenteral injection of fowl adenovirus isolated from gizzard erosion and resistance to reinfection in adenoviral gizzard erosion in chickens

The pathogenicity of a serotype-1 fowl adenovirus (FAV-99ZH), which causes adenoviral gizzard erosion by oral inoculation in chickens, was investigated in specific pathogen-free white leghorn chickens. In trial 1, 14 chickens were inoculated intravenously with the virus at 21 days of age and euthanatized for necropsy within 1-14 days of inoculation. Gizzard erosion was grossly observed from day 7 postinoculation (PI), and histologically, FAV-99ZH antigen-positive, basophilic intranuclear inclusion bodies were seen in the gizzard lesions from day 7 to 11 PI. Necrotizing pancreatitis, and cholecystitis and cholangitis associated with the inclusions were observed from day 3 to 14 PI (pancreatitis) and from day 5 to 9 PI (cholecystitis and cholangitis), respectively. The inclusions were also observed in the epithelial cells of the cecal tonsils from day 3 to 5 PI. The virus was recovered from samples of the lesions. It was revealed that FAV-99ZH causes not only gizzard erosion but also pancreatitis, cholecystitis, and cholangitis by intravenous inoculation in chickens. In trial 2, 10 chickens were inoculated orally with the virus twice, at 13 and 36 days of age, and euthanatized for necropsy within 4-17 days after reinfection. Macroscopically, focal gizzard lesions were observed; however, neither necrosis nor inclusions were observed by microscopy. Moreover, FAV was not recovered from the gizzard or rectum of any of the chickens at necropsy. This suggests that the gizzard lesions occurred as a result of the primary infection, and that the chickens were able to resist reinfection.     

A clinical study on velocity patterns of pulmonary venous flow in canine heartworm disease

In this study, we evaluated methods of determining the velocity patterns of pulmonary venous flow (PVF) in dogs and then investigated the relationship of the patterns to cardiac functions in heartworm disease (HD) by transthoracic echocardiography (TTE). The results revealed that there was a good correlation between PVF patterns determined by transesophageal echocardiography (TEE) and TTE in animals lying on their left sides. The measurement of S and D wave velocities (PVS and PVD) by TTE was shown to allow clinical determination of the velocity patterns of PVF in dogs. The HD groups showed significant increases in PVS and PVD, and S and D wave time-velocity integrals (S-TVI and D-TVI) of the right cranial lobe PVF, when compared with the normal group, as determined by TTE (P<0.05). In contrast, the HD groups produced significant decreases in PVD and D-TVI of the right caudal lobe PVF compared with the normal group (P<0.05), and a significant increase in the ratio of S-TVI to (S-TVI + D-TVI) (P<0.05). It is, therefore, suggested that measurement of the velocity patterns of the right cranial and caudal lobe PVF could be one method of assessing the stages of obstructive lesions in the pulmonary artery.     

Genetic parameters for feed efficiency traits and their relationships with growth and carcass traits in Duroc pigs

Genetic parameters for feed efficiency traits of 380 boars and growth and carcass traits of 1642 pigs (380 boars, 868 gilts and 394 barrows) in seven generations of Duroc population were estimated. Feed efficiency traits included the feed conversion ratio (FCR), and nutritional (RFI(nut)), phenotypic (RFI(phe)) and genetic (RFI(gen)) residual feed intake. Growth and carcass traits were the age to reach 105-kg body weight (A105), loin eye muscle area (EMA), backfat (BF), intra-muscular fat (IMF) and meat tenderness. The mean values for RFI(phe) and RFI(gen) were close to zero and for RFI(nut) was negative. All the measures of feed efficiency were moderately heritable (h(2) = 0.31, 0.38, 0.40 and 0.27 for RFI(nut), RFI(phe), RFI(gen) and FCR respectively). The heritabilities for all growth and carcass traits were moderate (ranged from 0.37 to 0.45), except for BF, which was high (0.72). The genetic correlations of RFI(phe) and RFI(gen) with A105 were positive and high. Measures of RFI were correlated negatively with EMA. BF was more strongly correlated with measures of RFI (r(g) > or = 0.73) than with FCR (r(g) = 0.52). Selection for daily gain, EMA, BF and IMF caused favourable genetic changes in feed efficiency traits. Results of this study indicate that selection against either RFI(phe) or RFI(gen) would give a similar correlated response in carcass traits.     

Experimental infection of specific-pathogen-free chickens with serotype-1 fowl adenovirus isolated from a broiler chicken with gizzard erosions

Gizzard lesions were formed in specific-pathogen-free (SPF) white leghorn chickens inoculated with fowl adenovirus (FAV). The virus, serotype 1 FAV 99ZH strain (FAV-99ZH), was originally isolated from the gizzard mucosa of commercial broiler chickens exhibiting gizzard erosion with intranuclear inclusion bodies. Five-day-old and 53-day-old SPF white leghorn chickens were inoculated with FAV-99ZH by both oral and ocular routes and then examined at necropsy on days 3, 5, 7, 10, 14, and 21 postinoculation (PI). There were no clinical signs in any of the chickens after the inoculation. Focal gizzard lesions occurred macroscopically, however, in inoculated chickens at several experimental periods. FAV was recovered from tissue samples of the proventriculus, gizzard, pancreas, and rectum by day 10 or 7 PI but was not recovered from liver samples of any of the chickens. These results indicate that FAV isolated from gizzard erosion is able to reproduce gizzard lesions as necrosis and erosion in SPF white leghorn chickens and that it may have a greater degree of tissue tropism in gizzards and other digestive organs than in the liver.