Effect of genotyped bulls with different numbers of phenotyped progenies on quantitative trait loci detection and genomic evaluation in a simulated cattle population

The objective of this study was to assess the effect of genotyped bulls with different numbers of phenotyped progenies on quantitative trait loci (QTL) detection and genomic evaluation using a simulated cattle population. Twelve generations (G1–G12) were simulated from the base generation (G0). The recent population had different effective population sizes, heritability, and number of QTL. G0–G4 were used for pedigree information. A total of 300 genotyped bulls from G5–G10 were randomly selected. Their progenies were generated in G6–G11 with different numbers of progeny per bull. Scenarios were considered according to the number of progenies and whether the genotypes were possessed by the bulls or the progenies. A genome‐wide association study and genomic evaluation were performed with a single‐step genomic best linear unbiased prediction method to calculate the power of QTL detection and the genomic estimated breeding value (GEBV). We found that genotyped bulls could be available for QTL detection depending on conditions. Additionally, using a reference population, including genotyped bulls, which had more progeny phenotypes, enabled a more accurate prediction of GEBV. However, it is desirable to have more than 4,500 individuals consisting of both genotypes and phenotypes for practical genomic evaluation.     

GM2-gangliosidosis variant 0 (Sandhoff-like disease) in a family of Japanese domestic cats

A five-month-old, female Japanese domestic shorthair cat with proportionate dwarfism developed neurological disorders, including ataxia, decreased postural responses and generalised body and head tremors, at between two and five months of age. Leucocytosis due to lymphocytosis with abnormal cytoplasmic vacuolations was observed. The concentration of G(M2)-ganglioside in its cerebrospinal fluid was markedly higher than in normal cats, and the activities of beta-hexosaminidases A and B in its leucocytes were markedly reduced. On the basis of these biochemical data, the cat was diagnosed antemortem with G(M2)-gangliosidosis variant 0 (Sandhoff-like disease). The neurological signs became more severe and the cat died at 10 months of age. Histopathologically, neurons throughout the central nervous system were distended, and an ultrastructural study revealed membranous cytoplasmic bodies in these distended neurons. The compound which accumulated in the brain was identified as G(M2)-ganglioside, confirming G(M2)-gangliosidosis. A family study revealed that there were probable heterozygous carriers in which the activities of leucocyte beta-hexosaminidases A and B were less than half the normal value. The Sandhoff-like disease observed in this family of Japanese domestic cats is the first occurrence reported in Japan.     

Detection of intra- and interspecific variation of the dry rot fungus <Emphasis Type="Italic">Serpula lacrymans</Emphasis> by PCR-RFLP and RAPD analysis

We investigated a genotype-based assay to discriminate the dry rot fungi Serpula lacrymans. DNAs were extracted from 74 isolates from the northern half of Japan, and internal transcribed spacers (ITS) were amplified by polymerase chain reaction. Genotypes of isolates were checked by restriction fragment length polymorphism (RFLP) using two enzymes, Taq I and Hha I. Among the 74 isolates identified as S. lacrymans in terms of morphologic features, 5 isolates were shown to have been misidentified. Random amplified polymorphic DNA (RAPD) analysis was conducted in order to detect the intraspecific diversity of S. lacrymans isolated in Japan. Because no relation between geographical origin and genetic distances was observed, the intraspecific diversity of S. lacrymans is suggested to be small.Part of this report was presented at the 52nd Annual Meeting of the Japan Wood Research Society, Gifu, April 2002     

Effects of fiber length and orientation on elasticity of fiber-reinforced plywood

Short carbon fibers, a reinforced material in wood veneer composites, were used to investigate the effects of fiber length and orientation of fibers on the elasticity of plywood. The technical feasibility, elasticity, and strength of the reinforced plywood with short carbon fiber were evaluated. In a short fiber reinforcement system, the fiber length does not directly influence the reinforcement in Cox's theory when the fiber length exceeded a certain length. When the length of short carbon fiber is beyond 3 mm, the high reinforced result was obtained in the experiment. However, if fiber length was too long, the reinforced result was less owing to the bridge between fibers and the increase of holes. The optimum fiber length must be considered. The orientation of fibers has a strong influence on the reinforcement. Unidirectional, perpendicular, and random orientation displayed different influence on the elasticity. Experimental results were discussed with Cox's method. Reinforced plywood with short carbon fibers in random orientation has a higher shear modulus and bending strength than the controls, in addition to other mechanical properties.     

Genetic relationship of litter traits between farrowing and weaning in Landrace and Large White pigs

We estimated genetic parameters in Landrace and Large White pig populations for litter traits at farrowing (total number born, number born alive, number stillborn, total litter weight at birth (LWB), and mean litter weight at birth) and those at weaning (litter size at weaning (LSW), total litter weight at weaning (LWW), mean litter weight at weaning (MWW), and survival rate from farrowing to weaning). We analyzed 65,579 records at farrowing and 6,306 at weaning for Landrace, and 52,557 and 5,360, respectively, for Large White. Single‐trait and two‐trait repeatability animal models were exploited to estimate heritability and genetic correlation respectively. Heritability estimates of LSW were 0.09 for Landrace and 0.08 for Large White. Genetic correlations of LSW with MWW were –0.43 for Landrace and –0.24 for Large White. Genetic correlations of LSW with LWW and LWB ranged from 0.5 to 0.6. The genetic correlation of MWW with LWW was positive, but that with LWB was negligible. The results indicate that utilizing LWW or LWB could improve LSW efficiently, despite the antagonistic genetic correlation between LSW and MWW.     

Variation in chemical composition of corn dried distillers grains with solubles in relation to in situ protein degradation profiles in the rumen

Chemical composition and in situ degradation profiles were analyzed for 27 samples of dried distillers grains with solubles (DDGS) distributed in Japan, and a wide variation was found in neutral detergent fiber (NDF) content, which had positive relationships to detergent‐insoluble crude proteins such as neutral detergent‐insoluble crude protein (NDICP) and acid detergent‐insoluble CP (ADICP). Samples with lower NDF (< 35% on dry matter (DM)) showed higher soluble fractions of protein, but the degradation rate of microbially degradable protein in the rumen was not different in comparison with the samples with higher NDF, and no difference was shown between samples with higher and lower NDF after 24 and 48 h of in situ incubation for DM and CP degradation, respectively. The NDICP content in the digestion residue decreased with time of incubation, especially for samples with higher NDF, while the ADICP content increased. These results suggest that a part of the soluble fraction of CP in DDGS would be incorporated into NDICP by the heating process in bio‐ethanol production, which is still highly degradable, whereas another part of the fraction incorporated into ADICP would proceed to the advanced steps of irreversible amino‐carbonyl reaction.     

Agropyron elongatum HMW-glutenins have a potential to improve wheat end-product quality through targeted chromosome introgression

After screening of 177 disomic addition lines (DALs) of wheat (Triticum aestivum) containing a pair of chromosomes from different alien species, we found that the chromosome 1E addition line of Agropyron elongatum, that is known to be a potential genetic resource for drought and salinity tolerance, showed potential for improvement of bread-making quality of wheat. This was indicated by increased SDS sedimentation, specific sedimentation, mixograph peak time and SE-HPLC analysis of polymeric proteins. This addition line spontaneously gave rise to a substitution line for chromosome 1D in subsequent generations that showed weak dough strength. Analysis of the x-type HMW-glutenin subunit sequence of Ag. elongatum from DAL1E indicated that it closely resembled the x-type sequence of the A and B genomes of wheat, and the y-type was intermediate between x- and y-type HMW-glutenin subunit genes. From these observations, it was inferred that 1E-encoded seed storage proteins have considerable potential for improvement of wheat end-product quality if transferred to specific chromosomes such as 1A of Chinese Spring (CS) wheat, which has a negative overall effect on bread-making quality.     

Estimates of genetic parameters for chemical traits of meat quality in Japanese black cattle

Genetic parameters for 54 carcass and chemical traits, such as general composition (moisture, crude fat and crude protein), fatty acid composition and water‐soluble compounds (free amino acids, peptides, nucleotides and sugars) of 587 commercial Japanese Black cattle were assessed. Heritability estimates for carcass traits and general composition ranged between 0.19–0.28, whereas those for fatty acid composition ranged between 0.11–0.85. Most heritability estimates for water‐soluble compounds were lower than 0.30; these traits were affected by aging period. Moderate heritability was observed for glutamine, alanine, taurine, anserine, inosine 5′‐monophosphate (IMP), inosine and myo‐inositol. In particular, heritability estimates were the highest (0.66) for taurine. Traits with moderate heritability were unaffected by aging period, with the exception of IMP, which was affected by aging period but exhibited moderate heritability (0.47). Although phenotypic correlations of water‐soluble compounds with carcass weight (CW), beef marbling standard (BMS) and monounsaturated fatty acid were generally low, genetic correlations between these traits were low to high. At the genetic level, most of the water‐soluble compounds were positively correlated with monounsaturated fatty acid but negatively correlated with CW and BMS. Thus, our results indicate that genetic variance and correlations could exist and be captured for some of the water‐soluble compounds.