Novel SNP in 5' flanking region of EDG1 associated with marbling in Japanese Black beef cattle

Marbling, defined by the amount and distribution of intramuscular fat, is an economically important trait of beef cattle in Japan. The endothelial differentiation , sphingolipid G-protein-coupled receptor , 1 ( EDG1 ) gene has been considered as a positional functional candidate for the gene responsible for marbling. We have recently reported that 2 single nucleotide polymorphisms (SNPs), c.-312A > G in the 5' untranslated region (UTR) and c.*446G > A in the 3' UTR in EDG1 were associated with marbling in Japanese Black beef cattle, but this was not functional and a causal mutation for marbling. In the present study, we detected 2 novel SNPs, referred to as g.1475435G > A and g.1471620G > T , in the 5' flanking region of the EDG1 between low-marbled and high-marbled steer groups, which were previously shown to have EDG1 expression differences in musculus longissimus muscle. The g.1475435G > A SNP seemed not to segregate in Japanese Black beef cattle. The g.1471620G > T SNP was associated with the predicted breeding value for beef marbling standard number by the analyses using Japanese Black beef cattle population. Based on these findings, we hypothesized that the g.1471620G > T SNP might have an impact on EDG1 expression and also marbling.     

The T allele at the g.1471620G>T in the EDG1 gene associated with high marbling in Japanese Black cattle is at a low frequency in breeds not selected for marbling

Our previous study detected a single nucleotide polymorphism (SNP), g.1471620G > T , in the 5' flanking region of the endothelial differentiation sphingolipid G-protein-coupled receptor 1 ( EDG1 ) gene, which has been considered as a positional functional candidate for the gene responsible for marbling, and showed association of the g.1471620G > T SNP with marbling in Japanese Black beef cattle. In the present study, we investigated the allele frequency distribution of the g.1471620G > T SNP among the 5 cattle breeds, Japanese Black, Japanese Brown, Japanese Short Horn, Holstein, and Brown Swiss breeds. The T allele at the g.1471620G > T SNP associated with high marbling was found at high frequency in Japanese Black breed that has been subjected to a strong selection for high marbling, while the allele was absent or at very low frequencies in the other breeds that have not been strongly selected for high marbling. Based on this finding, we hypothesized that the pressure of the strong selection for high marbling in Japanese Black breed has increased the frequency of the T allele at the g.1471620G > T SNP in the EDG1 .     

Breaking the dormancy of rice seeds with various dormancy levels using steam and high temperature treatments in a steam nursery cabinet

This study aimed to determine the appropriate steam treatment conditions, using a steam nursery cabinet, to break the dormancy of Japanese rice cultivar seeds exhibiting various dormancy levels. The influence of the temperature and duration of the steam treatments on the germination percentage and germination rate was investigated. In highly dormant ‘Takanari’ seeds, the steam treatment at 40 °C for 7 d increased the germination percentage and decreased the 50% germination time (T_50S; based on seed number); this treatment was as effective as the dry heat treatment at 50 °C for 7 d. For the medium dormant ‘Moeminori’ and ‘Hitomebore’ seeds, the steam treatment at 40 °C for 5 d decreased T_50S sufficiently and more effectively than did the dry heat treatment at 50 °C for 7 d. For the slightly dormant ‘Moeminori’ seeds, the steam treatment at temperatures ranging from 24 °C to 40 °C for 7 d decreased T_50S without a corresponding decrease in germination percentage to <90%. For the non-dormant ‘Moeminori’ and ‘Takanari’ seeds, the same steam treatments had no, or a little if any, useful effect on the germination percentage and T_50S. Therefore, we concluded that, for the highly dormant seeds, steam treatment at 40 °C for 7 d was appropriate. Moreover, for less dormant seeds, steam treatment at 40 °C for 5 d was appropriate, and the steam treatment was not necessary for the non-dormant seeds.     

First report of whisker mold,a postharvest disease on citrus caused by <Emphasis Type="Italic">Penicillium ulaiense</Emphasis> (in Japan)

In March 2006, stored fruits of the medium-to-late-ripening citrus variety Shiranuhi ([Citrus unshiu × C. sinensis] × C. reticulata) were found to have a disease similar to blue mold. The fungus causing this disease differed distinctly from the well-known, blue mold agent, Penicillium italicum, because it formed whisker-like coremia measuring 1–8 mm. On the basis of the morphological characteristics and the phylogenetic analysis based on the nucleotide sequence of the β-tubulin gene, the fungus was identified as P. ulaiense. This is the first report of citrus whisker mold caused by P. ulaiense in Japan.     

Crown gall of tobacco caused by <Emphasis Type="Italic">Agrobacterium tumefaciens</Emphasis> biovar 1 in tobacco fields

Crown gall disease of tobacco was found in Iwate Prefecture, Japan in 1995. Ten bacterial isolates, obtained from the galls of tobacco, were identified as Agrobacterium tumefaciens (Smith and Townsend 1907) Conn 1942 biovar 1 based on their ability to induce galls on the 14 tested plants, including tobacco after needle-prick inoculation, and on 12 cultural, physiological, and biological characteristics. The growth of the causal organism was not inhibited in vitro by agrocin of A. radiobacter strain K84. This report is the first on the natural occurrence of crown gall caused by A. tumefaciens on tobacco plants.     

Asphericity in supernova explosions from late-time spectroscopy

Core-collapse supernovae (CC-SNe) are the explosions that announce the death of massive stars. Some CC-SNe are linked to long-duration gamma-ray bursts (GRBs) and are highly aspherical. One important question is to what extent asphericity is common to all CC-SNe. Here we present late-time spectra for a number of CC-SNe from stripped-envelope stars and use them to explore any asphericity generated in the inner part of the exploding star, near the site of collapse. A range of oxygen emission-line profiles is observed, including a high incidence of double-peaked profiles, a distinct signature of an aspherical explosion. Our results suggest that all CC-SNe from stripped-envelope stars are aspherical explosions and that SNe accompanied by GRBs exhibit the highest degree of asphericity.