Detection of candidate polymorphisms around the QTL for fat area ratio to rib eye area on BTA7 using whole‐genome resequencing in Japanese Black cattle     

Shinji Sasazaki  Fuki Kawaguchi  Ayaka Nakajima  Raito Yamamoto  Takayuki Akiyama  Namiko Kohama  Emi Yoshida  Eiji Kobayashi  Takeshi Honda  Kenji Oyama  Hideyuki Mannen 《Animal Science Journal》2020,91(1)

In our previous study, we performed genome‐wide association study (GWAS) to identify the genomic region associated with Fat area ratio to rib eye area (FAR) and detected a candidate in BTA7 at 10–30 Mbp. The present study aims to comprehensively detect all polymorphisms in the candidate region using whole‐genome resequencing data. Based on whole‐genome resequencing of eight animals, we detected 127,090 polymorphisms within the region. Of these, 31,945 were located within the genes. We further narrowed the polymorphisms to 6,044 with more than five allele differences between the high and low FAR groups that were located within 179 genes. We subsequently investigated the functions of these genes and selected 170 polymorphisms in eight genes as possible candidate polymorphisms. We focused on SLC27A6 K81M as a putative candidate polymorphism. We genotyped the SNP in a Japanese Black population (n = 904) to investigate the effect on FAR. Analysis of variance revealed that SLC27A6 K81M had a lower p‐value (p = .0009) than the most significant SNP in GWAS (p = .0049). Although only SLC27A6 K81M was verified in the present study, subsequent verification of the remaining candidate genes and polymorphisms could lead to the identification of genes and polymorphisms responsible for FAR.  相似文献   

The dietary effects of a fermented vegetable product on glutathione peroxidase activity and lipid peroxidation of Japanese flounder Paralichthys olivaceus   总被引：2，自引：0，他引：2  

Takayuki Ashida  Yoshito Takel  Masahiro Takagaki  Yoshinori Matsuura  Eiji Okimasu 《Fisheries Science》2006,72(1):179-184

ABSTRACT:   To study the dietary effects of fermented vegetable product (FVP) on the protection against lipid peroxidation of various tissues in Japanese flounder, Paralichthys olivaceus . The fish were fed on experimental diets with or without FVP for 4 weeks. The glutathione concentrations in serum or liver had a tendency to increase on FVP-feeding fish. The FVP-feeding fish showed higher glutathione peroxidase (GPx) activity of liver than the control fish, and the GPx activity was increased by the administration of 6 mg/kg body weight/day FVP ( P  < 0.05). Conversely, fish fed on FVP containing diets exhibited significantly ( P  < 0.05) lower lipid peroxidants of serum and liver than the control fish. The FVP is suggested to suppress lipid peroxidation in the administrated fish, which led to enhancement of antioxidant effect against cultured fish.  相似文献   

Age and growth of yellowstriped butterfish, <Emphasis Type="Italic">Labracoglossa argentiventris</Emphasis>, around Izu Oshima Island     

Shingo?Watari  Junji?Yonezawa  Sakutaro?Yamada  Eiji?TanakaEmail author  Toshihide?Kitakado 《Fisheries Science》2005,71(1):86-94

ABSTRACT:   Age and growth of the yellowstriped butterfish, Labracoglossa argentiventris , around Izu Oshima Island were studied using a total of 1450 fish. Age was determined by counting the edge of the opaque zones as a ring mark on sectioned sagittal otoliths. Formation of the first ring was observed during spring or summer, corresponding to 1.5 years after hatching. Thereafter, one ring was formed each year in the same season as the previous year. The growth of the butterfish was rapid until 2 years of age. The maximum likelihood method was applied to the age and length data for estimating parameters in von Bertalanffy, Gompertz, and Logistic growth models. The selected model, based on the Akaike Information Criterion, was the von Bertalanffy growth model, which indicated differential asymptotic length and variance by sex.  相似文献   

Simultaneous estimation of instantaneous mortality coefficients and rate of effective survivors to number of released fish using multiple sets of tagging experiments     

Eiji Tanaka 《Fisheries Science》2006,72(4):710-718

ABSTRACT:   A method is proposed for estimating two instantaneous mortality coefficients, and rate of effective survivors to number of tagged fish released, using exact times at liberty from multiple sets of tagging experiments. Effective survivors are defined here by the product of survivors immediately after releasing and reporting rate of recaptures. A least-squares method was applied to estimate the parameters using statistical models expressing the numbers of effective survivors, which were calculated by a principle similar to virtual population analysis. In order to investigate the statistical performance of the method, simulation trials using operating models were carried out. The method was applied to data of tagging experiments for alfonsino Beryx splendens from 1957 to 1969, off Kanagawa Prefecture. In most of the results of simulation trials, the method yielded estimates of natural mortality coefficient of which expected values were within ± 12% of true values. Estimates of natural mortality coefficient, fishing coefficient and the rate of effective survivors for alfonsino are 0.57 (per year, 95% confidence limits [CL] 0.40–0.69), 0.094 (per year, 0.03–0.25) and 0.39 (0.12–1.00), respectively. Modifications for the generalization of the method and notes on its applications are discussed.  相似文献   

The effect of ovary storage and in vitro maturation on mRNA levels in bovine oocytes; a possible impact of maternal ATP1A1 on blastocyst development in slaughterhouse-derived oocytes     

Somfai T  Imai K  Kaneda M  Akagi S  Watanabe S  Haraguchi S  Mizutani E  Dang-Nguyen TQ  Inaba Y  Geshi M  Nagai T 《The Journal of reproduction and development》2011,57(6):723-730

Since BSE testing of slaughtered cattle is obligatory in Japan, storage of ovaries at 15-20 C overnight in phosphate buffered saline has become a routine protocol in in vitro production (IVP) of cattle embryos. Ovary storage is known to reduce developmental competence of oocytes; however, its effects on oocyte gene expression have not been clarified yet. This study compared oocytes collected from stored slaughterhouse-derived ovaries with those collected by Ovum Pick-Up (OPU) in terms of the expression of 20 selected genes to determine if ovary storage affects cellular processes at the molecular level. Expression of mRNA in oocytes was assayed before and after in vitro maturation (IVM) by real-time quantitative PCR. Maternal mRNA levels of genes were investigated in 2-cell stage embryos obtained from slaughterhouse oocytes to assess their roles for blastocyst formation. In immature OPU oocytes, genes related to metabolism (GAPDH), transporters (GLUT8, ATP1A1) and stress resistance protein (HSP70) showed significantly higher expression compared with oocytes derived from stored ovaries. During IVM, the expression of GDF9, GLUT8, CTNNB1 and PMSB1 was significantly decreased irrespective of oocyte source. Two-cell stage embryos cleaving at 22-25 h after in vitro fertilization (IVF) showed a significantly higher blastocyst formation rate and ATP1A1 gene expression level compared with those cleaving at 27-30 h after IVF. Our results reveal that storage of ovaries alters mRNA levels in oocytes. Correlation of Na/K ATPase ATP1A1 expression in IVP embryos at the 2-cell and 8-cell stages with their developmental ability to the blastocyst stage may suggest the importance of maternal mRNA of this gene during blastulation in embryos derived from slaughterhouse oocytes.  相似文献   

Treatment with a histone deacetylase inhibitor after nuclear transfer improves the preimplantation development of cloned bovine embryos     

Akagi S  Matsukawa K  Mizutani E  Fukunari K  Kaneda M  Watanabe S  Takahashi S 《The Journal of reproduction and development》2011,57(1):120-126

  相似文献   

Fine mapping the number of corpora lutea quantitative trait loci on SSC3: Analysis of the porcine follicle‐stimulating hormone receptor gene     

Shuji SATO  Takeshi HAYASHI  Eiji KOBAYASHI 《Animal Science Journal》2011,82(5):633-641

In females, follicle‐stimulating hormone (FSH) targets a FSH receptor (FSHR) expressed only on granulose cells, inducing maturation of the ovarian follicles. We hypothesized that genetic variants in the FSHR gene influence litter size by affecting the number of corpora lutea. We fine‐mapped a region of Sus Scrofa chromosome 3 that contains quantitative trait loci for corpora lutea. Polymorphisms were detected in the exons and 5′ flanking region of the porcine FSHR gene, a positional candidate for the statistically most significant of the quantitative trait loci. Finally, 248 F₂ animals from a Duroc and Meishan cross were genotyped for three FSHR SNPs at positions 74, 532 and 1166, and these were correlated with the phenotypes of litter size and corpus luteum number. Three haplotypes were identified: M1 (G/G/C), M2 (C/A/T) and D (C/A/C). In the F₂ population, the M1 haplotype was associated with a greater number of corpora lutea (P < 0.01) and also seemed to be associated with increased litter size, although the association was not significant (P = 0.2571). Some polymorphisms resulting in amino acid substitutions in these genes were excluded from the polymorphisms possibly responsible for the number of corpora lutea.  相似文献   

Effect of ovary lipid from Skipjack tuna (Katsuwonus pelamis) on brain monoamines in rats     

Ookawa K  Mochizuki K  Shida E  Suzuki T  Suzuki T  Ooba T  Matumoto T  Hokari Y  Yokogoshi H 《The Journal of veterinary medical science / the Japanese Society of Veterinary Science》2007,69(6):593-598

In our previous experiments with rats, ovary lipid from Skipjack Tuna (Katsuwonus pelamis) (OLS) was shown to have a mitigating effect on anxiety and/or fear in elevated T-maze tests. This suggests that OLS has some effect on the central nervous system (CNS) of rats. Thus, we performed experiments to examine the status of CNS in rats given OLS. The effect of OLS on chronic stress was also examined at the same time. The feed for control rats used oil and fat that have the same energy percentages for n-6 and n-3 fatty acids and the same n-6/n-3 ratio as OLS. As a result, rats given OLS for 28 days had lower serotonin levels in various brain areas regardless of stress application, showing that OLS affected the serotonin nervous system. From this, it was inferred that the ability of OLS to mitigate anxiety and/or fear resulted from its action on CNS, especially the serotonin nervous system. Substances other than the essential fatty acids may have been responsible for the action of OLS on monoamines and the metabolites. The effect of OLS on CNS, especially the serotonin nervous system, suggests that OLS may suppress anxiety.  相似文献   

Allele‐specific polymerase chain reaction typing and sequencing of mitochondrial D‐loop region in broiler chickens in Japan          下载免费PDF全文

Takashi Harumi  Eiji Kobayashi  Mitsuru Naito 《Animal Science Journal》2015,86(9):815-817

This study aimed to comprehend a feature of single nucleotide polymorphism (SNP) in mitochondrial DNA (mtDNA) mainly of general broiler chickens in Japan. We typed two SNP sites (199C/T and 792A/G) of the D‐loop region in mtDNA by allele‐specific PCR (AS‐PCR) in 359 broiler (182 chunky and 177 cobb) and 506 layer (233 White Leghorn, 140 Barred Plymouth Rock and 133 Rhode Island Red) chickens. The SNP of 199C or 792A by AS‐PCR was observed in the chunky and cobb chickens, and not in the layers. The haplotype 199T/792G was observed in a part of cobb and all layers. By the result of AS‐PCR haplotyping and the broiler brands, the D‐loop region was sequenced in 44 broiler chickens (20 chunky and 24 cobb) and compared with the layers’ sequence data. Among the broiler and layer chickens, 21 SNP sites (including one insertion) and 11 sequence haplotypes were observed. Haplotype variation or correspondence was observed in and between the broiler brands. This study provides important information to establish a chicken meat traceability system by SNP haplotyping of mtDNA in Japan.  相似文献   

The g.841G>C SNP of FASN gene is associated with fatty acid composition in beef cattle          下载免费PDF全文

Kiri Hayakawa  Takayuki Sakamoto  Atsushi Ishii  Keita Yamaji  Yoshinobu Uemoto  Nanae Sasago  Eiji Kobayashi  Naohiko Kobayashi  Tamako Matsuhashi  Shin Maruyama  Hirokazu Matsumoto  Kenji Oyama  Hideyuki Mannen  Shinji Sasazaki 《Animal Science Journal》2015,86(8):737-746

The objective of the current study is to evaluate the association between fatty acid composition and fatty acid synthase gene polymorphisms as responsible mutations. For this purpose, we selected seven previously reported single nucleotide polymorphisms (SNPs) in FASN gene, including one within promoter region (g.841G>C) and six non‐synonymous SNPs (g.8805C>T, g.13126C>T, g.15532A>C, g.16024A>G, g.16039C>T, g.17924A>G), and genotyped them in Japanese Black cattle. Genotyping results revealed that g.8805 C>T and g.17924 A>G were monomorphic loci. Genome‐wide association analysis including the other five SNPs revealed that only g.841G>C showed significant associations with the percentages of C14:0, C14:1, C16:1 and C18:1 at 5% genome‐wide significance level. In order to further evaluate the effect, we genotyped g.841G>C using additional three populations, including two Japanese Black populations and a Holstein cattle population. g.16024A>G was also genotyped and included in the analysis because it has been reported to be associated with fatty acid composition in Japanese Black cattle. In the result of analysis of variance, g.841G>C showed stronger effects on fatty acid percentage than those of g.16024A>G in all populations. These results suggested that g.841G>C would be a responsible mutation for fatty acid composition and contribute to production of high‐grade beef as a selection marker in beef cattle.  相似文献