Project description:Japanese cedar (Cryptomeria japonica) is an allogamous coniferous species that relies on wind-mediated pollen and seed dispersal, and it is one of the most important forestry tree species in Japan. For accelerating breeding, we collected massive SNPs based on ESTs from several organs using NGS, and thus carried out QTL, GWAS and GS based on high-density linkage maps.
Project description:Japanese cedar (Cryptomeria japonica) is an allogamous coniferous species that relies on wind-mediated pollen and seed dispersal, and it is one of the most important forestry tree species in Japan. For accelerating breeding, we collected massive SNPs based on ESTs from several organs using NGS, and thus carried out QTL, GWAS and GS based on high-density linkage maps.
Project description:Our histological findings showed that vermillion is present in the lip of Japanese macaque. In addition, the immunostaining pattern of K10 and SPRR3 of the lip of Japanese macaque is similar to that of a human. Thus, the transcriptome analysis of Japanese monkey can provide several unique genes specific to vermillion keratinocytes, which is required to develop a human lip/vermillion in vitro model.
Project description:Recent advances in molecular and genetic studies about flowering time control have been increasingly available to elucidate the physiological mechanism underlying masting, the intermittent and synchronized production of a large amount of flowers and seeds in plant populations. To identify unexplored developmental and physiological processes associated with masting, genome-wide transcriptome analysis is a promising tool, but such analyses have yet to be performed. We established a field transcriptome using a typical masting species, Japanese beech (Fagus crenata Blume), over two years, and analyzed the data using a nonlinear time-series analysis called convergent cross mapping. Our field transcriptome was found to undergo numerous changes depending on the status of floral induction and season. An integrated approach of high-throughput transcriptomics and causal inference was successful at detecting novel causal regulatory relationships between nitrate transport and florigen synthesis/transport in a forest tree species. The synergistic activation of nitrate transport and floral transition could be adaptive to simultaneously satisfy floral transition at the appropriate timing and the nitrogen demand needed for flower formation.
Project description:Toxicodendron succedaneum is an important economic tree species. In the process of establishing a regeneration system for the T. succedaneum, it was found that the axillary buds that are produced from the same tender branch after cutting are inserted into a rooting medium, with a rooting rate of 1%. When the main stem segments of the rooted tissue culture seedlings were placed on the same rooting medium, the rooting rate could reach 100%, and the complete tissue culture seedlings could be obtained. This study is based on the transcriptome and metabolome analysis, combined with the dynamic changes of endogenous hormones, investigates the key molecules, and potential mechanism in the process of adventitious root formation of TSE and TSW in T. succedaneum. The combination of transcriptomics and metabolomics revealed that the differentially expressed genes and differential metabolites in TSE and TSW were significantly enriched in plant hormone signal transduction pathway and alpha-linolenic acid metabolism pathway after 12 hours of cultivation. In the metabolome, the level of jasmonic acid in TSW is significantly lower than in TSE, and the expression levels of key genes in the JA biosynthetic pathway are also significantly lower than those in TSE. Therefore, it can be preliminarily inferred that the reduction in jasmonic acid content in TSW may be an important reason for its rooting. Furthermore, the JA content in TSE was consistently higher than it in TSW at 0,6,12 and 24 hours. Examining the dynamics of hormonal changes, When the jasmonic acid content reaches a certain concentration, it can inhibit the synthesis of auxins, thereby suppressing the formation of adventitious roots. Exogenous application of jasmonic acid and diethofencarb revealed that both high and low concentrations of JA suppress the root growth of T. succedaneum. The impact of diethofencarb treatment on the rooting of T. succedaneum is that high concentrations suppress it while low concentrations promote it. The molecular mechanism of jasmonic acid on AR formation in the T. succedaneum revealed in this study, provides a more comprehensive understanding of the AR formation mechanism in the T. succedaneum and other plants.
Project description:Japanese flounder (Paralichthys olivaceus) is an economic important aquaculture fish that was susceptible to Vibrio anguillarum. To fully deciphered the molecular mechanisms underlying flounder host defense against V. anguillarum infection, we perform the micro-transcriptome analysis of founder spleen with and without V. anguillarum infection at 3 time points.
Project description:Investigation of transcriptome dynamics of Japanese cedar (Cryptomeria japonica) in winter (Dec. 22-23, 2011) and summer (July 30-31, 2012). We investigated seasonal and diurnal transcriptome dynamics of Japanese cedar (Cryptomeria japonica) by analyzing shoot samples collected at four-hour interval for two days in winter and summer, respectively. We first collected sequence data of expressed genes from shoots to designed microarray probes. Microarray analysis revealed the significant difference of transcripts between summer and winter, and the diurnal transcriptome dynamic in summer.Statistical analysis indicated that about 7.7 % of unique genes showed diurnal rhythms with more than two-fold of peak-to-trough amplitude in summer.