| FullText URL | srfa_111_cover.pdf |
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| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2022-02-01 |
| Volume | volume111 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_110_cover_e.pdf |
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| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_110_colophon.pdf |
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| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | The List of Published by Members of the Faculty From January to December 2020. |
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| FullText URL | srfa_110_015_031.pdf |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| Start Page | 15 |
| End Page | 31 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | Studies for stabilization of flower color and cut flower longevity |
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| FullText URL | srfa_110_007_013.pdf |
| Author | Kitamura, Yoshikuni| |
| Abstract | My research interest is in the physiology and ecology of ornamental plants. Here, I introduce my research subjects on the stabilization of flower color and cut flower longevity. Seasonal color change of dahlia (Dahlia variabilis) is studied as practical study for improving the stable dahlia cut flower production during autumn and winter. The results obtained from pigment analysis and clone selection are presented. Research on cut flower longevity is presented from two aspects. Firstly, study on the structure of conductive tissues that contribute to water transport is presented. Secondly, study on the floral organs that contribute to transpiration from cut flowers is presented. |
| Keywords | cut flower flower color transpiration |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| Start Page | 7 |
| End Page | 13 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| NAID | 120006955816 |
| Title Alternative | A comparative gene analysis reveals a diatom-specific SET domain protein family |
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| FullText URL | srfa_110_001_006.pdf |
| Author | Nemoto, Michiko| |
| Abstract | The silica cell walls of diatoms, which exhibit species-spe-cific micro- and nano- patterned structures are promising candidates for applications in nanotechnology. Previous studies revealed a number of silica cell wall-associated proteins involved in silica formation. However, molecular biological analyses toward understanding of diatom cell wall formation have been mostly limited to model diatom species and general silica formation process in diatoms is still incompletely understood. In this study, to gain a compre-hensive insight into diatom silica biomineralization, tran-scriptome data of three diatom species, Nitzschia palea, Achnanthes kuwaitensis and Pseudoleyanella lunata, were newly developed. The reads obtained from RNA sequencing were assembled into 31,946, 60,767 and 38,314 unique transcripts for N. palea, A. kuwaitensis and P. lunata, respectively. In order to identify the diatom-specific genes, three transcriptome data sets developed in this study and the protein-coding gene sets of five genome-sequenced diatoms were compared. The proteins shared only by eight diatom species that are predicted to possess an endoplasmic reticulum (ER)-targeting signal peptide were selected for further analyses. These include proteins showing homology to silicanin-1, a recently reported diatom-specific protein involved in silica formation, as well as a number of SET domain proteins. The SET domain proteins might be novel diatom-specific family of methyltransferases that may reg-ulate the function of silica formation related proteins or long chain polyamines. The genes encoding the diatom-specific SET domain proteins identified in this study, which were shown to respond to silicon were suggested to be implicated in silica biomineralization. |
| Keywords | Biomineralization Diatom Silica Protein |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| Start Page | 1 |
| End Page | 6 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| NAID | 120006955817 |
| FullText URL | srfa_110_contents.pdf |
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| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_110_cover.pdf |
|---|---|
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2021-02-01 |
| Volume | volume110 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_109_cover_e.pdf |
|---|---|
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_109_colophon.pdf |
|---|---|
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | The List of Published by Members of the Faculty From January to December 2019. |
|---|---|
| FullText URL | srfa_109_049_061.pdf |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 49 |
| End Page | 4961 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | Genetic mechanism for soil-surface roots originating from a New Plant Type rice (Oryza sativa L.) |
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| FullText URL | srfa_109_041_047.pdf |
| Author | Tomita, Asami| |
| Abstract | A new method of using seedling trays to evaluate root angle distribution in rice (Oryza sativa. L) was developed. By using this method, the root angle distributions of 97 accessions were characterized into two cluster groups ; A and B. The numbers of accessions in group A were limited, and these were categorized as shallow rooting types including soil-surface root. Group B included from shallow to deep rooting types, including both Indica and Japonica Group cultivars, lowland and upland cultivars, and landraces and improved types. An introgression line YTH16 harboring chromosome segments from a New Plant Type cultivar IR65600-87-2-2-3 with genetic background of an Indica Group rice IR 64, was included in Group A. To clarify the genetic mechanism for soil-surface rooting, quantitative trait loci (QTL) analysis was performed using hybrid populations derived from a cross between IR 64 and YTH16. A total of 8 QTLs were detected in the 3 introgressed segments on chromosomes (chr.) 2, 5 and 7. Seven chromosome segment lines (CSLs) combining these 3 QTL regions were selected from the progenies. The 2 CSLs harboring a single region (excluding the CSL with a region on chr. 5) showed high soil-surface root scores and low root vertical angles (RVA) in comparison with IR 64. Four CSLs harboring 2 or 3 regions showed high scores and low RVAs in comparison with YTH16 and the CSLs harboring a single QTL region. These results indicated that the soil-surface and shallow rooting of YTH16 was controlled by the 2 major QTLs’ regions on chrs. 2 and 7, and that chr. 5 particularly played a role for supporting the effect with them. |
| Keywords | root angle distribution soil-surface root New Plant Type QTL rice (Oryza sativa L.) |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 41 |
| End Page | 47 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| NAID | 120006783246 |
| Title Alternative | Sexuality in plants, unveiled from genome evolution |
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| FullText URL | srfa_109_037_040.pdf |
| Author | Akagi, Takashi| |
| Abstract | Sexual polymorphism, a main strategy to maintain genetic diversity within a species, has long been a major focus in biology. Notwithstanding, in plants, evolution of sexual systems and mechanisms underlying these transitions have been little unveiled. We have elucidated the molecular mechanism of sex determination in persimmons (Diospyros spp.), where the Y-encoded smRNA gene OGI can repress the female-determining gene MeGI, and also in kiwifruits (Actinidia spp.), where the Y-encoded two sex determinants, Shy Girl and Friendly Boy, control gynoecium and androecium development, respectively. Although the molecular functions of these determinants are distinct, they have common evolutionary scenarios involving transitions of sexual systems. In persimmon, a recent genome triplication (hexaploidization) in cultivated persimmon (D. kaki) derived “flexible” sexuality via establishing epigenetic layers on the two sex determinants. On the other hand, an ancient Diospyros-specific paleo-genome duplication (paleo-tetraploidization) enabled neofunctionalization in the proto-MeGI, via positive selection, to establish a new function as a sex determinant. In kiwifruit, one of the two sex determinants, Shy Girl, was derived from neofunctionalization via Actinidia-specific duplication event. These findings exemplify how plant-specific numerous duplication events can drive flexible genetic material whose variation can be selected for development of new sexual systems. |
| Keywords | Sex determination Sex chromosome Polyploidization Genome evolution Tree crops |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 37 |
| End Page | 40 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | Development of Effective Biological Treatment Process for Acid Mine Drainage |
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| FullText URL | srfa_109_029_036.pdf |
| Author | Kamimura, Kazuo| Kanao, Tadayoshi| |
| Abstract | Acid mine drainage (AMD) is acidic and generally enriched with iron, aluminum, sulfate and heavy metals, such as lead and cadmium. AMD is a growing problem of emerging concern that cause detrimental effects to the environment and living organisms. Yanahara mine in Misaki Town, Okayama, Japan, had mainly produced pyrite for sulfuric acid manufacture. Although it was closed in 1991, AMD is being generated from the mine now. A passive treatment based on the biological oxidation of ferrous iron is a promising strategy for AMD remediation. AMD from Yanahara mine is treated in a plant using iron-oxidizing bacteria, Acidithiobacillus ferrooxidans and Ferrovum spp. The AMD generation continues for several centuries with dramatic consequences on the receiving environments. Therefore, the development of sustainable and cost effective treatment process is required. A development of the effective biological treatment process with an iron oxidation reactor operated at pH 3.5 is described in this report. Economic aspects are also discussed. |
| Keywords | acid mine drainage bioremediation iron-oxidizing bacteria microbial community Acidithiobacillus ferrooxidans |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 29 |
| End Page | 36 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_109_021_027.pdf |
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| Author | Annah Khatenje Indeche| Yoshida, Yuichi| Miyaji, Daisuke| Goto, Tanjuro| Yasuba, Ken-ichiro| Tanaka, Yoshiyuki| |
| Abstract | The objectives of this study were to (i) determine the optimum number of whole leaves to retain on a tomato plant for effective blossom-end rot (BER) management and (ii) explore the relationship between shoot calcium (Ca) and fruit Ca in non-defoliated plants in two different sized fruit cultivars, a large-fruited cultivar ‘Momotaro fight’ and a medium-fruited cultivar ‘Cindy sweet’. Treatments involved maintaining 18, 15 and 12 leaves on a plant. All lateral shoots were removed regularly throughout the growing period except the shoot closest to the flowering truss in the 18-leaf treatment. At the length of 10cm, these shoots were sampled for real time Ca determination using a hand held Ca2+ meter. In the plants defoliated to 18 leaves, BER was higher in ‘Momotaro fight’ at 10% compared to 2% in ‘Cindy sweet’. Fruit growth rate was significantly increased by defoliation in ‘Momotaro fight’, however no significant difference was observed among treatments in ‘Cindy sweet’. Defoliating to 12 leaves increased daily Ca transport rate by 59% and 37% in ‘Momotaro fight’ and ‘Cindy sweet’, respectively. Defoliating to 12 leaves increased the water-soluble Ca concentration in the distal part of fruit by 34% and 14% in ‘Momotaro fight’ and ‘Cindy sweet’, respectively. In the plants defoliated to 18 leaves where only old yellowish leaves were removed, a significant steady decrease was observed in the concentration of water soluble Ca in the distal part of fruit with increase in truss order. There was a significant linear relationship between water-soluble Ca concentration in the distal part of the fruit and Ca concentration in the lateral shoot of plants defoliated to 18 leaves. We conclude that under moderate water stress by root zone restriction and also certain other BER inductive conditions, defoliation to 12–15 leaves on a tomato plant should be a promising approach for decreasing BER incidence in susceptible large fruit cultivars. |
| Keywords | BER management defoliation water-soluble Ca lateral shoot Ca root zone restriction |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 21 |
| End Page | 27 |
| ISSN | 2186-7755 |
| language | English |
| File Version | publisher |
| FullText URL | srfa_109_013_020.pdf |
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| Author | Nguyen Quang Co| Nguyen Thi Thanh Hien| Saitoh, Kuniyuki| |
| Abstract | The field study was conducted in Nam Dong district, Thua Thien Hue province, Vietnam during May 2019 to observe the effects of SRI method on the rice yield and eradicate the factor affecting the yield. The study was carried out to evaluate the agronomic characteristics of rice, fresh and dry matter production, soil characteristics with a focus group discussion regarding cultivation by SRI and non-SRI methods. The soil analyses using standard measurements showed quite similar soil fertility in both SRI and non-SRI methods, while rice plants showed good agronomic performances and fresh and dry matter production in SRI method. At harvesting time, the yield and yield potentials of rice were greater in SRI than that in non-SRI methods. Focus group discussion found some factors that limited SRI development in Nam Dong district. |
| Keywords | Actual yield Focus group discussion Filled spikelets SRI Weeding |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 13 |
| End Page | 20 |
| ISSN | 2186-7755 |
| language | English |
| File Version | publisher |
| Title Alternative | Mathematical analysis of copy number variation of 2 μ-based plasmids in yeast cells |
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| FullText URL | srfa_109_007_011.pdf |
| Author | Saeki, Nozomu| Moriya, Hisao| |
| Abstract | Plasmids with the 2 μ plasmid origin are commonly-used in the genetic engineering of the budding yeast Saccharomyces cerevisiae. Intracellular copy numbers of 2 μ plasmids are different depending on the genes inserted into the plasmids. This difference is thought to occur from the difference in the growth efficiency （fitness） produced by the positive- and negative-selection biases of genes inserted in the plasmid. In this study, we made a mathematical model based on this assumption. Computational simulations of the model validated that copy numbers of the plasmids are rapidly settled depending on the fitness created by the gene on the plasmid. The copy number of a plasmid only contains a bias to keep the plasmid in a single copy became average 20copies per cell when the plasmid is randomly distributed, suggesting that no positive distribution mechanism is required for a plasmid to become multicopy. |
| Keywords | yeast 2 μ plasmid mathematical model |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 7 |
| End Page | 11 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| Title Alternative | Recombinant expression and characterization of quinone-containing novel glycine oxidase from Marinomonas mediterranea |
|---|---|
| FullText URL | srfa_109_001_006.pdf |
| Author | Kajiyama, Yuki| Mizobata, Satsuki| Akaji, Shusaku| Nemoto, Michiko| Tamura, Takashi| Inagaki, Kenji| |
| Abstract | Novel glycine oxidase (GlyOX) from Marinomonas mediterranea depends on cysteine tryptophilquinone (CTQ) and catalyzes the oxidative deamination of glycine to produce a glyoxylate, ammonia, and hydrogen peroxide. M. mediterranea GlyOX genes (goxA and goxB) were cloned and recombinant GlyOX was heterologously expressed by E. coli. The purification of recombinant GlyOX was carried out by metal affinity and DEAE-Toyopearl 650M column chromatographies. M. mediterranea GlyOX was homotetramic with a molecular mass of 76kDa and showed optimum activity around 30°C and at pH 5.0, and stability below 50°C and between pH 5.0 to 9.0. M. mediterranea GlyOX shows a strict substrate specificity toward glycine, and the Michaelis constant for glycine was 0.5mM. M. mediterranea GlyOX could determine the quantity of glycine in human serum and human blood plasma with high sensitivity. This study revealed the catalytic and structural properties of M. mediterranea GlyOX with high substrate specificity. |
| Keywords | glycine oxidase Marinomonas mediterranea cysteine tryptophilquinone recombinant expression enzymatic glycine assay |
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| Start Page | 1 |
| End Page | 6 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_109_contents.pdf |
|---|---|
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
| FullText URL | srfa_109_cover.pdf |
|---|---|
| Publication Title | Scientific Reports of the Faculty of Agriculture, Okayama University |
| Published Date | 2020-02-01 |
| Volume | volume109 |
| ISSN | 2186-7755 |
| language | Japanese |
| File Version | publisher |
