Shigeyuki Baba's research while affiliated with University of the Ryukyus and other places

Publications (35)

Conference Paper
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The current work reports the role of cycloartenol synthase Rhizophora stylosa (RsCAS) and Kandelia candel (KcCAS) in the amino acid residue and the contribution from cycloartenol to the phytosterol synthase. Observation of the amino acid sequence highlights the significance of active sites of plant cycloartenol synthases using the CLUSTALW software...
Conference Paper
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Kandelia, a genus belonging to Rhizophoraceae has been reported to have two distinct species: K. candel and K. obovata. Mangrove plants are known to produce secondary metabolite mostly derived from isoprenoid (triterpenoid and phytosterol). Isoprenoid composition of leaves and roots of K. candel (L.) Druce and K. obovata Sheue, Liu & Yong were inve...
Article
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The growth of six mangrove seedlings under varying salinity was studied concerning the habitat zonation. Healthy and mature propagules and seeds of selected mangroves, Rhizophora apiculata, R. stylosa, Ceriops tagal, Avicennia marina, A. alba, and Acanthus ilicifolius were collected from North Sumatran mangroves. Mangrove seedlings were grown for t...
Article
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Basyuni M, Sagami H, Baba S, Oku H. 2019. Response of polyisoprenoid concentration and profile in three groups of mangrove seedlings of coping with long-term salinity. Biodiversitas 20: 320-326. The response of polyisoprenoid (polyprenol and dolichol) concentration and distribution was investigated with three groups mechanism of coping with salinit...
Article
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The present study describes the bioinformatics analysis of 13 expressed sequence tags (ESTs) of salt tolerance genes in mangrove plant, Rhizophora stylosa as well as homology, phylogenetic, sequence analysis, potential peptide, and subcellular localization. The DNA sequence among the ESTs from R. stylosa exhibited 50-97% homology between themselves...
Conference Paper
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Major polyisoprenoid alcohols of mangrove plants were dolichols. Polyprenol reductase, therefore, may be active in mangrove plant leaves to catalyze the reduction of polyprenol to dolichol. Genomic sequence and homology-based PCRs method of mangrove plant Kandelia obovata have resulted in the cloning of predicted polyprenol reductase. The partial g...
Conference Paper
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This present study describes the bioinformatics analysis of 14 expressed sequence tags (ESTs) of salt tolerance genes in mangrove plant, Rhizophora stylosa Griff. on DDBJ/EMBL/GenBank as well as physical and chemical properties, similarity, phylogenetic, potential peptide, and subcellular localization. The physical and chemical properties of 14 EST...
Conference Paper
Full-text available
Cloning of Kandelia obovata (S. L.) Yong (2003) KcCAS gene from young roots (formerly known as Kandelia candel) has previously been reported and encoded a cycloartenol synthase. Fresh leaves of K. obovata that naturally grown in Okukubi River, Okinawa, Japan and used for DNA extraction. In this study, the KcCAS gene promoter was cloned through Geno...
Article
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This present study describesthe bioinformatics approach to analyze three partial polyprenol reductase genes from mangrove plant, Kandeliaobovataas well aspredictedphysical and chemical properties, potential peptide, subcellular localization, and phylogenetic. The diversity was noted in the physical and chemical properties of three partial polypreno...
Article
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Cloning of Kandelia obovata KcCAS gene (previously known as Kandelia candel) and Rhizophora stylosa RsCAS have already have been reported and encoded cycloartenol synthases. In this study, the predicted KcCAS and RsCAS protein were analyzed using online software of Phyre2 and Swiss-model. The protein modelling for KcCAS and RsCAS cycloartenol synth...
Article
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Molecular cloning of Kandelia candel KcMS gene has previously been cloned and encoded a multifunctional triterpene synthase. In this study, the KcMS gene promoter was cloned through Genome walking, sequenced, and analyzed. A 1,358 bp genomic DNA fragment of KcMS promoter was obtained. PLACE and PlantCARE analysis of the KcMS promoter revealed that...
Article
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It has been previously reported that dolichols but not polyprenols were predominated in mangrove leaves and roots. Therefore, the occurrence of larger amounts of dolichol in leaves of mangrove plants implies that polyprenol reductase is responsible for the conversion of polyprenol to dolichol may be active in mangrove leaves. Here we report the ear...
Article
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Molecular cloning of five oxidosqualene cyclases (OSC) genes from Bruguiera gymnorrhiza, Kandelia candel, and Rhizophora stylosa had previously been cloned, characterized, and encoded mono and -multi triterpene synthases. The present study analyzed protein modelling of triterpene synthase genes from mangrove using Phyre2 and Swiss-model. The divers...
Article
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The present study describes the effect of long-term salinity on morphological character and biomass content of two non-secretors mangrove plants Rhizophora apiculata and Ceriops tagal. Two mangrove seedlings were grown for six months in 0%, 0.5%, 1.5%, 2.0% and 3.0% salt concentration. The growth of R. apiculata was significantly enhanced by salt w...
Article
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The distribution and abundance of polyprenols (pol) and dolichols (dol) in the leaves and roots of fourteen coastal plants from North Sumatra, Indonesia were analysed using two-dimensional thin layer chromatography. In the leaves, with respect to the distribution of pol and dol were detected and categorized into three-types. In type-I, the predomin...
Article
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Microsatellite loci were used for estimating genetic diversity and structure for three populations of B. gymnorrhiza and K. obovata (Rhizophoracea) in Okinawa, Japan. Thirty propagules of individual samples representing the population of both species were genotyped at five microsatellites. The level of observed heterozygosity (HO) was observed for...
Article
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Microsatellite loci were used for estimating mating system for three populations of B. gymnorrhiza and K. obovata (Rhizophoracea) in Okinawa, Japan. Mother trees and thirty offspring of individual samples representing the population of both species were genotyped at five microsatellites. The mating system was examined using two approaches: a mixed...
Article
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The effects of salinity on the polyisoprenoid alcohol content and composition of the salt-secreting mangrove species Avicennia marina and Sonneratia alba and the non–salt-secreting species Bruguiera gymnorrhiza and Kandelia obovata were studied. The seedlings of mangroves were grown for 5 months under 0% and 3% salt concentrations. The occurrence,...
Article
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Background. Mangrove forests have long been known as a source of phytochemical compounds producing various secondary metabolites. Despite the ubiquitous diversity of polyisoprenoids in the plant kingdom, few studies have focused on the distribution of polyisoprenoids in mangrove plants. The present study describes the distribution and occurrence of...
Article
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Plant actin is one of the most conserved eukaryotic proteins to maintain the basic cellular process. Homology based PCRs method with degenerate primers designed from the conserved amino acid sequences of diverse actin genes have resulted in cloning of three actin genes. Three partial actin genes were cloned from mangrove family Rhizophoraceae, name...
Article
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Two populations of red mangrove Rhizophora mangle L. (Rhizophoraceae) in Ecuador was examined using five microsatellite primers. Microsatellite loci were low polymorphic with 2-5 alleles per locus. The level observed heterozygosity detected overall loci population, ranged from 0.189 to 0.405, indicating that these populations had little or no genet...
Article
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The effects of 6- Benzylaminopurine (BA), different basal medium, sucrose concentration and gelling agent were investigated for shoot induction and multiplication of Acacia auriculiformis. Nodal explants derived from 5-month-old seedlings yielded the highest shoot multiplication rate in Murashige and Skoog medium (MS) with 0.44 μM BA, 30 g/L sucros...
Article
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Salinity is a major abiotic stress that seriously limits plant growth and crop productivity. The halophytic Rhizophora stylosa is useful for the study of the molecular mechanisms behind salinity tolerance in mangrove trees. To isolate anti-salt stress genes from mangrove plants, a cDNA library of R. stylosa roots was constructed and screened for st...
Article
Full-text available
The halophytic Kandelia candel and Bruguiera gymnorrhiza are ideal model for studying the molecular mechanisms of salinity tolerance in mangrove plants. The correlation between mRNA expression of four oxidosqualene cyclase (OSC) genes namely, KcMS multifunctional terpenoid synthase and KcCAS cyloartenol synthase (K. candel), BgbAS beta-amyrin synth...
Article
This study describes parameterization and modification of G93 model to predict the isoprene emission from a tropical tree Ficus virgata. The optimized parameters of CT for four tropical trees determined by best fit were greater than those of default values for G93, and the temperature response profiles of these tropical trees showed divergence from...
Article
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Oleanane-type triterpene is one of the most widespread triterpenes found in plants, together with the lupane type, and these two types often occur together in the same plant. Bruguiera gymnorrhiza (L.) Lamk. and Rhizophora stylosa Griff. (Rhizophoraceae) are known to produce both types of triterpenes. Four oxidosqualene cyclase cDNAs were cloned fr...
Article
Full-text available
To obtain cDNAs encoding oxidosqualene cyclase (OSC), we cloned two cDNAs, KcCAS and RsCAS, from roots of Kandelia candel (L.) Druce and leaves of Rhizophora stylosa Griff. by homology based PCR method respectively. The deduced amino acid sequences of both OSCs showed 82% homology to cycloartenol synthases from Lotus japonicus (OSC5) and Ricinus cu...
Article
Full-text available
Isoprenoids in the nonsaponifiable lipids (NSL) fraction of Okinawan mangroves were analyzed with special reference to their importance as lipid input into estuarine ecosystems. Triterpenoids and phytosterols comprised the major proportion of NSL. Identifications of the triterpenoids and phytosterols in NSL fraction were based on the interpretation...
Article
Full-text available
Homology based PCRs with degenerate primers designed from the conserved sequences among the known oxidosqualene cylases (OSCs) have resulted in cloning of a triterpene synthase (KcMS) from the young roots of Kandelia candel (L.) Druce (Rhizophoraceae). KcMS consists of a 2286 bp open reading frame, which codes for 761 amino acids. The deduced amino...
Article
This study surveyed isoprene emission from 42 indigenous and exotic tropical trees in subtropic Okinawa, Japan. Of the 42 trees studied, 4 emitted isoprene at a rate in excess of 20 microg g(-1)h(-1), and 28 showed the rates of 1-10 microg g(-1)h(-1). The remainder emitted less than 1 microg g(-1)h(-1). The majority of trees in this study may there...
Article
Lipid compositions of mangrove trees were studied in relation to the salt-tolerance mechanism. Leaves and roots were obtained from seven mature mangrove trees on Iriomote Island, Okinawa: Bruguiera gymnorrhiza, Rhizophora stylosa, Kandelia candel, Lumnitzera racemosa, Avicennia marina, Pemphis acidula and Sonneratia alba. Lipids of mangrove leaves...

Citations

... True mangrove forests have species that specifically grow in intertidal zones, such as Avicennia marina, Sonneratia alba, Rhizophora apiculata, Kandelia candel, Ceriops tagal, and Bruguiera gymnorrhiza [3], [4]. Different mangrove species were adopted different adaptation strategies to high salinity, it depended on their differential ability for salt toleranceMangrove species have a general characteristic for tolerating seawater with high salinity, implying the convergent adaptation of this species [5]. ...
... Avicennia is a monotypic pantropical mangrove genus comprising eight species. this specie is widely known for its great resistance to salty water [4]. It presents a solution for protecting coastal areas in arid and semi-arid regions [5]. ...
... For example, in the primary EgPRP with a sample of the root tissue of a mature oil palm plant, there is only one band almost in all samples, in which some samples are undetectable. The number of bands appearance shows the allele conditions of the target gene, whether [12]. In this study, all genes thought to be related to resistance to G. boninense were homozygous in all samples. ...
... Furthermore, in the NCBI database, ten predicted polyprenol reductase from D. zibethinus had been deposited. This enzyme altered polyprenol compound to be dolichols in the polyisoprenoid biosynthesis [7]. Newly, expected polyprenol reductase and its bioinformatics information had been described from mangrove plant Kandelia obovata [8][9]. ...
... Very recently, Rs1 from R. stylosa EST had the stable gene (31.52) [14]. These findings demonstrated the significant agreement for the variation and role of physical and chemical characteristics of the distinguishable amino acids in G. boninenseisolates [8]. ...
... Another key element in signaling cascade, cycloartenol promoter, is also studied in K. candel. It has ABA, gibberellic acid, salicylic acid, and auxin-responsive elements in common (Basyuni et al., 2018b). K. obovata specific-CBF/DREB1 transcription factor gene (KoCBF3) is reported to increase its expression under cold, salinity, and heavy metal stresses, thereby offering tolerance through Ca 2+ signaling-mediated hormonal stress response (Peng et al., 2020b). ...
... The 32 cis-elements contained motifs that belonged to the regulatory sequences that responsive to anaerobicity, abiotic stress and hormone signaling. CGTCA and TGACG elements are associated with responsiveness to methyl jasmonate (Me-JA)(Basyuni et al. 2018), while the GARE-motif (TCTGTTG) and P-box (CCTTTTG) are related to gibberellin (GA)(Porto et al. 2014). The TCA-element (CCATCTTTTT) is a salicylic acid (SA) responsive element(Herrera-Vásquez et al. 2015). ...
... Moreover, only dolichols (formed by the action of polyprenol reductase on polyprenols) are detected in mangrove roots while leaves contain both of the secondary metabolites. A genetic study predicted 3 mangrove-specific gene sequences of polyprenol reductase from the K. obovata genome (Basyuni et al., 2018a). Transcriptome analysis of R. apiculata under different salt treatments revealed that the gene dihydroflavonol reductase B (encoding bifunctional enzyme essential for the metabolism of flavonoid) is expressed at a high level and can be correlated with tannin content, a polyphenolic secondary metabolite (Xu et al., 2017). ...
... Furthermore, the bioinformatics method provided more information on genetics (Pop and Salzberg 2008;Horner et al. 2009). G. boninense has a role in the diversity and the physical and chemical characteristics that are distinguishable by amino acids (Basyuni et al. 2018a). Moreover, Zhu et al. (2015) have reported more than 30 genes of a cluster of G. sinense, which they classified using the bioinformatics approach. ...
... Moreover, the longest average distance was found in SER (0.50). The cycloartenol synthase genes from KcCAS have been reported in the highest average distance 3D-Ligand binding site 0.69 in Kandelia obovata [18]. In another case of E. oleifera, the residues from 15-18 were found the amino acids of GLY, THR, and TYR. ...