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The paired claws in Gazami crabs, Portunus trituberculatus, are bilaterally asymmetrical, and asymmetry is remarkable on the distal two segments of the first pereiopod, that is, the dactylus and propodus. Shells are exclusively cracked by use of the right chela, representing handedness. In Gazami crabs, handedness is reversed after autotomy of the right chela. Our study focused on the ontogeny of handedness and the mechanism of handedness reversal. Morphologically, asymmetry was first detected in megalopa larvae where the right propodus was significantly larger than the left, as was the canine at the base of the right dactylus. Presumably, the rate of chelagenesis differed between the left and right chelae. With these morphological features, the right chela functioned as a crusher. The crusher exerted a closing force two to three times that of the cutter. With loss of the right crusher, the left chela was bigger than the regenerated right chela and was converted to the crusher. In contrast, the performance of the regenerated right chela deteriorated compared to that of the original right crusher, and exertion of full closing force was inhibited by the more active left chela. Furthermore, crabs with two crusher chelae did not clearly show handedness. A decrease in size and performance of the regenerated right chela can be explained by a default program hypothesis. In conclusion, a difference in the chelagenesis rate results in bilateral asymmetry of the two chelipeds, and then handedness is generated by neural regulation in the thoracic ganglion innervating these claws. Since handedness is reversed after autotomy, the thoracic ganglion would not be lateralized in Gazami crabs. A default program hypothesis is proposed to explain the ontogeny of bilateral chela asymmetry and handedness reversal.

Seed coat cracking in soybeans [Glycine max (L). Merr.] leads to commercial and agronomic losses. The Japanese elite soybean cultivar ‘Fukuyutaka’ is often used as a parent for breeding, but its high rate of seed coat cracking is an obstacle to its further use in breeding programs. To establish a DNA marker-assisted selection system for seed coat cracking, genetic factors related to high rates of seed coat cracking were surveyed, and a quantitative trait locus (QTL) with a stable effect on seed coat cracking in both years of a two-year replication experiment was detected on chromosome 20. Comparison of a set of near-isogenic lines (NILs) around this locus verified that the presence of the ‘Fukuyutaka’ allele significantly increased seed coat cracking in the kernel. The locus is located in a genomic region spanning 3.2 Mb. Marker-assisted selection for the locus will improve the selection efficiency of ‘Fukuyutaka’-derived breeding populations.

The paired claws in Gazami crabs

Soyasaponins are specialized metabolites present in soybean seeds that affect the taste and quality of soy-based foods. The composition of the sugar chains attached to the aglycone moiety of soyasaponins is regulated by genetic loci such as sg-1, sg-3 and sg-4. Here, we report the cloning and characterization of the Sg-3 gene, which is responsible for conjugating the terminal (third) glucose (Glc) at the C-3 sugar chain of soyasaponins. The gene Glyma.10G104700 is disabled in the sg-3 cultivar, 'Mikuriya-ao', due to the deletion of genomic DNA that results in the absence of a terminal Glc residue on the C-3 sugar chain. Sg-3 encodes a putative glycosyltransferase (UGT91H9), and its predicted protein sequence has a high homology with that of the product of GmSGT3 (Glyma.08G181000; UGT91H4), which conjugates rhamnose (Rha) to the third position of the C-3 sugar chain in vitro. A recombinant Glyma.10G104700 protein could utilize UDP-Glc as a substrate to conjugate the third Glc to the C-3 sugar chain, and introducing a functional Glyma.10G104700 transgene into the mutant complemented the sg-3 phenotype. Conversely, induction of a premature stop codon mutation in Glyma.10G104700 (W270*) resulted in the sg-3 phenotype, suggesting that Glyma.10G104700 was Sg-3. The gmsgt3 (R339H) mutant failed to accumulate soyasaponins with the third Rha at the C-3 sugar chain, and the third Glc and Rha conjugations were both disabled in the sg-3 gmsgt3 double mutant. These results demonstrated that Sg-3 and GmSGT3 are non-redundantly involved in conjugation of the third Glc and Rha at the C-3 sugar chain of soyasaponins, respectively.

Soyasaponins can be classified into two groups as A saponins and DDMP saponins. Fully-acetylated group A saponins, located on the seed hypocotyls, are the major cause of undesirable characteristics in soy foods. Apart from the fully-acetylated and deacetylated group A saponins, other saponin components have not been studied. This research aimed to identify 105 saponins in the seed hypocotyls and cotyledons of nine saponin phenotype soybean varieties. Soyasapogenol A glucosides (SAGs) including fully-acetylated SAGs (FSAGs), partially-acetylated SAGs (PSAGs), deacetylated SAGs (DSAGs), and DDMPs were identified by LC-PDA-MS/MS and quantified by UV-chromatograms. The complexity of soyasaponin compositions depended on the seed structure (hypocotyls and cotyledons) and variety. Other than in seed hypocotyls, FSAGs were detected in seed cotyledons ranging from 2.1 to 34.9 μmol/100 g dry basis. Minor components as PSAGs were also detected including monoacetyl, diacetyl, and triacetyl ranging between 2.2–19.8 and 1.6–44.0 μmol/100 g dry basis for hypocotyls and cotyledons, respectively. The degree of acetylation affects the intensity of undesirable characteristics in soy products and this issue requires further study. All saponin compositions require clarification using tandem mass spectrometry.

Soybeans planted in early to mid-June (early) are less affected by rainfall during rainy season than those conventionally planted in early to mid-July in southwestern Japan. Also, narrow row cultivation is expected to increase soybean yield and save labor for inter-tillage and ridging. Field experiments were performed in 2014 and 2015 to test the effect of plant density (high, middle, and low) under early planting condition on growth, yield, and several agronomical traits of Sachiyutaka A1 and three new genotypes (Sakukei 155, Kanto 127 and Shikoku 15). Early planting was performed in mid- to late June, even though rainy season started in early June. Higher plant densities produced 13% greater yield than low plant density through an increase in biomass accumulation, especially at R5. Among yield components, only pods m−2 was significantly and positively correlated with yield, indicating that an increase in pods m−2 led to a greater yield with higher plant densities. The yields of Sachiyutaka A1 were relatively stable for two years, but the lodging resistance should be further improved. Shikoku 15 had greater yield potential and lodging resistance, but its resistance to damping-off disease should be improved. Sakukei 155 with medium plant density produced relatively high and stable yield with less lodging. Although the yield of Kanto 127 fluctuated between experimental years, this genotype showed higher yield potential in higher plant densities with less lodging in 2015. Thus, Sakukei 155 and Kanto 127 with high or medium density may be suitable for early planting in this region.

Recent findings of genetic breaks within apparently continuous marine populations challenge the traditional vicariance paradigm in population genetics. Such “invisible” boundaries are sometimes associated with potential geographic barriers that have forced divergence of an ancestral population, habitat discontinuities, biogeographic disjunctions due to environmental gradients, or a combination of these factors. To explore the factors that influence the genetic population structure of apparently continuous populations along the Sea of Japan, the sandy beach amphipod Haustorioides japonicus was examined. We sampled a total of 300 individuals of H. japonicus from the coast of Japan, and obtained partial sequences of the mitochondrial COI gene. The sequences from 19 local populations were clustered into five groups (Northwestern Pacific, Northern, Central, Southern Sea of Japan, and East China Sea) based on a spatial genetic mixture analysis and a minimum-spanning network. AMOVA and pairwise Fst tests further supported the significant divergence of the five groups. Phylogenetic analysis revealed the relationship among the haplotypes of H. japonicus and outgroups, which inferred the northward range expansion of the species. A relaxed molecular-clock Bayesian analysis inferred the early-to middle-Pleistocene divergence of the populations. Among the five clusters, the Central Sea of Japan showed the highest values for genetic diversity indices indicating the existence of a relatively stable and large population there. The hypothesis is also supported by Bayesian Skyline Plots that showed sudden population expansion for all the clusters except for Central Sea of Japan. The present study shows genetic boundaries between the Sea of Japan and the neighboring seas, probably due to geographic isolation during the Pleistocene glacial periods. We further found divergence between the populations along the apparently continuous coast of the Sea of Japan. Historical changes in the geographic range of H. japonicus in relation to sandy beach habitat availability, account for the genetic breaks among the three populations in the Sea of Japan. The present results infer that the past geographic events influenced the population formation of H. japonicus.

Assemblages of sandy shores are primarily structured by physical environment factors. This structuring provides a unique opportunity to evaluate biogeographic regions. In this study, the shallow subtidal zone (0.2–1.2 m) of 39 sites of sandy shores along the Japan Sea coast of Honshu were surveyed using a sledge net to identify invertebrate assemblages and to elucidate their relationships with environmental factors and geographic distributions. In total, 78 taxonomic units were obtained and six clusters of assemblage were recognized according to the Morisita-Horn dissimilarity index values between the assemblages of these sites. Indicator taxonomic units were identified for the clusters and a distance-based redundancy analysis (dbRDA) demonstrated that a set of five environmental factors (slope angle of the swash zone, sediment grain size, average wave fetch, spring sea surface temperature, and summer Chlorophyll-a concentration) significantly explained variations of the assemblages. Geographical distributions of two of the clusters were localized and mutually exclusive (one in the north and one in the south), while the other four clusters were scattered along the coast. On the dbRDA ordination, these two clusters were plotted on opposite ends of the 1st axis on which spring sea surface temperature and summer Chlorophyll-a concentration showed high contributions. The spatial gap between the two clusters was located in an area between the Noto Peninsula and the Sado Island, central Honshu, which can be proposed as a boundary of geographic regions of sandy shore organisms along the Japan Sea coast.

Calibration of the molecular rate is one of the major challenges in marine population genetics. Although the use of an appropriate evolutionary rate is crucial in exploring population histories, calibration of the rate is always difficult because fossil records and geological events are rarely applicable for rate calibration. The acceleration of the evolutionary rate for recent coalescent events (or more simply, the time dependency of the molecular clock) is also a problem that can lead to overestimation of population parameters. Calibration of demographic transition (CDT) is a rate calibration technique that assumes a post-glacial demographic expansion, representing one of the most promising approaches for dealing with these potential problems in the rate calibration. Here, we demonstrate the importance of using an appropriate evolutionary rate, and the power of CDT, by using populations of the sandy beach amphipod Haustorioides japonicus along the Japanese coast of the northwestern Pacific Ocean. Analysis of mitochondrial sequences found that the most peripheral population in the Pacific coast of northeastern Honshu Island (Tohoku region) is genetically distinct from the other northwestern Pacific populations. By using the two-epoch demographic model and rate of temperature change, the evolutionary rate was modeled as a log-normal distribution with a median rate of 2.2%/My. The split-time of the Tohoku population was subsequently estimated to be during the previous interglacial period by using the rate distribution, which enables us to infer potential causes of the divergence between local populations along the continuous Pacific coast of Japan.

Populations of amphidromous neritid gastropods are prone to habitat degradation by anthropogenic disturbances. To accumulate information on the life history of these neritids, seasonal growth patterns of four neritid species, Neritina turrita, N. plumbea, N. auriculata, and Clithon brevispina, were examined in an upper mangrove estuary on Ishigaki Island. Individual neritids in a fixed sampling area were captured and mark-released bimonthly over a 1-yr period. Growth rates of the four species were estimated from linear regression models and Ford-Walford graphs using data from recaptured individuals. A model-selection procedure identified the common L max model as the best model for describing seasonal growth fluctuations of the four species. Growth of the four species was generally higher in the warm season (April–October) and lower in the cool season (October–April). In addition, N. plumbea stopped growing in midsummer (June–August). Temporal changes in the size-frequency histograms showed several recruitment events of the four species. Estimated growth curves, in some cases, did not fit well to temporal changes of the size cohorts derived from the size-frequency histograms, indicating that size-dependent migration or mortality may occur in the sampling area.

Recent studies have demonstrated that interstices of coral rubble harbor rich and diverse assemblages of motile cryptic animals. Habitats of coral rubble are prone to frequent physical disturbances, so colonization is an important process to maintain the assemblages of these cryptic animals. In order to examine the pattern of colonization, field experiments were carried out using mesh traps with defaunated coral rubble: one treatment placed on the bottom and the other raised 15 cm above the bottom (throughout as “raised”) to restrict colonizers to only organisms that are able to invade via the water column. Results of nMDS and PERMANOVA showed significant differences between the assemblages of the bottom and raised treatments. Species-specific variations in the rate of colonization, which were estimated by fitting the von Bertalanffy equation, contributed to the variations in the cryptic assemblages. Generally, decapods and gastropods colonized via the benthic pathway with colonizing individuals moving on the surface of the bottom substrate, while copepods and non-shelled gammarids colonized via the planktonic pathway. Variations in cryptic assemblages in coral rubble microhabitats may be partly due to differences in contributions via the two colonization pathways.

Triterpenoid saponins are specialized metabolites, which are abundant in soybean seeds. They have a wide variety of effects on human health and physiology. The composition of sugar chain attached to the aglycone moiety of saponins can be controlled by genetic loci, such as Sg-1, 3, and 4. Among these, the homozygous recessive sg-4 impairs the accumulation of saponins that have an arabinose moiety at the second position of the C-3 sugar chain (i.e., saponins Ad and βa) in the hypocotyls. In this study, we found that sg-4 cultivars are disabled in Glyma.01G046300 expression in hypocotyls. This gene encodes a putative glycosyltransferase (UGT73P10) and is a homolog of GmSGT2 (UGT73P2) whose recombinant protein has been previously shown, in vitro, to conjugate the second galactose moiety at the C-3 position of soyasapogenol B monoglucuronide (SBMG). The sg-4 phenotype (absence of saponins Ad and βa in hypocotyls) was restored by introducing the Glyma.01G046300 genomic DNA fragment that was obtained from the Sg-4 cultivar 'Ibarakimame 7'. Although Glyma.01G046300 is expressed in the cotyledons even in the sg-4 cultivars such as 'Enrei', the induced premature stop codon mutation (W244*) resulted in impaired accumulation of saponin βa in this tissue also in the 'Enrei' genetic background. Furthermore, the recombinant Glyma.01G046300 protein was shown to conjugate the second Ara moiety at the C-3 position of SBMG using UDP-Ara as a sugar donor. These results demonstrate that Sg-4 is responsible for conjugation of the second Ara moiety at the C-3 position of soybean saponins.

In order to develop a composite measure of community species diversity and abundance, a generalization of Morisita’s prosperity index is proposed. Using Hill’s diversity representation, the prosperity index is a product of the total number of individuals and the effective number of species in a community. A series of prosperity indices can be derived using a parameter (Hill’s number). As an analogy of component partitions of species diversity, regional, within, and between components are also defined. The prosperity index will be useful for practical aspects related to conservation and management.

The swash zone of sandy shores is a transitional habitat between the sea and land where the physical environment is the primary factor influencing the distribution of shore macrofauna. We constructed cumulative logit models using Bayesian inference to predict the ranked abundance of three species of peracarid crustaceans (Haustorioides japonicus, Excirolana chiltoni, and Archaeomysis kokuboi) that dominate the sandy shores of the Niigata coastline, Sea of Japan. Additionally, we estimated the importance of 14 environmental factors at explaining the variation in abundance. The environmental factors were grouped into three categories: swash zone, landward, and offshore. Optimum models were selected among the null model, the basic model (swash zone factors only), and additional models with landward and/or offshore factors. The optimal model for each of the three species was obtained when landward and/or offshore factors were added to the basic model, suggesting the importance of these regional factors. Combinations of significant factors differed between the three peracarid species. Some differences can be explained by accounting for life history characteristics. The slope of the offshore seafloor was the only common significant factor for the three species. Therefore, a decrease in the size of the shallow area off the sandy shore was associated with a decrease in the density of the three species. Because the peracarid crustaceans play an important role in trophic links in sandy shore ecosystems, our study results predict that an increase of coastal erosion leading to change of near-shore bathymetry will reduce the ecological function of the swash zone.

We detected a QTL for single seed weight in soybean that was stable across multiple environments and genetic backgrounds with the use of two recombinant inbred line populations. Single seed weight (SSW) in soybean is a key determinant of both seed yield and the quality of soy food products, and it exhibits wide variation. SSW is under genetic control, but the molecular mechanisms of such control remain unclear. We have now investigated quantitative trait loci (QTLs) for SSW in soybean and have identified such a QTL that is stable across multiple environments and genetic backgrounds. Two populations of 225 and 250 recombinant inbred lines were developed from crosses between Japanese and US cultivars of soybean that differ in SSW by a factor of ~2, and these populations were grown in at least three different environments. A whole-genome panel comprising 304 simple sequence repeat (SSR) loci was applied to mapping in each population. We identified 15 significant QTLs for SSW dispersed among 11 chromosomes in the two populations. One QTL located between Sat_284 and Sat_292 on chromosome 17 was detected (3.6

Small cryptic animals utilize the interstices of coral rubble as a refuge from predators and form a significant part of the diversity and productivity of coral reef ecosystems. In the present study, we examined the composition of cryptic mobile animals along an estuarine gradient within a mangrove-seagrass-coral reef seascape off Ishigaki Island, southwest Japan. We used mesh traps with defaunated coral rubble to sample cryptic mobile animals quantitatively at four sites: upper-estuary mangrove, lower-estuary mangrove, seagrass bed, and coral lagoon. Sixty-five species of decapod crustaceans, gastropods, fishes, and other mobile animals were identified. The assemblage composition of these identified species was significantly different among the four sites. Low-resolution taxa including copepods, gammarids, and other taxa also showed significant differences in composition among the four sites. Two types of rubble (branch and lump) were used to examine the possible effects of microhabitat structure, but no significant effect on assemblage composition was detected. Results indicate that, despite the close proximity and high degree of water mass mixing among the sites, cryptic animals colonized the trays from the surrounding habitats, and that the assemblage of cryptic animals varied considerably along the estuarine gradient.

In soybean, the I gene inhibits pigmentation over the entire seed coat, resulting in yellow seeds. It is thought that this suppression of seed coat pigmentation is due to naturally occurring RNA silencing of chalcone synthase genes (CHS silencing). Fully pigmented seeds can be found among harvested yellow seeds at a very low percentage. These seed coat pigmented (scp) mutants are generated from yellow soybeans by spontaneous recessive mutation of the I gene. A candidate for the I gene, GmIRCHS, contains a perfect inverted repeat (IR) of a CHS pseudogene (pseudoCHS3) and transcripts of GmIRCHS form a double-stranded CHS RNA that potentially triggers CHS silencing. One CHS gene, ICHS1, is located 680 bp downstream of GmIRCHS. Here, the GmIRCHS-ICHS1 cluster was compared in scp mutants of various origins. In these mutants, sequence divergence in the cluster resulted in complete or partial loss of GmIRCHS in at least the pseudoCHS3 region. This result is consistent with the notion that the IR of pseudoCHS3 is sufficient to induce CHS silencing, and further supports that GmIRCHS is the I gene.

A population of the mud shrimp,Upogebia major, inhabiting Kasaoka Inlet had a higher frequency of intersex males compared to other populations in the Seto Inland Sea, Japan. This population also featured a high prevalence of the branchial epicaridean parasite,Gyge ovalis, and inhabited a tidal flat characterized by increasingly softer sediments going into the lower tidal areas. We examined the rates at which infection co-occurred with intersex features and checked whether infection patterns varied with intersex occurrence according to host size and tidal level position. Fewer specimens were both intersex and infected than those having only one of either condition; infection was not a significant predictor of intersex. However, infection in young hosts that recovered from the parasite could be associated with the intersex morphologies and account for the majority of cases that were intersex but parasite-free. Deletions of the cuticular ridge (CRD) between the first and second abdominal segment and tidal level position were correlated with intersex. Lower tidal zone mud shrimp were, respectively, three and four times more likely to be intersex and exhibit CRD than those in the upper tidal zone. Potentially inclusive factors that may influence these trends are higher rates of early infection and increased exposure to sediment-bound pollutants in mud shrimp inhabiting the lower tidal areas.

Determination of the growth pattern of a harvested species is an important step toward a proper assessment and suitable management of the stock. Although coconut crab Birgus latro populations in most regions have been severely depleted, few reliable biological data are available. We assessed the growth of B. latro using a mark-recapture method based on the use of passive integrated transponder (PIT) tags on Hatoma Island, located southwest of Okinawa, Japan. Of 781 crabs tagged (337 males, 444 females; 14.89 to 58.03 mm thoracic length (ThL)), 17 males and 20 females were recaptured. The application of PIT tags provided field data for growth of individuals for up to 2326 d and confirmed that coconut crabs molt during the winter dry season on Hatoma Island. The curves relating ThL with age, estimated from data of 29 crabs that had spent one or multiple winter dry seasons at liberty, showed that the coconut crab is an extremely slow growing species, with males showing much higher mean asymptotic ThL (69.87 mm) than females (42.79 mm). The Brody growth coefficient (K)was 0.061 yr �1 for males and 0.091 yr �1 for females. This study is the first to provide growth estimates of wild coconut crabs based on mark- recapture over multiple years. Potentially long-lived, slow growing species such as coconut crabs may be susceptible to overharvesting, and a cautious approach is recommended to the determina- tion of resource management regimes for B. latro.

The objective of this study was to identify quantitative trait loci (QTL) affecting fitness of hybrids between wild soybean (Glycine soja) and cultivated soybean (Glycine max). Seed dormancy and seed number, both of which are important for fitness, were evaluated by testing artificial hybrids of G. soja × G. max in a multiple-site field trial. Generally, the fitness of the F1 hybrids and hybrid derivatives from self-pollination was lower than that of G. soja due to loss of seed dormancy, whereas the fitness of hybrid derivatives with higher proportions of G. soja genetic background was comparable with that of G. soja. These differences were genetically dissected into QTL for each population. Three QTLs for seed dormancy and one QTL for total seed number were detected in the F2 progenies of two diverse cross combinations. At those four QTLs, the G. max alleles reduced seed number and severely reduced seed survival during the winter, suggesting that major genes acquired during soybean adaptation to cultivation have a selective disadvantage in natural habitats. In progenies with a higher proportion of G. soja genetic background, the genetic effects of the G. max alleles were not expressed as phenotypes because the G. soja alleles were dominant over the G. max alleles. Considering the highly inbreeding nature of these species, most hybrid derivatives would disappear quickly in early self-pollinating generations in natural habitats because of the low fitness of plants carrying G. max alleles.

Triterpenoid saponins are major components of secondary metabolites in soybean seeds and are divided into two groups: group A saponins, and 2,3-dihydro-2,5-dihydroxy-6-methyl-4H-pyran-4-one (DDMP) saponins. The aglycone moiety of group A saponins consists of soyasapogenol A (SA), which is an oxidized β-amyrin product, and the aglycone moiety of the DDMP saponins consists of soyasapogenol B (SB). Group A saponins produce a bitter and astringent aftertaste in soy products, whereas DDMP saponins have known health benefits for humans. We completed map-based cloning and characterization of the gene Sg-5, which is responsible for SA biosynthesis. The naturally occurring sg-5 mutant lacks group A saponins and has a loss-of-function mutation (L164*) in Glyma15g39090, which encodes the cytochrome P450 enzyme, CYP72A69. An enzyme assay indicated the hydroxylase activity of recombinant CYP72A69 against SB, which also suggested the production of SA. Additionally, induced Glyma15g39090 mutants (R44* or S348P) lacked group A saponins similar to the sg-5 mutant, indicating that Glyma15g39090 corresponds to Sg-5. Endogenous levels of DDMP saponins were higher in the sg-5 mutant than in the wild-type lines due to the loss of the enzyme activity that converts SB to SA. Interestingly, the genomes of palaeopolyploid soybean and the closely related common bean carry multiple Sg-5 paralogs in a genomic region syntenic to the soybean Sg-5 region. However, SA did not accumulate in common bean samples, suggesting that Sg-5 activity evolved after gene duplication event(s). Our results demonstrate that metabolic switching of undesirable saponins with beneficial saponins can be achieved in soybean by disabling Sg-5.

Densities of sandy beach organisms along coastlines often vary considerably even within small local scales. In order to understand the demographic basis of density variations in shore animals, we examined the population dynamics of the amphipod Haustorioides japonicus Kamihira, which is an ideal subject because it lacks a planktonic dispersal stage in its life history. Quantitative sampling at three adjacent sandy beaches along the Sea of Japan coast revealed that the spring density, i.e., the density of overwintered individuals, was similar among the three beaches. However, the amount of recruitment of newly hatched juveniles from late spring to summer greatly differed among the beaches, resulting in large spatial variations in the summer density. Cohort analyses revealed that at all beaches, young-of-the-year (YOY) individuals reproduced and then died, and that individuals which recruited in late summer overwintered. Moreover, growth, fecundity, and survival schedules of overwintered and YOY individuals were very similar among beaches. These observations suggest that the difference in recruitment success, i.e., the survival of newly hatched juveniles, is the primary cause of the inter-population variation in the summer density. It is likely that variations in salinity and sandy sediment affect the recruitment success of newly hatched individuals. This study indicates that biological productivity may differ substantially even among adjacent sandy beaches, with important implications for beach management.

The genus Macridiscus Dall, 1902 contains a few species present in warm temperate to tropical faunas of the western Pacific. Macridiscus was widely accepted as a subgenus of Gomphina until a recent suggestion that it should be separated from Gomphina and elevated to an independent genus, based on morphology and molecular data. The taxonomy of the genus Macridiscus has in the past been based solely on shell characters and there has been no agreement about the number of valid species. In this study, we explore the taxonomy and phylogeny of Macridiscus species in order to resolve the systematics of the genus, based not only on shell characters but also on mitochondrial and nuclear DNA sequences. The morphological characters, the sequences of the cytochrome c oxidase subunit I of mitochondrial DNA and the first internal transcribed spacer region (ITS1) between the 18S and 5.8S ribosomal DNA were highly concordant and clearly suggested that three species should be recognized in the genus Macridiscus: M. multifarius new species, M. semicancellata (Koch, in Philippi

Saponins are sterols or triterpene glycosides that are widely distributed in plants. The biosynthesis of soybean saponins is thought to involve many kinds of glycosyltransferases, which is reflected in their structural diversity. Here, we performed linkage analyses of the Sg-3 and Sg-4 loci, which may control the sugar chain composition at the C-3 sugar moieties of the soybean saponin aglycones soyasapogenols A and B. The Sg-3 locus, which controls the production of group A saponin Af, was mapped to chromosome (Chr-) 10. The Sg-4 locus, which controls the production of DDMP saponin βa, was mapped to Chr-1. To elucidate the preference of sugar chain formation at the C-3 and C-22 positions, we analyzed the F(2) population derived from a cross between a mutant variety, Kinusayaka (sg-1(0)), for the sugar chain structure at C-22 position, and Mikuriya-ao (sg-3), with respect to the segregation of the composition of the group A saponins, and found that the formation of these sugar chains was independently regulated. Furthermore, a novel saponin, predicted to be A0-γg, 3-O-[β-d-galactopyranosyl (1→2)-β-d-glucuronopyranosyl]-22-O-α-l-arabinopyranosyl-soyasapogenol A, appeared in the hypocotyl of F(2) individuals with genotype sg-1(0)/sg-1(0)sg-3/sg-3.

The peanut stunt virus (PSV) causes yield losses in soybean and reduced seed quality due to seed mottling. The objectives of this study were to determine the phenotypic reactions of soybean germplasms to inoculation with two PSV isolates (PSV-K, PSV-T), the inheritance of PSV resistance in soybean cultivars, and the locus of the PSV resistance gene. We investigated the PSV resistance of 132 soybean cultivars to both PSV isolates; of these, 73 cultivars exhibited resistance to both PSV isolates. Three resistant cultivars (Harosoy, Tsurunotamago 1 and Hyuga) were crossed with the susceptible cultivar Enrei. The crosses were evaluated in the F(1), F(2) and F(2:3) generations for their reactions to inoculation with the two PSV isolates. In an allelism test, we crossed Harosoy and Tsurunotamago 1 with the resistant cultivar Hyuga. The results revealed that PSV resistance in these cultivars is controlled by a single dominant gene at the same locus. We have proposed Rpsv1, as the name of the resistance gene in Hyuga. We also constructed a linkage map using recombinant inbred lines between Hyuga × Enrei using 176 SSR markers. We mapped Rpsv1 near the Satt435 locus on soybean chromosome 7.

The interstices of coral rubble provide a good refuge for cryptic small crustaceans and molluscs, which are important prey items for reef fishes. In this study, we focused on the assemblage composition of cryptic mobile species along the depth gradient at an outer reef slope. Traps with coral rubble (22 × 18 × 6 cm) were set at three sites at different depths, and mobile animals that colonized the traps were sorted. In total, 117 species of larger animals (mainly Decapoda and Gastropoda) were recorded: 71 species at the 3 m point, 53 species at the 11 m point, and 37 species at the 22 m point. On average, 260.3 individuals were captured in the traps at 3 m, while 95.3 and 57.8 individuals were captured at 11 and 22 m, respectively. MDS ordination showed that assemblage composition differed among the three sites. The most abundant species at the 3 m was the galathean crab Galathea mauritiana, followed by the gastropod Diala albugo. At 11 and 22 m, the galathean crab Sadayoshia edwardsii was most abundant. Thus, at the reef slope, the benthic assemblage was most diverse at the shallow site, and specific communities occurred at the three sites.

Among commonly applied molecular markers, simple sequence repeats (SSRs, or microsatellites) possess advantages such as a high level of polymorphism and codominant pattern of inheritance at individual loci. To facilitate systematic and rapid genetic mapping in soybean, we designed a genotyping panel comprised 304 SSR markers selected for allelic diversity and chromosomal location so as to provide wide coverage. Most primer pairs for the markers in the panel were redesigned to yield amplicons of 80–600 bp in multiplex polymerase chain reaction (PCR) and fluorescence-based sequencer analysis, and they were labelled with one of four different fluorescent dyes. Multiplex PCR with sets of six to eight primer pairs per reaction generated allelic data for 283 of the 304 SSR loci in three different mapping populations, with the loci mapping to the same positions as previously determined. Four SSRs on each chromosome were analysed for allelic diversity in 87 diverse soybean germplasms with four-plex PCR. These 80 loci showed an average allele number and polymorphic information content value of 14.8 and 0.78, respectively. The high level of polymorphism, ease of analysis, and high accuracy of the SSR genotyping panel should render it widely applicable to soybean genetics and breeding.

Normal females of the mud shrimp, Upogebia major, have a pair of pleopods on the first abdominal segment, while normal males do not. We have investigated nine populations in the Seto-Inland Sea, Japan, and found morphological disorders on the first abdominal segments of both males and females. In males, the first pleopods occurred. Morphology and arrangement of these additional pleopods were classified into four types. The pleopods of Types M-1 and M-2 were similar in structure to those of normal females. These males could be considered as de-masculinized individuals, and the occurrence of males with these morphological disorders showed local variation: while their frequency was high in two specific sites in Kasaoka Inlet (11.5% in Site 6 and 5.5% in Site 7), it was less than 3.5% in other sites. Other types had abnormal additional appendages similar to the walking legs (pereiopods) (Type M-3) or biramous leaf-like pleopods (Type M-4), but their frequency was extremely low (only 3 out of 1558 males inspected). Morphological disorders in males (Types M-1 and M-2) occurred independently of gonadal development, and did not affect the sexual characteristics as revealed by analyses of allometric growth and gonadal index. In females, morphological disorders were classified into five types: incomplete first pleopods (Type F-1); lack of the first pleopods (Type F-2 and F-3); transformation into the pereiopod-like pleopods (Type F-4); and biramous leaf-like pleopods (Type F-5). The frequency of Types 1–3 was especially high in Site 6 in Kasaoka Inlet (24.4%), but was less than 9.4% in other sites. A feature was that cuticular lesions often co-occurred with the morphological disorders. Possible causal factors of these abnormalities are discussed.

Mean total length of the eldest cohort (MTLe) of the thalassinidean decapod, Upogebia yokoyai sampled at 16 sites showed a latitudinal variation from south-west islands of the Ryukyu Archipelago (24° N) to the Seto-Inland Sea of Japan (34° N). Local variations were however also found from sites in the same latitudes. The level of the organic content in each habitat showed a positive correlation with MTLe. We hypothesized that MTLe is strongly affected by the trophic condition, resulting in the local variations. To test this hypothesis, two estuaries with different organic content were compared; Kodono River (Kochi Prefecture, 33° N) which was relatively oligotrophic and Sakata River (Hiroshima Prefecture, 34° N) which was highly eutrophicated. The Kodono River population showed slow growth after settlement, and growth stopped in May to June. This population survived for only one or two years, resulting in small MTLe. On the other hand, the Sakata River population showed fast growth from August to December. This population survived for three years, resulting in large MTLe. Maturation was estimated to occur two years after settlement in both populations. Low salinities may partially affect MTLe. Habitats in the Seto-Inland Sea (33.5–34.8° N) were eutrophicated, but many habitats in the subtropical islands (24–31° N) were relatively oligotrophic. Latitudinal variation of MTLe was reflected by the geographical difference in trophic condition. A negative relationship between population density and growth was found, which was explained in terms of reduced survival of recruits in the eutrophicated habitats.