Genetic studies for breeding of rice cultivars with superior grain appearance and lodging resistance from the rice cultivar ‘Emi-no-kizuna’

ABSTRACT

We conducted a quantitative trait locus (QTL) analysis of grain appearance (GA) and agronomic traits of rice, using 128 recombinant inbred lines derived from ‘Emi-no-kizuna’ and ‘Tomohonami’. We detected two promising QTLs associated with GA: qGA4 on chromosome 4 and qGA8 on chromosome 8. qGA4 contributed highly to the greater percentage of perfect grains of the Emi-no-kizuna genotype. In the same region, we detected other QTLs associated with panicle number and spikelet number per panicle. In near-isogenic lines (NILs) in which Emi-no-kizuna alleles were introgressed in the genomic region of only the semi-dwarf 1 (sd1) locus (NIL_1) and both the sd1 locus and qGA8 (NIL_2), respectively, the percentage of perfect grains was significantly higher and the percentages of milky white, basal white, and white back grains were significantly lower than in Tomohonami; and the percentages of milky white and white back grains of NIL_2 were significantly lower than those of NIL_1. These results suggest that introgression in the sd1 region could improve GA, and that the addition of qGA8 could further improve GA. The culm lengths of the NILs were significantly shorter than that of Tomohonami, indicating improved lodging resistance. Grain weight of NIL_2 was significantly smaller than that of NIL_1, suggesting that the effect of qGA8 could be pleiotropic, or the gene that underlies qGA8 could be linked with genes associated with grain weight.

Abbreviations: ANOVA: analysis of variance; AT20: mean air temperature in the 20 days after heading; BW: basal white grain; CL: culm length; DAH: days after heading; GA: grain appearance; GW: 1000-grain weight; LOD: logarithm of odds; MW: milky white grain; NIL: near-isogenic line; PG: perfect grain; PL: panicle length; PN: panicle number; PTSN: putative total spikelet number; PVE: percentage of phenotypic variation explained; QTL: quantitative trait locus; RIL: recombinant inbred line; SN: spikelet number per panicle; SNP: single nucleotide polymorphism; WB: white back grain     

Nutrient requirement for zoospore formation in two alariaceous plants Undaria pinnatifida (Harvey) Suringar and Alaria crassifolia Kjellman (Phaeophyceae: Laminariales)

ABSTRACT:   Sporophyll formation in two alariaceous plants, Undaria pinnatifida and Alaria crassifolia , was studied in relation to the nutrient requirements. The sporophylls of U. pinnatifida formed zoosporangia when they had N and P contents greater than 1.4 kgN/m³ and 0.74 kgP/m³. This indicates that these values are the critical nutrient levels for zoospore formation in U. pinnatifida . In the sporophytes of A. crassifolia , many sporophylls with zoosporangia showed nutrient contents higher than 6.25 kgN/m³ and 1.70 kgP/m³. These results suggest that the U. pinnatifida can form zoospores at lower levels of N and P contents than A. crassifolia . Both species often formed zoosporangial sori on the blades in the late period of each reproductive season. The fertile parts of the blade showed N and P contents higher than the critical levels. This phenomenon indicates that the blades have the capability to form zoosporangial sori if there is a sufficient accumulation of nutrients for zoospore formation. The zoospore formation on the blade seems to be accomplished by an overflow of excess nutrients from sporophylls into the blade, or by accumulating sufficient nutrients to form sori even if the sporophylls are not formed.     

Genetic variability and stock structure of red tilefish Branchiostegus japonicus inferred from mtDNA sequence analysis

Sequence analysis based on the anterior part of the mitochondrial DNA control region was carried out to reveal the genetic diversity, stock structure, and historical demography of the red tilefish. Nucleotide sequences of 388 bp in length were determined for 280 individuals taken from eight localities. The molecular diversity, haplotype diversity, and nucleotide diversity were relatively high (average h = 0.929 ± 0.011; average π = 0.008 ± 0.005). The mismatch distribution was not significantly different from the expected distribution for a rapidly expanding population (P = 0.453). The minimum spanning network connecting with full-sequence haplotypes contained star-like topologies derived from multiple ancient lineages, supporting the mismatch distribution analysis. No significant genetic differentiation was observed among eight localities (maximum pairwise F _ST = 0.023, reduced-sequence data set). Our results suggest a large panmictic population of the red tilefish along the coast of Honshu to the East China Sea.     

Effects of entrance design on catch efficiency of arabesque greenling traps: a field experiment in Matsumae, Hokkaido

ABSTRACT:   A field experiment was conducted in the Matsumae area of Hokkaido, Japan, during June and July 2002, to investigate the effects of different entrance designs on the catch efficiency of fish traps by fishing with commercial traps (entrance inclination angle [α] = 37°; funnel length of entrance [ L _f ] = 22 cm) and experimental traps. The experimental traps were of the same size and similar design as commercial traps, with different entrance inclination angles (trap E1: α = 46°; E2: α = 27°; E3: α = 0°; all L _f  = 22 cm) or funnel lengths (E4: α = 37°, L _f  = 8 cm). In total, 2200 fish during 200 trap hauls were captured. The catch was significantly higher using both traps E2 and the commercial trap than with trap E3 ( P  < 0.05), and the catch of trap E2 was higher than that of the commercial trap. There were no significant differences in mean fish body length or the frequency distributions of body length among trap types (E1, E2, E3 and commercial). The funnel length of the entrance also affected the catch of traps. Trap E4 had significantly higher catches than the commercial trap ( P  = 0.04) when traps were deployed for a 1-day soak time. Fish body length frequency distributions did not differ between trap E4 and the commercial trap. The results showed that catch can be greatly affected by trap entrance designs.     

Targeted Knock-in of a Fluorescent Protein Gene into the Chicken Vasa Homolog Locus of Chicken Primordial Germ Cells using CRIS-PITCh Method

In chickens, primordial germ cells (PGCs) are effective targets for advanced genome editing, including gene knock-in. Although a long-term culture system has been established for chicken PGCs, it is necessary to select a gene-editing tool that is efficient and precise for editing the PGC genome while maintaining its ability to contribute to the reproductive system. Clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) and CRISPR-mediated precise integration into the target chromosome (CRIS-PITCh) methods are superior as the donor vector is easier to construct, has high genome editing efficiency, and does not select target cells, compared to the homologous recombination method, which has been conventionally used to generate knock-in chickens. In this study, we engineered knock-in chicken PGCs by integrating a fluorescent protein gene cassette as a fusion protein into the chicken vasa homolog (CVH) locus of chicken PGCs using the CRIS-PITCh method. The knock-in PGCs expressed the fluorescent protein in vitro and in vivo, facilitating the tracking of PGCs. Furthermore, we characterized the efficiency of engineering double knock-in cell lines. Knock-in cell clones were obtained by limiting dilution, and the efficiency of engineering double knock-in cell lines was confirmed by genotyping. We found that 82% of the analyzed clones were successfully knocked-in into both alleles. We suggest that the production of model chicken from the knock-in PGCs can contribute to various studies, such as the elucidation of the fate of germ cells and sex determination in chicken.     

Trail antigen in Eimeria stiedai sporozoites associated with a thrombospondin-related motif and the entry of cultured cells

In order to examine the antigenic similarity and specificity of the trail antigen of Eimeria stiedai and Etp 100, a microneme protein of Eimeria tenella, monoclonal antibodies to the trail antigen of E. stiedai sporozoites were selected by an indirect immunofluorescent antibody method. The monoclonal antibody of one clone, 3D10, reacted with the anterior portion of non-fixed sporozoites. By immunoblotting, the monoclonal antibody was found to react with a 100 kDa antigen of E. stiedai sporozoites, and a 117 kDa antigen of E. tenella sporozoites and merozoites. It was also found to react with a recombinant protein with thrombospondin-/properdin-like motifs homologous to E. tenella microneme protein Etp 100. The monoclonal antibody significantly inhibited the penetration of E. stiedai sporozoites into cultured rabbit hepatobiliary epithelial cells. These results suggest that E. stiedai sporozoites have a trail antigen, located in the anterior region on the outer surface of the sporozoites, which has an epitope with thrombospondin-/properdin-like motifs similar to E. tenella microneme protein Etp 100. This protein may play an important functional role in the process of penetration of host cells.     

Effects of estrous cycle on the mouse kidney morphology

Although mice kidney morphology shows various sexual dimorphisms, the effect of the estrous cycle has not previously been discussed. In this study, we investigated the effects of the estrous cycle on kidney morphology, including renin-positive areas, of female DBA/2 mice. No effects were confirmed in most of the histometrical parameters, however, the percentage of the renal corpuscles in which cuboidal epithelium covered under 50% of the parietal layer was significantly higher during estrus compared to that during anestrus.     

Identification of Trichoderma SKT-1, a biological control agent against seedborne pathogens of rice

Trichoderma SKT-1 was previously reported as a powerful biological control agent against seedborne pathogens of rice, but the taxonomic disposition of the fungal isolate was not clear. Trichoderma SKT-1 produced irregular pyramidal warts on conidia and had an optimum growth temperature of 30°C. Morphological characteristics and colony growth were identical to those of known species of Trichoderma, including the newly recognized species T. asperellum. The 5.8S rDNA with the internal transcribed spacer (ITS) region (ca. 514 bp) of the fungus was compared with those of known species to determine the phylogenetic placement of the fungus. The length and sequence of the regions from Trichoderma SKT-1 were completely identical to those of an isolate of T. asperellum NRRL 5242 (AJ230669). On the basis of these results, we concluded that Trichoderma SKT-1 was T. asperellum.     

Effects of feeding and animal performance on nitrogen, phosphorus and potassium excretion by Holstein cows

Thirty‐four Holstein dry cows and 16 lactating cows were used in balance trials to identify the effects of feeding and animal performance on nitrogen (N), phosphorus (P) and potassium (K) excretion by dairy cows, and to develop prediction models for these excreta. Orchard grass silage, corn silage, alfalfa silage or timothy hay were offered to dry cows. Orchard grass silage or alfalfa silage, and concentrates were offered to lactating cows. In the statistical analysis, the independent variables were bodyweight (kg), dry matter (DM) intake (kg/day), milk yield (for lactating cows only, kg/day), water intake (free water plus water in feed, kg/day), intake (g/day) of N, P and K and dietary contents (% of DM) of crude protein, P and K. The dependent variables were N, P and K excretion (g/day) in feces and urine. In both dry and lactating cows, intake of N, P and K had large effects on corresponding excretion. The results indicated that a decrease in the intake of N, P and K could decrease the corresponding excretion. Further research by path analysis showed that K intake positively affected urinary N excretion in dry cows indirectly, through water intake and urine volume.     

Analysis of porcine cytomegalovirus DNA polymerase by consensus primer PCR

We used a consensus primer PCR method to amplify a region of herpesviral DNA-directed DNA polymerase gene using degenerate primers for initial characterization of the porcine cytomegalovirus (PCMV) genome. The sequence of the PCR product from PCMV DNA template and its alignment with other herpesvirus DNA polymerase counterparts showed that both conserved amino acid residues and conservative amino acid substitutions are in parallel. Phylogenetic analysis revealed that PCMV should be included in the clade comprising human herpesvirus 6 and 7, rather than human and mouse cytomegaloviruses, in Betaherpesvirus subfamily.