Whole-genome re-sequencing is a powerful approach to detect gene variants, but it is expensive to analyse only the target genes. To circumvent this problem, we attempted to detect novel variants of flowering time-related genes and their homologues in soybean mini-core collection by target re-sequencing using AmpliSeq technology. The average depth of 382 amplicons targeting 29 genes was 1,237 with 99.85% of the sequence data mapped to the reference genome. Totally, 461 variants were detected, of which 150 sites were novel and not registered in dbSNP. Known and novel variants were detected in the classical maturity loci-E1, E2, E3, and E4. Additionally, large indel alleles, E1-nl and E3-tr, were successfully identified. Novel loss-of-function and missense variants were found in FT2a, MADS-box, WDR61, phytochromes, and two-component response regulators. The multiple regression analysis showed that four genes-E2, E3, Dt1, and two-component response regulator-can explain 51.1-52.3% of the variation in flowering time of the mini-core collection. Among them, the two-component response regulator with a premature stop codon is a novel gene that has not been reported as a soybean flowering time-related gene. These data suggest that the AmpliSeq technology is a powerful tool to identify novel alleles.
The carcinoembryonic antigen (CEA) family consists of a large group of evolutionarily and structurally divergent glycoproteins. The murine CEACAM9 and CEACAM11-related proteins as well as the pregnancy-specific glycoproteins (PSG) are secreted members of the CEA family which are differentially expressed in fetal trophoblast cell populations during placental development. PSG are essential for a successful pregnancy, possibly by protecting the semiallotypic fetus from the maternal immune system. In contrast, Ceacam10 mRNA, coding for a protein identical in structure with CEACAM11-related proteins, is expressed in the maternal decidua surrounding the implantation site of the conceptus only during early stages of gestation between day 6.5 and day 10.5 postcoitum. To determine its role during murine development, we inactivated Ceacam10. Ceacam10−/− mice developed, like the previously established Ceacam9−/− mice, indistinguishably from wild-type littermates with respect to sex ratio, weight gain, and fertility. However, a small but significant reduction of the litter size by 23% was observed in Ceacam10−/− matings. Furthermore, combining the Ceacam9 and Ceacam10 null alleles, both located on chromosome 7, by meiotic recombination and subsequent mating of heterozygotes carrying both knockout alleles on one chromosome yielded wild-type and double knockout offspring at the expected Mendelian ratio. Taken together, both Ceacam10 and Ceacam9, alone or in combination, are not essential for either murine placental and embryonic development or for adult life.
To investigate the developmental process of palate morphology, including the alveolar ridge, in healthy infants for the predental period of 7 months from immediately after birth.The subjects were 32 healthy infants. Four or more dental casts were taken of each subject from immediately after birth until 7 months, for a total of 144 dental casts. Twelve characteristics were then measured in order to morphologically study the subjects' palate development. Principal component analysis (PCA) was performed to investigate morphological changes in the palatal vault.The 12 characteristics were classified into either the alveolar ridge characteristics group, which determined the size of the alveolar ridge, or the palate characteristics group, which determined palate morphology, with each group showing different growth patterns. The characteristics of width and length increased with age in the alveolar ridge characteristics group; this correlation was maintained throughout the predental period. Meanwhile, in the palate characteristics group, the characteristics showed major developmental changes in the first 2 to 3 months after birth, but the changes were subsequently fewer from 3 to 7 months. The PCA of the palatal vault showed that the first principal component increased until 3 months but subsequently ceased to change.In predental infants, growth patterns of palate morphology differed according to their characteristics. There were major developmental changes in the palate during the first 3 months after birth. The study findings suggest that palate growth in the first half of the predental period may affect subsequent palate growth.
We noted the absence of all 4 third molars (M3) in Epilepsy-Like disorder (EL) mice, an animal model for the study of epilepsy. This study was conducted to identify the major candidate chromosome and to detect the region that included the candidate gene causing the absence of M3 in EL mice. Linkage analysis was performed on genetic crosses of EL mice and MSM ( Mus musculus molossinus) strain mice, which had a normal complement of teeth. Genome-wide screening by individual genotyping of F 2 intercross mice identified mouse chromosome 3 as one of the candidate chromosomes. Based on high linkage scores in detailed genotyping of F 2 intercross and N 2 backcross mice, the candidate locus for the absence of M3 in EL mice was mapped on the middle of chromosome 3.
