Yasuhiko Sakoyama

Two-dimensional gel patterns of protein species during development of Drosophila embryos

Abstract Changes in the pattern of egg proteins of Drosophila melanogaster during the process of embryogenesis were investigated by high-resolution, two-dimensional polyacrylamide gel electrophoresis. We observed significant changes of egg proteins during embryogenesis. Three major classes were observed. Class I includes most proteins; these were found continuously throughout embryogenesis. Class II proteins appeared at certain times during embryogenesis and continued to be present in young larvae, or they were present in the ovary, disappeared once, and reappeared at later times. Class III proteins were found at limited times during embryogenesis. The appearance and disappearance of these proteins, which appear to be temporally related to developmental stages, should make them useful molecular markers for the analysis of embryogenesis.

Identification of homeobox genes expressed during the process of rat liver regeneration after partial hepatectomy

Homeobox (HBox) genes are well-known to be involved in development and differentiation. To ascertain a role of HBox genes in the process of liver regeneration, we identified HBox genes expressed at various times after partial hepatectomy in rats (at 0 hr, 1 hr, 2 days, and 4 days) by using reverse transcription-polymerase chain reaction (RT-PCR), cloning, and sequencing techniques. By the competitive RT-PCR method using generic primers, expression levels of HBox genes in regenerating livers were estimated at as low as only 0.4–2% of that in 14-day embryonic liver; however, we identified multiple HBox genes at different stages. Comparing sets of HBox genes identified at different stages, we could find two candidates of stage specifically expressed HBox genes (one rat caudal-related gene,RCdx-3, stimulated at 1 hr, and one rat Hox gene,RHoxB5, repressed after hepatectomy) and continuous expression of five Hox genes (RHoxA1, A4, A5, B2, andB3) before and after hepatectomy. These HBox genes are considered to correlate with the process of liver regeneration.

Cloning of rat homeobox genes

We report the isolation of nine rat cognates of mouse homeoboxes within the fourHox gene clusters and a rat homologue of mouseIPF1 homeobox,RHbox# 13A. The sequences of nine cloned homeoboxes are highly similar to those of the mouse and human homeoboxes in the Hox clusters. The restriction enzyme sites and map distances between each of the homeoboxes on the rat genome are nearly identical to those of mouse and human. Thus, we conclude that the isolated homeoboxes are the rat homologues of mouse homeoboxes within the four Hox clusters. A novel homeoboxRHbox# 13A is different from theDrosophila Antennapedia (Antp) sequence but is highly similar to theXlHbox8 (Xenopus laevis) andHtrA2 (Helobdella triserialis) homeoboxes. Forty-two amino acids of the last two-thirds of theRHbox# 13A, XlHbox8, and mouseIPF1 homeodomains completely matched. In addition, these four homeodomains contain a unique His residue in the recognition helix of a helix-turn-helix DNA-binding motif. This His residue is not found in any of the previously published mammalian homeodomain sequences except mouseIPF1.

Cloning of a novel homeobox (NK-7.1) containing gene, DmHboxNK-7.1, from Drosophila melanogaster.

We have cloned a novel Drosophila melanogaster homeobox (Hbox) containing gene, NK-7.1 (Dm.HboxNK-7.1), which is located at 88B3 on the chromosome map, and is 1.5 kb downstream of the spn-B gene. The newly identified gene is expressed at high levels in the embryo, is switched off during larval and pupal stages, and is expressed again in the adult. The Hbox is highly similar to NK-1/S59 (Drosophila) and NK-3/bap (Drosophila). The amino acid (aa) identity ratios (%) were 58 between NK-7.1 and NK-1/S59, and between NK-7.1 and NK-3/bap. The other characteristic structures are the presence of homopolymeric aa stretches consisting of Q, N, and E.

PCR cloning of cerambycidae Parechthistatus gibber (Pg) homeobox genes.

Homeoboxes (Hboxes), evolutionarily conserved sequences, were first identified asDrosophilahomeotic genes (McGinnis et al.,1984a,b; Scott and Weiner, 1984; Scottet al., 1989). A short stretch of 180 nt encodes a 60-amino acid (aa)-long homeodomain (HD). The HD binds to DNA and regulates, as a transcription factor, the expression of developmental genes whose products in turn directly activate or repress the transcription of other genes. The DrosophilaHOM cluster genes, ANT-C andBX-C, are identical with those of the mouse and human Hox gene clusters (Graham et l.,1989; Duboule and Dolle, 1989). The physical order of individual Hox genes in these clusters is the same as the order in which they are expressed along the anterior–posterior axis. The conservation of Hox cluster gene expression and organization may reflect the results of selection based on regulatory mechanisms. In this study, we report a sequence analysis of six Hboxes of the Pg HOM complexes and we identify the Pghomologues of Drosophila Antp, Dfd, andabdA Hboxes.

Organization and Reorganization of Constant Region Genes of Immunoglobulin Heavy Chains: Genetic Basis for Class Switching

We have determined the complete organization of the mouse CH gene family, which is comprised of the 8 CH genes in the order 5’-JH-6.5kb-Cμ-4.5kb-Cδ-55kb-Cγ3-34kb-Cγ1-21kb-Cγ2b-15kb-Cγ2a-14kb-Ce-12kb-Cα-3’. The S regions, which contain characteristic tandemly repeated unit sequences, are located 5’ to each CH gene except for the Cδ gene. There are at least two types of repetitive sequences dispersed in this 200 kb region. No pseudogenes are present. The arrangements of the CH genes in BALB/c and C57BL mice are similar, but the lengths of the S regions vary. The basic structures of all the CH genes are similar in that coding sequences are interrupted at the junctions of the domains and the hinge regions. Comparison of the nucleotide sequences of the CH genes revealed that sequence segments have been exchanged among members of the CH gene family. Cloning and characterization of human Cγ genes, i.e. Cγ1, Cγ2, Cγ3, Cγ4 and φCγ, indicate that the human Cγ gene family evolved by dynamic DNA rearrangements, including gene duplication, exon duplication, and exon reassortment by unequal crossing-over. A human pseudo-epsilon gene (Ce3) is a processed gene that has completely spliced out introns. The presence of movable genetic elements surrounding the Ce3 gene suggests that the Ce gene evolved by a translocation mechanism. Although S-S recombination has been shown to take place in myelomas and hybridomas secreting a large amount of immunoglobulin, analyses of the CH gene organization in normal spleen B cells bearing immunoglobulin on their surface suggest that RNA splicing may be responsible for the first step in class switching, followed by S-S recombination. The nucleotide sequences of S regions contain short common sequences, TGGG(G) and (G)AGCT. Comparison of nucleotide sequences surrounding recombination sites revealed common sequences TGAG and TGGG. A sister chromatid exchange model was proposed to explain deletion of CH genes accompanying S-S recombination. We have found that the S region serves as a preferred recombination site in E.coli extracts.