Evaluation of an automated DNA sequencing system developed in RIKEN

For the advancement of Human Genome Project, we have developed an automated DNA sequencing system HUGA-I. It is composed of several automated instruments and transfer robots connecting them. In this paper we describe the results of the performance evaluation test of HUGA-I. Although some of the system units showed good performances, the total performance of the HUGA-I was about 1/6 of the designed value. By revealing principal reasons of this poor performance, we would like to contribute to the automation in genome analysis, particularly in human genome analysis.Since the sequence technology advanced remarkably in these years, the system units of HUGA-I become older than those which are now commercially available and the throughput of it is out of our expectations. Nevertheless, we believe that it is meaningful to introduce the exact performance of HUGA-I and present the bottle neck points in the automating sequencing processes. Because, automation in the gene analysis is ultimately important, in particular for the analysis of large genomes such as the human genome. The aims of this paper are to introduce the results in performance evaluation of HUGA-I and to elucidate the bottle neck points in the automation of sequencing processes.The authors express their sincere thanks to Mr. Morisada Hayakawa and Mrs. Nobuko Kato for their technical asistance.     

Nitric Oxide-Induced [3H]GABA Release from Cerebral Cortical Neurons Is Mediated by Peroxynitrite

Abstract: The functional significance of peroxynitrite in the release of [³H]GABA induced by nitric oxide (NO) liberated from NO generators was investigated using cerebral cortical neurons in primary culture. NO generators such as sodium nitroprusside (SNP) and S -nitroso- N -acetylpenicillamine (SNAP) increased [³H]GABA release in a dose-dependent manner. These increases in [³H]GABA release were significantly inhibited by hemoglobin, indicating that those NO generators evoke the release of [³H]GABA by the formation of NO. Two types of superoxide scavengers, Cu²⁺/Zn²⁺ superoxide dismutase and ceruloplasmin, significantly reduced the increase in [³H]GABA release induced by both SNP and SNAP, which assumes that NO requires superoxide to induce [³H]GABA release from the neurons. In addition, synthesized peroxynitrite induced a dose-dependent increase in [³H]GABA release from the neurons. These results indicate that NO-induced [³H]GABA release is mediated by peroxynitrite formed by the reaction of NO with superoxide.     

Blue light-induced unrolling in rice plant leaves

Blue light-induced unrolling of second leaves in rice plants(Oryza sativa L.) was studied. Light in wavelengths of 400–500nm was most effective for the induction of unrolling, whilethat of 500–800 nm had no influence. This blue light actionon unrolling was observed for both dark and light grown seedlings.Several hours of irradiation was required for the inductionof unrolling at a relatively high intensity. Red light had noinfluence on the blue light action. We concluded that blue lightaction on the unrolling of rice leaves is not mediated by thephytochrome system, but by a high energy blue light reactionwhich differs from the unrolling of wheat and barley leaves. (Received March 3, 1979; )     

Augmentation of activities of peripheral granulocytes and of resistance against bacterial infection after administration of G-CSF into mice]

We evaluated the metabolic capability of murine peripheral granulocytes after administration of recombinant human granulocyte colony-stimulating factor (rhG-CSF) by quantitative flow cytometric assay for H2O2-dependent oxidative product formation. Intraperitoneal administration of a daily dose of 10 micrograms of rhG-CSF for 5 days induced doubling of the leukocyte population. Differential counting of peripheral leukocytes and scattergram by flow cytometry showed an increased mature granulocyte population. After stimulation with phorbol myristate acetate, the granulocytes of the rhG-CSF-administered mice demonstrated some hyperresponsive population and an increased H2O2 production. The hyperresponsive population showed H2O2 production 4-6 times higher than did normal cells. Granulocytes from the G-CSF-treated mice revealed an augmented phagocytic activity and an increased expression of Mac-1 molecules. Moreover, mice treated with G-CSF showed an enhanced resistance against intravenous infection with a lethal dose of E. coli. Granulocytes showing such markedly increased oxidative metabolism may be a significant component of the host defence to various infective organisms.     

A murine thymic stromal cell line which may support the differentiation of CD4-8- thymocytes into CD4+8- alpha beta T cell receptor positive T cells.

A fibroblastoid cell line TSt-4 was established from fetal thymus tissue of C57BL/6 mice. When fetal thymus (FT) cells or CD4-8- (DN) cells of adult thymuses were cultured on the monolayer of TSt-4, a considerable proportion of lymphocytes expressed CD4 or both CD4 and CD8 within 1 day, and the CD4+CD8- cells were maintained further while the CD4+8+ cells disappeared by Day 5. A large proportion of cells generated from DN cells but not FT cells was shown to express CD3 and T cell receptor alpha beta. Addition of recombinant interleukin (IL)-7 into the cultures resulted in a marked increase of cell recovery without virtual change in differentiation process of alpha beta lineage. The present work strongly suggests that thymic fibroblasts play an important role in T cell differentiation and IL-7 contributes to supporting proliferation of differentiated cells.     

NMR analyses of polysaccharide derivatives containing amine groups

Amylose, amylopectin, hydroxyethylcellulose, methylcellulose, and cellulose were reacted with diethylaminoethyl chloride HCl salt and 3-chloro-2-hydroxy-propyltrimethylammonium chloride under aqueous alkaline conditions in order to introduce tertiary amine and quaternary ammonium groups into polysaccharides. Degrees of substitution were obtained from ¹H- or ¹³C-NMR spectra of hydrolyzates, and distributions of diethylaminoethyl groups in polysaccharides were measured by ¹³C-NMR. Since amylose, amylopectin, and hydroxyethylcellulose were soluble in the reaction media, these three polysaccharides had higher reactivity for etherifications than cellulose. Methyl-cellulose, which has hydrophobic methyl groups, had as much reactivity as cellulose. Primary hydroxyl groups, C-6, of polysaccharides had the highest reactivity for diethylaminoethylation.     

Flow cytometric analysis of oxidative burst of phagocytes with small amount of peripheral blood

We have developed a simple method for assessing the oxidative metabolic burst of peripheral blood leukocytes with a minute amount of whole peripheral blood by flow cytometry according to the method of Bass et al. with some modification. By this method, we can measure the H2O2 production by both granulocytes and monocytes in the same blood sample. The oxidative product formation by peripheral blood neutrophils can be monitored sequentially in the same mouse infected with E. coli. The mice infected intravenously with 0.1 LD50 of the bacteria showed increased basal activities from an early stage of infection; those infected intraperitoneally with the same dose of the bacteria showed a delayed enhancement. In case of infection with 0.01 LD50, the enhanced basal activities lasted for only a short period of time. The H2O2 production was correlated well with the clearance of the infected bacteria. These results demonstrated that the oxidative-product formation by peripheral blood neutrophils is affected by both the route and the dose of infection.     

Primate's p53 inhibits SV40 DNA replication in vitro

Previous reports indicated that rodent p53 inhibits simian virus 40 (SV40) DNA replication in vitro as well as in vivo while that from primate cells does not (1-4). Here we report the evidence that p53 of primate origin also inhibits SV40 DNA replication in vitro. p53-SV40 large tumor antigen (T antigen) complex purified from SV40 infected COS-1 cells had little replication activity and inhibited SV40 DNA replication in vitro. These results suggest that inhibition of SV40 DNA replication by p53 should be regarded as general property of the protein and does not determine the mode of species specific replication of SV40 DNA.     

Structure and function of the major tail protein of bacteriophage lambda: Mutants having small major tail protein molecules in their virion

Viable mutants of bacteriophage lambda having small major tail protein molecules in their virion have been isolated as pseudo-revertants of a defective prophage mutant (defK244) in gene V, which codes for the major tail protein. According to deletion mapping, the defK244 mutation is located near the translation terminal of gene V, whereas some mappable reversion mutations leading to small major tail protein molecules map upstream to defK244 but still downstream to all the amber mutations tested. This suggests (if not proves) that the removable part is located at or near the carboxyl terminal of the major tail protein. Sodium dodecyl sulfate/polyacrylamide gel electrophoresis and buoyant density measurements of the mutant phage particles show that as much as one-third of the major tail protein molecule can be removed without losing its capacity to maintain the total shape and infectivity of the phage particles. In the three-dimensional structure of the tail the removable part of the molecule exists as a protrusion at the outer part of the tail tube according to electron microscopy and hydrodynamic calculations based on sedimentation velocity experiments.