Development of computer software for molecular evolutionary analysis

分子进化分析计算机软件的开发

• 批准号: 62840020
• 负责人: TATENO Yoshio
• 金额: $ 6.27万
• 依托单位: National Institute of Genetics
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Developmental Scientific Research
• 财政年份: 1987
• 资助国家: 日本
• 起止时间: 1987 至 1989
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/en/grant/KAKENHI-PROJECT-62840020/
• 关键词: genetic information; computer software; molecular evolution; virus; molecular phylogeny; DNA; multiple alignment; システム化; 解析ソフトウエア; DNAデータベース; 相同性検索

In this research project, we have aimed at development and unification of computer programs for molecular evolutionary analysis of genetic information. We have also applied the unified programs to nucleotide sequence data to elucidate molecular evolutionary aspects of some viruses. The outcomes from the three year endeavor are four folds.(1) We have developed an integrated computer software system for molecular evolutionary analysis of genetic information which works on a work-station. This system considerably enables us to individually retrieve and analyze on large amounts of DNA data at a high speed. It also operates in a network computer system. (2) A molecular phylogeny estimation method has been devised. This method feeds on nucleotide sequence data from species, and produces plural estimates of the molecular tree for the species. The method was proved, by computer simulation, to work well under certain conditions. (3) We have determined the genome structure of Japanese encephalitis virus. The genome has been revealed to be made up of three structural genes and several non-structural genes. (4) A method for multiple alignment of nucleotide sequences has been developed by use of the dynamic programming. This method makes it possible to simultaneously align 50 sequences at most which may consist of 4,000 nucleotides each.

在本研究项目中，我们的目标是开发和统一的计算机程序，用于遗传信息的分子进化分析。我们还将统一的程序应用于核苷酸序列数据，以阐明一些病毒的分子进化方面。三年奋进的成果是四倍。(1)我们开发了一个在工作站上进行遗传信息分子进化分析的综合计算机软件系统。该系统使我们能够高速地单独检索和分析大量DNA数据。它还在网络计算机系统中运行。(2)设计了一种分子生物学估算方法。该方法以来自物种的核苷酸序列数据为基础，并产生该物种的分子树的多个估计。通过计算机仿真，证明了该方法在一定条件下的有效性。(3)我们已经确定了日本脑炎病毒的基因组结构。基因组由三个结构基因和几个非结构基因组成。(4)本文提出了一种利用动态规划进行核苷酸序列多重比对的方法。该方法使得可以同时比对至多50个序列，每个序列可以由4，000个核苷酸组成。

项目成果

Sumiyoshi,H.: "Complete nucleotide sequence of Japanese encephalitis virus genome RNA" Virology. 161. 497-510 (1987)

Sumiyoshi,H.：“日本脑炎病毒基因组 RNA 的完整核苷酸序列”病毒学。

Orito,E.: "Host-independent evolution and a genetic classification of the hepadnavirus family based on nucleotide sequence" Proc.Natl.Accd.Sci.USA. 86. 7059-7062 (1989)

Orito,E.：“宿主独立进化和基于核苷酸序列的肝炎病毒家族的遗传分类”Proc.Natl.Accd.Sci.USA。

住吉日出夫: "Complete Nucleotide Sequence of Japanese Encephalitis Virus Genome RNA" Virology. 161. 497-510 (1987)

Hideo Sumiyoshi：“日本脑炎病毒基因组 RNA 的完整核苷酸序列”病毒学 161. 497-510 (1987)。

Fukami,K.;Tateno,Y.: J.Mol.Evol.

Fukami，K.；Tateno，Y.：J.Mol.Evol。

Tateno,Y.: "Population Biology of Genes and Molecules,N.Takahata and J.F.Crow eds.pp287ー305" 培風館, 370 (1990)

Tateno, Y.：“基因和分子的群体生物学，N. Takahata 和 J.F. Crow eds.pp287-305” Baifukan，370 (1990)