Compilation of the vibosome-related protein seguences and its application to the analysis on eukavyotic cellular evalution

迄今为止，序列数据库中已经积累了大量的生物核糖体蛋白（r-protein）序列。尽管这些数据可能包含了许多关于核糖体进化的信息，但由于不同生物体的命名方法不同，这些信息并没有很好地按顺序排列。在这项工作中，我们系统地汇编了r-蛋白种类，进化地分析了序列相似性。在迄今为止构建的所有比对和进行的系统发育分析的基础上，r-蛋白的进化概况正在形成：（1）在不小的数目中，存在贯穿三个主要界的蛋白质种类，（2）几乎所有的比对显示“一对一”相关性以规则地比对，即不规则的相关性，例如内部转座似乎很少被发现，（3）在来自不同主要界的序列之间的比较中通常发现宽插入/缺失和长度的延长，而在一个界域内，大多数进化变化是氨基酸替换和微小的插入/缺失，（4）在真核生物进化的各个阶段，在几种r-蛋白物种上发生了基因复制事件，（5）古细菌在许多r-蛋白物种中没有显示出单系分支。另一方面，我们开始分析无线粒体原生生物Glugea plecoglossi、贾第鞭毛虫Giardia lamblia和毛滴虫Trichomonasvagularis的核糖体相关分子的基因，以阐明真核生物核糖体的早期进化。

Large number of ribosomal protein (r-protein) sequences form various organisms have been accumulated up to now in the sequence databases. Although these data might have many informations on the evolution of the ribosomes, these are not well arranged in order because nomenclatures are various among different organisms, In this work we have systematically compiled the r-protein species, evolutionarily analyzing sequence similarities.On the basis of all the alignments constructed and phylogenetic analyzes carried out up to now, the evolutionary profile of r-proteins is emerging : (1) in no small number there are protein species that exist throughout the three primary kingdoms, (2) almost all the alignments show 'one to one' correlation to align regularly, that is irregular correlation such as internal transposition appears to be rarely found, (3) wide insertion/deletions and elongation in length are usually found in the comparisons among sequences from different primary kingdoms, while within a kingdom most of the evolutionary changes are amino acid replacements and minor insertion/deletions, (4) gene duplication events have occurred on several r-protein species in the various stages of eukaryotic evolution, (5) archaebactria do not show a monophyletic clade in no small number of r-protein species.On the other hand, we began to analyze the genes of ribosome-related molecules from amitochondriate protists, Glugea plecoglossi, Giardia lamblia and Trichomonas vaginalis to elucidate early evolution of eukaryotic ribosomes.