Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes.
Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes.
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DOI：
10.1186/1471-2164-6-100
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发表时间：
2005-07-23
期刊：
影响因子：
4.4
通讯作者：
Tomavo, S
中科院分区：
文献类型：
--
作者：
Callebaut, I;Prat, K;Meurice, E;Mornon, JP;Tomavo, S
到目前为止，只有少数转录因子已被确定在基因组中的寄生虫恶性疟原虫，疟疾的病原体。此外，还没有详细的分子分析，其基础转录机制，否则是保守的冠组的真核生物，尚未报道。在这项研究中，我们已经使用了敏感的序列分析方法相结合，预测存在的几个寄生虫编码的一般转录因子与RNA聚合酶II。利用二维疏水性聚类分析（HCA）结合基于特征的搜索方法（PSI-BLAST），可以在恶性疟原虫基因组的假设蛋白质中预测与RNA聚合酶II相关的几个一般转录因子的直向同源物。这些预测的编码推定转录因子的正向同源基因包括TFIIA的大亚基和其小亚基的两个候选者TFIIE β亚基，其将与先前已知的TFIIE α亚基、TFIIF β亚基以及TFIIH核心的p62/TFB 1亚基缔合。在TFIID中，还预测了TAF 1、TAF 2、TAF 7和TAF 10的推定直系同源物。然而，没有发现具有经典组蛋白折叠结构域（HFD）的TAF的候选者，这表明寄生虫中RNA聚合酶II的TFIID复合物的不寻常的结构。总之，这些结果表明，更多的一般转录因子可能存在于恶性疟原虫蛋白质组比最初认为的。这些转录因子的预测为进一步研究恶性疟原虫的转录调控奠定了基础。这些替代和敏感的序列分析方法可以帮助确定恶性疟原虫中其他转录调控因子的候选者。它们也将有助于预测来自其他顶复门寄生虫如弓形虫、隐孢子虫和艾美耳球虫的几种孤儿蛋白的生物学功能。
To date, only a few transcription factors have been identified in the genome of the parasite Plasmodium falciparum, the causative agent of malaria. Moreover, no detailed molecular analysis of its basal transcription machinery, which is otherwise well-conserved in the crown group of eukaryotes, has yet been reported. In this study, we have used a combination of sensitive sequence analysis methods to predict the existence of several parasite encoded general transcription factors associated with RNA polymerase II. Several orthologs of general transcription factors associated with RNA polymerase II can be predicted among the hypothetical proteins of the P. falciparum genome using the two-dimensional Hydrophobic Cluster Analysis (HCA) together with profile-based search methods (PSI-BLAST). These predicted orthologous genes encoding putative transcription factors include the large subunit of TFIIA and two candidates for its small subunit, the TFIIE β-subunit, which would associate with the previously known TFIIE α-subunit, the TFIIF β-subunit, as well as the p62/TFB1 subunit of the TFIIH core. Within TFIID, the putative orthologs of TAF1, TAF2, TAF7 and TAF10 were also predicted. However, no candidates for TAFs with classical histone fold domain (HFD) were found, suggesting an unusual architecture of TFIID complex of RNA polymerase II in the parasite. Taken together, these results suggest that more general transcription factors may be present in the P. falciparum proteome than initially thought. The prediction of these orthologous general transcription factors opens the way for further studies dealing with transcriptional regulation in P. falciparum. These alternative and sensitive sequence analysis methods can help to identify candidates for other transcriptional regulatory factors in P. falciparum. They will also facilitate the prediction of biological functions for several orphan proteins from other apicomplexan parasites such as Toxoplasma gondii, Cryptosporidium parvum and Eimeria.
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影响因子：
9.8
作者：
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通讯作者：
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