Enzymes are enriched in bacterial essential genes.
Enzymes are enriched in bacterial essential genes.
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DOI：
10.1371/journal.pone.0021683
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Zhang RR
中科院分区：
文献类型：
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作者：
Gao F;Zhang RR
必需基因是生物体生存所不可缺少的基因，在合成生物学这一新兴领域发挥着关键作用。对必需基因编码的功能进行表征不仅具有重要的实际意义，例如在确定抗生素药物靶点方面，而且还可以增强我们对基础生物学的理解，例如支持细胞生命所需的功能。酶对几乎所有的细胞活动都至关重要。然而，必需基因还没有从酶及其催化的化学反应的角度进行系统的研究。在此，通过对进行了大规模基因必要性筛选的14个细菌基因组中的必需基因进行综合分析，发现酶在必需基因中富集。必需酶中，连接酶（尤其是形成碳-氧键和碳-氮键的连接酶）、核苷基转移酶和磷酸转移酶占主导地位，而氧化还原酶则占主导地位。此外，必需酶往往与更多的基因本体论域。从化学反应的角度来看，这些结果为理解支持自然细胞生命以及合成细胞所需的功能提供了进一步的见解，并提供了可以整合到基因必要性预测算法中的额外参数。
Essential genes, those indispensable for the survival of an organism, play a key role in the emerging field, synthetic biology. Characterization of functions encoded by essential genes not only has important practical implications, such as in identifying antibiotic drug targets, but can also enhance our understanding of basic biology, such as functions needed to support cellular life. Enzymes are critical for almost all cellular activities. However, essential genes have not been systematically examined from the aspect of enzymes and the chemical reactions that they catalyze. Here, by comprehensively analyzing essential genes in 14 bacterial genomes in which large-scale gene essentiality screens have been performed, we found that enzymes are enriched in essential genes. Essential enzymes have overrepresented ligases (especially those forming carbon-oxygen bonds and carbon-nitrogen bonds), nucleotidyltransferases and phosphotransferases, while have underrepresented oxidoreductases. Furthermore, essential enzymes tend to associate with more gene ontology domains. These results, from the aspect of chemical reactions, provide further insights into the understanding of functions needed to support natural cellular life, as well as synthetic cells, and provide additional parameters that can be integrated into gene essentiality prediction algorithms.
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影响因子：
9.9
作者：
de Berardinis, Veronique;Vallenet, David;Castelli, Vanina;Besnard, Marielle;Pinet, Agnes;Cruaud, Corinne;Samair, Sumitta;Lechaplais, Christophe;Gyapay, Gabor;Richez, Celine;Durot, Maxime;Kreimeyer, Annett;Le Fevre, Francois;Schaechter, Vincent;Pezo, Valerie;Doering, Volker;Scarpelli, Claude;Medigue, Claudine;Cohen, Georges N.;Marliere, Philippe;Salanoubat, Marcel;Weissenbach, Jean
通讯作者：
Weissenbach, Jean
影响因子：
4.4
作者：
Chaudhuri RR;Allen AG;Owen PJ;Shalom G;Stone K;Harrison M;Burgis TA;Lockyer M;Garcia-Lara J;Foster SJ;Pleasance SJ;Peters SE;Maskell DJ;Charles IG
通讯作者：
Charles IG
影响因子：
64.8
作者：
Jeong, H;Mason, SP;Oltvai, ZN
通讯作者：
Oltvai, ZN
DOI：
10.1073/pnas.012602299
发表时间：
2002-01-22
影响因子：
11.1
作者：
Akerley, BJ;Rubin, EJ;Mekalanos, JJ
通讯作者：
Mekalanos, JJ
大肠杆菌K-12的构造框架，单基因敲除突变体：Keio Collection。
影响因子：
9.9
作者：
通讯作者：
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