Unique characteristics of the pyrrolysine system in the 7th order of methanogens: implications for the evolution of a genetic code expansion cassette.
Unique characteristics of the pyrrolysine system in the 7th order of methanogens: implications for the evolution of a genetic code expansion cassette.
复制标题
DOI：
10.1155/2014/374146
复制
发表时间：
2014
期刊：
影响因子：
--
通讯作者：
Brugère JF
中科院分区：
文献类型：
--
作者：
Borrel G;Gaci N;Peyret P;O'Toole PW;Gribaldo S;Brugère JF
pyrlysine （Pyl）是第22种蛋白质原氨基酸，直到最近才在少数生物中发现。它的翻译用途需要赖氨酸、专用琥珀色终止密码子抑制tRNA和特定的氨基酰基tRNA合成酶合成它的酶的存在。最近提出的与热原相关的7阶甲烷菌的三个基因组包含Pyl合成及其翻译使用的完整遗传集。在此，我们将这三个基因组中的pyl编码系统的基因组特征与已知的细菌和古生菌基因组特征进行了分析，并分析了每个组成部分的系统发育。这显示出独特的特性，特别是琥珀色tRNAPyl具有不完美的反密码子茎和缩短的tRNAPyl合成酶。系统发育分析表明，产甲烷菌第七目祖先中存在pyl编码系统，与细菌的亲缘关系比与产甲烷菌科的亲缘关系更近，表明在两个原核结构域之间，pyrlysine的传播可能涉及基因的横向转移。我们提出pyl编码系统可能在古细菌中出现过一次，在氢营养和甲醇- h2依赖的甲基营养甲烷菌中。甲烷生成和Pyl系统之间的密切关系为仍在进化的遗传密码的扩展提供了一个可能的例子，该遗传密码由代谢需求形成。
Pyrrolysine (Pyl), the 22nd proteogenic amino acid, was restricted until recently to few organisms. Its translational use necessitates the presence of enzymes for synthesizing it from lysine, a dedicated amber stop codon suppressor tRNA, and a specific amino-acyl tRNA synthetase. The three genomes of the recently proposed Thermoplasmata-related 7th order of methanogens contain the complete genetic set for Pyl synthesis and its translational use. Here, we have analyzed the genomic features of the Pyl-coding system in these three genomes with those previously known from Bacteria and Archaea and analyzed the phylogeny of each component. This shows unique peculiarities, notably an amber tRNAPyl with an imperfect anticodon stem and a shortened tRNAPyl synthetase. Phylogenetic analysis indicates that a Pyl-coding system was present in the ancestor of the seventh order of methanogens and appears more closely related to Bacteria than to Methanosarcinaceae, suggesting the involvement of lateral gene transfer in the spreading of pyrrolysine between the two prokaryotic domains. We propose that the Pyl-coding system likely emerged once in Archaea, in a hydrogenotrophic and methanol-H2-dependent methylotrophic methanogen. The close relationship between methanogenesis and the Pyl system provides a possible example of expansion of a still evolving genetic code, shaped by metabolic requirements.
登录
查看更多内容
DOI：
10.1128/genomea.00453-13
发表时间：
2013-07-11
期刊：
Genome announcements
影响因子：
--
作者：
Borrel G;Harris HM;Parisot N;Gaci N;Tottey W;Mihajlovski A;Deane J;Gribaldo S;Bardot O;Peyretaillade E;Peyret P;O'Toole PW;Brugère JF
通讯作者：
Brugère JF
影响因子：
4.8
作者：
Jiang, Ruisheng;Krzycki, Joseph A.
通讯作者：
Krzycki, Joseph A.
DOI：
10.1098/rstb.2006.1841
发表时间：
2006-06-29
影响因子：
6.3
作者：
Gribaldo, Simonetta;Brochier-Armanet, Celine
通讯作者：
Brochier-Armanet, Celine
从赖氨酸完全生物合成遗传编码的氨基酸吡咯赖氨酸。
影响因子：
64.8
作者：
Gaston, Marsha A.;Zhang, Liwen;Green-Church, Kari B.;Krzycki, Joseph A.
通讯作者：
Krzycki, Joseph A.
hafniense pyrrolysyl-tRNA合成酶识别吡咯氨酰胺tRNA。
影响因子：
14.9
作者：
Herring, Stephanie;Ambrogelly, Alexandre;Polycarpo, Carla R.;Soll, Dieter
通讯作者：
Soll, Dieter