Archaea-like genes for C1-transfer enzymes in Planctomycetes:: Phylogenetic implications of their unexpected presence in this phylum
Archaea-like genes for C1-transfer enzymes in Planctomycetes:: Phylogenetic implications of their unexpected presence in this phylum
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DOI：
10.1007/s00239-004-2643-6
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发表时间：
2004-11-01
影响因子：
3.9
通讯作者：
Glöckner, F
中科院分区：
文献类型：
--
作者：
Bauer, M;Lombardot, T;Glöckner, F
在好氧海洋Planctomycete Pirellula sp.全序列基因组中意外发现依赖于四氢甲烷喋呤(H4MPT)的酶的类古生菌基因菌株1(“波罗的海红假单胞菌”)和目前测序的需氧淡水植物真菌Gemmata obcuriglobus菌株UQM2246的基因组中，重新开始了关于细菌领域这些基因起源的讨论。我们比较了植物真菌和甲基营养蛋白细菌中这些基因的基因组排列，并对编码的蛋白质序列进行了系统发育分析，以解决这些基因是否存在于细菌和古生菌的共同祖先中，或者是从古菌横向转移到细菌域和其中。虽然这个问题不能用这里提供的数据来解决，但我们可以提出一些限制古生菌和细菌H4MPT依赖的氯离子转移所涉及的基因进化的限制因素：(I)从古生菌到变形杆菌和扁霉菌的共同祖先的横向基因转移(LGT)似乎比细菌和古生菌的共同祖先中的基因更有可能存在；(Ii)结构域间LGT的单个事件可能比两个独立的事件更受青睐；以及(Iii)基因的古代供体可能是甲烷杆菌的代表。在细菌领域，获得的基因根据不同的环境和代谢限制而进化，具体表现为基因顺序的特定重排、基因招募和基因复制，以及随后的功能特化。在进化过程中，一些植物真菌基因组中的基因丢失或被蛋白质细菌谱系中的同源基因取代。
The unexpected presence of archaea-like genes for tetrahydromethanopterin (H4MPT)-dependent enzymes in the completely sequenced genome of the aerobic marine planctomycete Pirellula sp. strain 1 ("Rhodopirellula baltica") and in the currently sequenced genome of the aerobic freshwater planctomycete Gemmata obscuriglobus strain UQM2246 revives the discussion on the origin of these genes in the bacterial domain. We compared the genomic arrangement of these genes in Planctomycetes and methylotrophic proteobacteria and performed a phylogenetic analysis of the encoded protein sequences to address the question whether the genes have been present in the common ancestor of Bacteria and Archaea or were transferred laterally from the archaeal to the bacterial domain and therein. Although this question could not be solved using the data presented here, some constraints on the evolution of the genes involved in archaeal and bacterial H4MPT-dependent Cl-transfer may be proposed: (i) lateral gene transfer (LGT) from Archaea to a common ancestor of Proteobacteria and Planctomycetes seems more likely than the presence of the genes in the common ancestor of Bacteria and Archaea; (ii) a single event of interdomain LGT can be favored over two independent events; and (iii) the archaeal donor of the genes might have been a representative of the Methanosarcinales. In the bacterial domain, the acquired genes evolved according to distinct environmental and metabolic constraints, reflected by specific rearrangements of gene order, gene recruitment, and gene duplication, with subsequent functional specialization. During the course of evolution, genes were lost from some planctomycete genomes or replaced by orthologous genes from proteobacterial lineages.