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Genomic Loci of the Porphyromonas gingivalis Insertion Element IS1126

机译：牙龈卟啉单胞菌插入元件IS1126的基因组位点

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The Porphyromonas gingivalis genome contains multiple copies of insertion element IS1126. When chromosomal DNA digests of different strains were probed with IS1126, between 25 and 35 hybridizing fragments per genome were detected, depending on the strain. Unrelated strains had very different restriction fragment length polymorphism (RFLP) patterns. When different laboratory copies of a specific strain were examined, the IS1126 RFLP patterns were very similar but small differences were observed, indicating that element-associated changes had occurred during laboratory passage. Within the next year, genome sequencing, assembly, and annotation for P. gingivalis W83 will be completed. Because repetitive elements complicate the assembly of randomly sequenced DNA fragments, we isolated and sequenced the flanking regions of IS1126 copies in strain W83. We also isolated and sequenced the flanking regions of IS1126copies in strain ATCC 33277 in order to compare insertion sites in phylogenetically divergent strains. We identified 37 new sequences flanking IS1126 from strain ATCC 33277 and 30 from strain W83. The insertion element was found between genes except where it transposed into another insertion element. Examination of identifiable flanking genes or open reading frames indicated that the insertion sites were different in the two strains, except that both strains possess an insertion adjacent to the Lys-gingipain gene (J. P. Lewis and F. L. Macrina, Infect. Immun. 66:3035–3042, 1998). Most of the genes or sequences flanking IS1126 in ATCC 33277 were present in W83 but were contiguous and not insertion element associated. Thus, where genes were identified in both strains, their order was maintained, indicating that the two genomes are organized similarly, but the loci of IS1126 are different. In both strains, insertion element-associated duplicated target sites were lost from several copies of IS1126, providing evidence of homologous recombination between elements. Larger organizational differences between the genomes, such as deletions and inversions, may result from insertion element-mediated recombination events.
机译：牙龈卟啉单胞菌基因组包含多个插入元件IS 1126 。用IS 1126 探测不同菌株的染色体DNA消化物时，根据菌株的不同，每个基因组检测到25至35个杂交片段。不相关的菌株具有非常不同的限制性片段长度多态性（RFLP）模式。当检查特定菌株的不同实验室拷贝时，IS 1126 RFLP模式非常相似，但观察到很小的差异，表明在实验室通过过程中发生了与元素相关的变化。明年， P的基因组测序，组装和注释。 W83将完成。由于重复元件使随机测序的DNA片段的组装变得复杂，因此我们分离并测序了W83株IS 1126 拷贝的侧翼区域。我们还分离并测序了ATCC 33277菌株IS 1126 拷贝的侧翼区域，以比较系统发育差异菌株中的插入位点。我们从ATCC 33277菌株中鉴定出IS 1126 侧翼的37个新序列，从W83菌株中鉴定出30个新序列。除了在转座到另一个插入元件的地方，在基因之间发现了插入元件。对可识别的侧翼基因或开放阅读框的检查表明，这两种菌株的插入位点不同，除了两种菌株均具有与Lys-gingipain基因相邻的插入（JP Lewis和FL Macrina，Infect。Immun。66：3035– 3042，1998）。 ATCC 33277中IS 1126 侧翼的大多数基因或序列都存在于W83中，但它们是连续的，并且与插入元件无关。因此，在两个菌株中都鉴定出基因的地方，它们的顺序得以保持，表明两个基因组的组织方式相似，但是IS 1126 的位点却不同。在这两个菌株中，从IS 1126 的多个副本中丢失了与插入元件相关的重复靶位，这提供了元件之间同源重组的证据。基因组之间较大的组织差异，例如缺失和倒位，可能是由插入元件介导的重组事件引起的。

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