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Open Access Highly Accessed Research article

Diversity and evolution of multiple orc/cdc6-adjacent replication origins in haloarchaea

Zhenfang Wu, Hailong Liu, Jingfang Liu, Xiaoqing Liu and Hua Xiang*

Author Affiliations

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China

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BMC Genomics 2012, 13:478  doi:10.1186/1471-2164-13-478

Published: 14 September 2012

Additional files

Additional file 1:

Physical mapping of eight predicted replication origins inH. hispanica. ORBs found in the IRs are indicated with numbered arrowheads, and the sequences are listed below.

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Open Data

Additional file 2:

Screening of origin activity inH. hispanica. A. Schematic of the ARS assay. Δ: Corresponding origin (or cdc6 plus intergenic region)-deletion H. hispanica strains (unpublished data) were used for transformation to avoid plasmid integration. * For the two origins, oriC1-cdc6A and oriP-cdc6K, which cannot be knocked out from the chromosome and megaplasmid, respectively, the wide-type strains were used for transformation and Southern blot was performed to confirm ARS activity (Figure  1). B. ARS assay plates for eleven candidates. Colonies in plates of AS-168 (Mev) were observed after 7 days at 37 °C, and the minus signs (−) represent no visible colonies (no ARS activity).

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Additional file 3:

Orc/Cdc6 homologues encoded in the haloarchaeal genomes. The complete set of Orc/Cdc6 homologues identified in the 15 sequenced haloarchaeal genomes.

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Additional file 4:

Predictedorc/cdc6-associated replication origins in the haloarchaeal genomes. Prediction of ORB-containing replication origins directly adjacent to orc/cdc6 genes. The ORB elements are highlighted in red or blue colors.

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Additional file 5:

Alignments of ORB elements in origin families oforiC1,oriCaand oriCb. A, B and C respectively represent ORB elements found at origins belonging to origin families of oriC1, oriCa and oriCb, and conserved sequences are highlighted with shaded rectangles.

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Additional file 6:

List of genes in the divergent regions between H. hispanica and H. marismortui. Blast analysis of the genes in the divergent regions between H. hispanica and H. marismortui. The genes whose closest relative is outside haloarchaea are highlighted in different colors.

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Additional file 7:

Sequence similarity of regions around theoriCaandoriCborigins of replication in different haloarchaeal genomes. BLASTN analysis of the regions around the oriCa (A) and oriCb (B) origins of replication in different haloarchaeal genomes, and gray shading represents sequence similarity greater than 70%.

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Open Data