Open Access Research article

Deep ancestry of mammalian X chromosome revealed by comparison with the basal tetrapod Xenopus tropicalis

Jaroslav Mácha1, Radka Teichmanová1, Amy K Sater2, Dan E Wells2, Tereza Tlapáková1, Lyle B Zimmerman3* and Vladimír Krylov1

Author Affiliations

1 Department of Cell Biology, Faculty of Science, Charles University in Prague, Vinicna 7, Prague 2, Czech Republic

2 Department of Biology and Biochemistry, University of Houston, Houston, TX, 77204-5001, USA

3 Division of Developmental Biology, MRC-National Institute for Medical Research, Mill Hill, London, NW7 1AA, UK

For all author emails, please log on.

BMC Genomics 2012, 13:315  doi:10.1186/1471-2164-13-315

Published: 16 July 2012

Additional files

Additional file 1:

Human X-borne genes and their X. tropicalis orthologs. Table lists genes from Homo sapiens Genome Build 37.1 [36] and their X. tropicalis orthologs obtained from Ensembl [37] and Xenbase [38] databases. Human tandemly-arrayed genes are highlighted in yellow, X. tropicalis orthologs on chromosome 2 are highlighted in blue, X. tropicalis orthologs on chromosome 8 are highlighted in green, X. tropicalis orthologs in other chromosomes are highlighted in red, and the border gene between XCR and XAR is highlighted in grey.

Format: XLSX Size: 277KB Download file

Open Data

Additional file 2:

Cytogenetic localisation ofX. tropicalisgenes in chromosomes. FISH-TSA localization of genes from reference scaffolds onto X. tropicalis chromosomes using scaffold-specific cDNA probes. Probes are described in Additional file 4.

Format: JPEG Size: 154KB Download file

Open Data

Additional file 3:

Chromosomal positions of orthologs of genes from human chromosomes 1, 2, 3, 11, 13, 15, 19 and 21. Table shows position of human gene orthologs in X. tropicalis, chicken and opossum chromosomes. Syntenic blocks between human, opossum and chicken are from the Comparative Genomics display of the Ensembl database [18]. Orthologs of human genes in gaps between synteny blocks were identified in databases [37,38] and the X. tropicalis linkage map [15].

Format: XLSX Size: 185KB Download file

Open Data

Additional file 4:

Probes used for gene visualization by FISH-TSA. Table contains corresponding scaffolds and description of cDNA probes for FISH-TSA.

Format: XLSX Size: 16KB Download file

Open Data