Open Access Research article

Lineage-specific evolution of the vertebrate Otopetrin gene family revealed by comparative genomic analyses

Belen Hurle1, Tomas Marques-Bonet23, Francesca Antonacci3, Inna Hughes4, Joseph F Ryan1, NISC Comparative Sequencing Program15, Evan E Eichler3, David M Ornitz6 and Eric D Green15*

Author Affiliations

1 Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, (50 South Drive), Bethesda, MD (20892), USA

2 Department of Institut de Biologia Evolutiva (UPF/CSIC), (Dr. Aiguader, 88), Barcelona (08003), Spain

3 Department of Genome Sciences and Howard Hughes Medical Institute, University of Washington School of Medicine, (3720 15th Ave NE), Seattle, WA (98195), USA

4 Department of Child Neurology, University of Rochester Medical Center, (601 Elmwood Avenue), Rochester, NY (14642), USA

5 NIH Intramural Sequencing Center, National Human Genome Research Institute, National Institutes of Health, (5625 Fishers Lane), Bethesda, MD (20852), USA

6 Department of Molecular Biology and Pharmacology, Washington University School of Medicine, (660 South Euclid Avenue), St. Louis, MO (63110), USA

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BMC Evolutionary Biology 2011, 11:23  doi:10.1186/1471-2148-11-23

Published: 24 January 2011

Additional files

Additional file 1:

UCSC custom track bed file: Xenopus tropicalis Otop1b; Xenopus tropicalis Otop1a.

Format: TXT Size: 1KB Download file

Open Data

Additional file 2:

Table S1. Pair-wise alignment between the proximal and distal segmental duplications flanking human cytogenetic band 4p16.1-p16.3

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Additional file 3:

Figure S1. Comparative genomic architecture of the chromosome 4p16.3 region

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Additional file 4:

Segmental duplication content of the Otop1-proximal and distal regions in the h17 and h19 human genome sequence assemblies; orthologous conservation of the TBSD family in the primate genomes

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Additional file 5:

Figure S2. Segmental duplication content of the Otop1-proximal and Otop1-distal regions in the hg17 and hg19 genome assemblies

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Additional file 6:

Figure S3. Distribution of the TBSD segmental duplication family across the human genome

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Additional file 7:

UCSC custom track bed file: Gasterosteus aculeatus Sansa; Gasterosteus aculeatus Sansb; Gasterosteus aculeatus Sansc

Format: TXT Size: 1KB Download file

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Additional file 8:

UCSC custom track bed file: Tetraodon nigroviridis Sansa; Tetraodon nigroviridis Sansb; Tetraodon nigroviridis Sansc

Format: TXT Size: 1KB Download file

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Additional file 9:

UCSC custom track bed file: Oryzias latipes Sansa; Oryzias latipes Sansab; Oryzias latipes Sansac;

Format: TXT Size: 1KB Download file

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Additional file 10:

UCSC custom track bed file: Takifugu rubripes Sansa; Takifugu rubripes Sansb: Takifugu rubripes Sansc

Format: TXT Size: 1KB Download file

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Additional file 11:

UCSC custom track bed file: Danio rerio Sansb; Danio rerio Sansc

Format: TXT Size: 1KB Download file

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Additional file 12:

Figure S4. Comparative analysis of the Ush1g proteins in five fish species

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Additional file 13:

UCSC custom track bed file: ExactPlus 7-5-4 MCSs; ExactPlus 7-5-4 overlaps phastConsElement30way MCSs

Format: TXT Size: 4KB Download file

Open Data