PUBLICATION
Comparative analysis of a 229-kb medaka genomic region, containing the zic1 and zic4 genes, with Fugu, human, and mouse
- Authors
- Ohtsuka, M., Kikuchi, N., Ozato, K., Inoko, H., and Kimura, M.
- ID
- ZDB-PUB-040609-17
- Date
- 2004
- Source
- Genomics 83(6): 1063-1071 (Journal)
- Registered Authors
- Ozato, Kenjiro
- Keywords
- Medaka, Genome, Comparative genomics, Gene poor, Intergenic region, G+C content, zic1, zic4
- MeSH Terms
-
- Amino Acid Sequence
- Animals
- Base Composition/genetics
- Chromosome Mapping
- Contig Mapping
- DNA, Intergenic/genetics
- Genome*
- Humans
- Mice
- Molecular Sequence Data
- Oryzias/genetics*
- Sequence Alignment
- Sequence Homology, Amino Acid
- Sequence Homology, Nucleic Acid
- Takifugu/genetics
- Transcription Factors/genetics*
- Zebrafish/genetics
- PubMed
- 15177559 Full text @ Genomics
Citation
Ohtsuka, M., Kikuchi, N., Ozato, K., Inoko, H., and Kimura, M. (2004) Comparative analysis of a 229-kb medaka genomic region, containing the zic1 and zic4 genes, with Fugu, human, and mouse. Genomics. 83(6):1063-1071.
Abstract
Medaka is one of the prominent model animals, which also include other fishes such as Fugu and zebrafish. Its genome is relatively compact but has not been well characterized. Here we have sequenced a 229-kb region of medaka, containing the Double anal fin (Da) locus, and compared its structure to those in Fugu, human, and mouse. This region, representing a gene-poor region, contains no major rearrangements and can be readily compared among different species. Comparison of G+C contents and repeats suggested that medaka and Fugu are highly related as expected and that medaka is more similar to mammals than Fugu is. Sequence comparisons of developmental genes zic1 and zic4, identified within this region, revealed that zic1, but not zic4, is highly conserved among vertebrates. The 5' coding region of zic4 is, however, extremely homologous among fishes with little synonymous substitutions, implying its distinct function in fish.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping