PUBLICATION
Organization and structure of hox gene loci in medaka genome and comparison with those of pufferfish and zebrafish genomes
- Authors
- Kurosawa, G., Takamatsu, N., Takahashi, M., Sumitomo, M., Sanaka, E., Yamada, K., Nishii, K., Matsuda, M., Asakawa, S., Ishiguro, H., Miura, K., Kurosawa, Y., Shimizu, N., Kohara, Y., and Hori, H.
- ID
- ZDB-PUB-060216-6
- Date
- 2006
- Source
- Gene 370: 75-82 (Journal)
- Registered Authors
- Hori, Hiroshi
- Keywords
- BAC clones, Shotgun sequencing, Chromosome duplication, Gene loss
- MeSH Terms
-
- Animals
- Blotting, Southern/methods
- Chromosome Mapping/methods
- Chromosomes, Artificial, Bacterial/genetics
- Databases, Genetic
- Genome/genetics*
- Homeodomain Proteins/genetics*
- Humans
- Multigene Family/genetics*
- Oryzias/genetics*
- Quantitative Trait Loci/genetics*
- Sequence Homology, Nucleic Acid
- Takifugu/genetics
- Zebrafish/genetics
- PubMed
- 16472944 Full text @ Gene
Citation
Kurosawa, G., Takamatsu, N., Takahashi, M., Sumitomo, M., Sanaka, E., Yamada, K., Nishii, K., Matsuda, M., Asakawa, S., Ishiguro, H., Miura, K., Kurosawa, Y., Shimizu, N., Kohara, Y., and Hori, H. (2006) Organization and structure of hox gene loci in medaka genome and comparison with those of pufferfish and zebrafish genomes. Gene. 370:75-82.
Abstract
We isolated BAC clones that cover the entire hox gene loci in the medaka fish Oryzias latipes. The BAC clones were characterized by the Southern hybridization with many hox gene probes isolated in our previous study and by PCR using primers designed for selective amplification of respective hox genes. Then, the BAC clones have been subjected to shotgun sequencing. The results revealed the organization of the entire hox gene loci. Forty-six hox genes in total are encoded in seven clusters as follows: 10 hox genes in Aa cluster; 5 in Ab; 9 in Ba; 4 in Bb; 10 in Ca; 6 in Da; and 2 in Db. Together with the information on the hox gene loci registered in the Fugu genome database and in the Danio genome database, the physical maps of three fish genomes were constructed and compared one another. Not only numbers of hox genes but also the distances between the neighboring hox genes are highly similar between medaka and fugu. As for six clusters, Aa, Ab, Ba, Bb, Ca and Da that are commonly present in the three fishes, only few or no differences were found in each cluster. Thus, the hox gene sets should have been well conserved once they had been established in respective species.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping