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Zebrafish genomics and its applicati...

Ton, Christopher.

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Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development.

Record Type:	Language materials, printed : Monograph/item
Title/Author:	Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development./
Author:	Ton, Christopher.
Description:	225 p.
Notes:	Adviser: Choong-Chin Liew.
Contained By:	Dissertation Abstracts International63-12B.
Subject:	Biology, Animal Physiology. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=NQ74689
ISBN:	0612746895

Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development.
Ton, Christopher.

Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development. - 225 p.

Adviser: Choong-Chin Liew.

Thesis (Ph.D.)--University of Toronto (Canada), 2002.

The zebrafish, <italic>Danio rerio</italic> is an excellent model for vertebrate developmental genetics. In order to characterize gene expression patterns of the zebrafish during embryonic development, a genomic resource of data and clones was initiated by large-scale partial sequencing of randomly selected cDNA clones to generate expressed sequence tags (ESTs) from zebrafish embryonic (3-day) heart cDNA library. Generation of 5,102 ESTs from the zebrafish embryonic heart cDNA library, representing the first and only catalogue of genes expressed in the embryonic zebrafish cardiovascular system. Clustering of all ESTs identified approximately 3,690 unique transcripts. Radiation hybrid mapping was performed for 102 ESTs and comparison of map positions between zebrafish and human identified new synteny groups. Further acquisition of ESTs from zebrafish adult heart and skeletal muscles cDNA libraries, coupled with the development of the 4,700 unique genes zebrafish cDNA microarray, allowed for large-scale gene expression analysis of the zebrafish during development and to the study of the effects of hypoxia on the zebrafish. In the former analysis, a total of 801 genes were identified to be differentially expressed during 5 different stages of development, including many novel developmentally regulated genes. In the latter analysis, expression profiling reveals the adaptive mechanisms of how zebrafish embryos survive under hypoxia. Hypoxia induces changes in gene expression patterns in the zebrafish embryos and these patterns are reverted back upon re-exposure to normoxia (20.8% O<sub>2</sub>). Characterizations of novel developmentally regulated genes as determined through the microarray analysis identified a novel zebrafish helix-loop-helix gene. Subsequent <italic>in situ</italic> hybridization and RT-PCR analysis confirmed that the Id7 gene is developmentally regulated. Overall, these results illustrate the power of ESTs and cDNA microarray as genomic tools for large-scale analyses of gene expression of the zebrafish during development and its responses to hypoxia. This study demonstrates the powerful utility of the EST database and the potential of cDNA microarray for the analysis of zebrafish mutants that affect various aspects of zebrafish development. Further utilizations of current resources, coupled with further additions of clones on the array should increase the power and sensitivity of this technology.

ISBN: 0612746895Subjects--Topical Terms:

1017835
Biology, Animal Physiology.

Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development.
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100 1 $a Ton, Christopher. $3 1258421
245 1 0 $a Zebrafish genomics and its applications: A vertebrate model system for understanding human cardiovascular development.
300 $a 225 p.
500 $a Adviser: Choong-Chin Liew.
500 $a Source: Dissertation Abstracts International, Volume: 63-12, Section: B, page: 5687.
502 $a Thesis (Ph.D.)--University of Toronto (Canada), 2002.
520 $a The zebrafish, <italic>Danio rerio</italic> is an excellent model for vertebrate developmental genetics. In order to characterize gene expression patterns of the zebrafish during embryonic development, a genomic resource of data and clones was initiated by large-scale partial sequencing of randomly selected cDNA clones to generate expressed sequence tags (ESTs) from zebrafish embryonic (3-day) heart cDNA library. Generation of 5,102 ESTs from the zebrafish embryonic heart cDNA library, representing the first and only catalogue of genes expressed in the embryonic zebrafish cardiovascular system. Clustering of all ESTs identified approximately 3,690 unique transcripts. Radiation hybrid mapping was performed for 102 ESTs and comparison of map positions between zebrafish and human identified new synteny groups. Further acquisition of ESTs from zebrafish adult heart and skeletal muscles cDNA libraries, coupled with the development of the 4,700 unique genes zebrafish cDNA microarray, allowed for large-scale gene expression analysis of the zebrafish during development and to the study of the effects of hypoxia on the zebrafish. In the former analysis, a total of 801 genes were identified to be differentially expressed during 5 different stages of development, including many novel developmentally regulated genes. In the latter analysis, expression profiling reveals the adaptive mechanisms of how zebrafish embryos survive under hypoxia. Hypoxia induces changes in gene expression patterns in the zebrafish embryos and these patterns are reverted back upon re-exposure to normoxia (20.8% O<sub>2</sub>). Characterizations of novel developmentally regulated genes as determined through the microarray analysis identified a novel zebrafish helix-loop-helix gene. Subsequent <italic>in situ</italic> hybridization and RT-PCR analysis confirmed that the Id7 gene is developmentally regulated. Overall, these results illustrate the power of ESTs and cDNA microarray as genomic tools for large-scale analyses of gene expression of the zebrafish during development and its responses to hypoxia. This study demonstrates the powerful utility of the EST database and the potential of cDNA microarray for the analysis of zebrafish mutants that affect various aspects of zebrafish development. Further utilizations of current resources, coupled with further additions of clones on the array should increase the power and sensitivity of this technology.
590 $a School code: 0779.
650 4 $a Biology, Animal Physiology. $3 1017835
650 4 $a Biology, Molecular. $3 1017719
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791 $a Ph.D.
792 $a 2002
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=NQ74689