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PMID: 11731504 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

The LN54 radiation hybrid map of zebrafish expressed sequences.

Genome research ·Vol. 11 ·No. 12 ·2001-12-00 ·Pages 2127-32

Hukriede N, Fisher D, Epstein J, Joly L, Tellis P, Zhou Y, Barbazuk B, Cox K, Fenton-Noriega L, Hersey C, Miles J, Sheng X, Song A, Waterman R, Johnson SL, Dawid IB, Chevrette M, Zon LI, McPherson J, Ekker M

Abstract

To increase the density of a gene map of the zebrafish, Danio rerio, we have placed 3119 expressed sequence tags (ESTs) and cDNA sequences on the LN54 radiation hybrid (RH) panel. The ESTs and genes mapped here join 748 SSLp markers and 459 previously mapped genes and ESTs, bringing the total number of markers on the LN54 RH panel to 4226. Addition of these new markers brings the total LN54 map size to 14,372 cR, with 118 kb/cR. The distribution of ESTs according to linkage groups shows relatively little variation (minimum, 73; maximum, 201). This observation, combined with a relatively uniform size for zebrafish chromosomes, as previously indicated by karyotyping, indicates that there are no especially gene-rich or gene-poor chromosomes in this species. We developed an algorithm to provide a semiautomatic method for the selection of additional framework markers for the LN54 map. This algorithm increased the total number of framework markers to 1150 and permitted the mapping of a high percentage of sequences that could not be placed on a previous version of the LN54 map. The increased concentration of expressed sequences on the LN54 map of the zebrafish genome will facilitate the molecular characterization of mutations in this species.

MeSH Terms
Animals Expressed Sequence Tags Gene Expression Profiling/methods Genetic Linkage/genetics Genetic Markers/genetics Radiation Hybrid Mapping/methods Zebrafish/genetics
Chemicals
Genetic Markers
Authors & Affiliations
20 authors, click to expand affiliations / ORCID
Hukriede N
Laboratory of Molecular Genetics and Unit of Biological Computation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, Maryland 20892, USA.
Fisher D
Epstein J
Joly L
Tellis P
Zhou Y
Barbazuk B
Cox K
Fenton-Noriega L
Hersey C
Miles J
Sheng X
Song A
Waterman R
Johnson S L
Dawid I B
Chevrette M
Zon L I
McPherson J
Ekker M
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Article Info
Journal
Genome research
Abbr.
Genome Res
ISSN
1088-9051
DOI
10.1101/gr.210601
Published
2001-12-00
Pages
2127-32
Language
English
Region
United States
NLM ID
9518021
PMCID
PMC311215
Subset
IM
Grants
NIDDK NIH HHS · R01 DK055381 · United States
NIDDK NIH HHS · R01 DK55379 · United States
NIDDK NIH HHS · R01 DK55381 · United States
External Links
PubMed source DOI: 10.1101/gr.210601 PMC Full Text View journal details
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