Construction of a sugar beet BAC library from a hybrid with diverse traits

J. M. McGrath; R. Scott Shaw; Benildo G. De Los Reyes; John J. Weiland

doi:10.1007/BF02773345

Construction of a sugar beet BAC library from a hybrid with diverse traits

J. M. McGrath, R. Scott Shaw, Benildo G. De Los Reyes, John J. Weiland

Plant & Soil Science

Research output: Contribution to journal › Article › peer-review

30 Scopus citations

Abstract

A bacterial artificial chromosome (BAC) library of the 750-Mbp sugar beet genome represented in hybrid US H20 was constructed from Hind III-digested DNA, with an average insert size of 120 kbp. US H20 is a variety grown in the eastern United States. It exhibits heterosis for emergence and yield, presumably because of its hybridity between eastern and western US germplasm sources. Filter arrays were used to assess the abundance and distribution of particular nucleotide sequences. An rRNA gene probe found that 1.2% of the library carried sequences similar to these highly repetitive and conserved sequences. A simple sequence repeat element (CA)₈ thought to be predominantly distributed throughout centromere regions of all chromosomes was present in 1.7% of clones. For more than half of the 28 randomly chosen expressed sequence tags (ESTs) used as probes, a higher-than-expected number of single-copy hybridization signals was observed. Assuming 6x genome coverage, this suggests that many duplicate genes exist in the beet genome.

Original language	English
Pages (from-to)	23-28
Number of pages	6
Journal	Plant Molecular Biology Reporter
Volume	22
Issue number	1
DOIs	https://doi.org/10.1007/BF02773345
State	Published - Mar 2004

Keywords

BAC library
Gene copy number
Genetic resource
Physical mapping
Sugar beet

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10.1007/BF02773345

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title = "Construction of a sugar beet BAC library from a hybrid with diverse traits",

abstract = "A bacterial artificial chromosome (BAC) library of the 750-Mbp sugar beet genome represented in hybrid US H20 was constructed from Hind III-digested DNA, with an average insert size of 120 kbp. US H20 is a variety grown in the eastern United States. It exhibits heterosis for emergence and yield, presumably because of its hybridity between eastern and western US germplasm sources. Filter arrays were used to assess the abundance and distribution of particular nucleotide sequences. An rRNA gene probe found that 1.2% of the library carried sequences similar to these highly repetitive and conserved sequences. A simple sequence repeat element (CA)8 thought to be predominantly distributed throughout centromere regions of all chromosomes was present in 1.7% of clones. For more than half of the 28 randomly chosen expressed sequence tags (ESTs) used as probes, a higher-than-expected number of single-copy hybridization signals was observed. Assuming 6x genome coverage, this suggests that many duplicate genes exist in the beet genome.",

keywords = "BAC library, Gene copy number, Genetic resource, Physical mapping, Sugar beet",

author = "McGrath, {J. M.} and {Scott Shaw}, R. and {De Los Reyes}, {Benildo G.} and Weiland, {John J.}",

note = "Funding Information: We thank Drs Lee Panella and Bob Lewellen for helpful discussions; Susan Myers, Quanzhou Tao, Robert Bogden, and Keith Stormo for technical assistance; and member companies of the Beet Sugar Development Foundation for financial support.",

year = "2004",

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doi = "10.1007/BF02773345",

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AU - Weiland, John J.

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N2 - A bacterial artificial chromosome (BAC) library of the 750-Mbp sugar beet genome represented in hybrid US H20 was constructed from Hind III-digested DNA, with an average insert size of 120 kbp. US H20 is a variety grown in the eastern United States. It exhibits heterosis for emergence and yield, presumably because of its hybridity between eastern and western US germplasm sources. Filter arrays were used to assess the abundance and distribution of particular nucleotide sequences. An rRNA gene probe found that 1.2% of the library carried sequences similar to these highly repetitive and conserved sequences. A simple sequence repeat element (CA)8 thought to be predominantly distributed throughout centromere regions of all chromosomes was present in 1.7% of clones. For more than half of the 28 randomly chosen expressed sequence tags (ESTs) used as probes, a higher-than-expected number of single-copy hybridization signals was observed. Assuming 6x genome coverage, this suggests that many duplicate genes exist in the beet genome.

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Construction of a sugar beet BAC library from a hybrid with diverse traits

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Keywords

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