Construction and characterization of a bacterial artificial chromosome (BAC) library from the Japanese malting barley variety 'Haruna Nijo'

Daisuke Saisho, Eriko Myoraku, Shinji Kawasaki, Kazuhiro Sato, Kazuyoshi Takeda

Research output: Contribution to journalArticle

29 Citations (Scopus)

Abstract

Cultivated barley (Hordeum vulgare L.) is well known as one of the most widely cultivated crops in the world and as an extensively studied plant species in the field of genetics. In recent years, despite its very large genome size (ca. 5,000 Mb), the research resources needed for barley genomic studies have become available, including a large number of expressed sequence tags (ESTs). These have been widely used for barley genome analyses, such as DNA marker-generation and the construction of microarrays. However, the availability of a large-insert genomic library, which is also essential for genomic studies, has been relatively limited in the barley research community. We described here the construction and characterization of a barley bacterial artificial chromosome (BAC) library, using the Japanese malting barley variety 'Haruna Nijo'. The BAC library consisted of 294,912 clones arrayed in 768 384-well microtiter plates. The average size of each cloned insert was estimated to be 115.2 kb, with approximately 0.5% of the clones lacking inserts. Chroloplast DNAs were present in about 1.7% of the library. Thus, the genomic coverage of the 'Haruna Nijo' BAC library was estimated to be about 6.6 genome-equivalents. In order to rapidly identify specific BAC clones, we developed a screening strategy that combined PCR analysis of pooled BAC DNAs with colony hybridization. Using this screening scheme, we investigated the genomic coverage of this BAC library, using 13 locus-specific ESTs and a sequence-tagged site marker. By screening the whole library with individual markers, we identified an average of 5.1 clones per marker. This screening scheme also enabled us to rapidly construct a physical contig spanning a region of approx. 190 kb around the HvBRI1 locus, where the mutation responsible for the semi-dwarf plant type 'uzu' is located. These results indicate that the 'Haruna Nijo' BAC library will be useful for barley genomic studies.

Original languageEnglish
Pages (from-to)29-38
Number of pages10
JournalBreeding Science
Volume57
Issue number1
DOIs
Publication statusPublished - 2007

Fingerprint

Bacterial Artificial Chromosomes
malting barley
bacterial artificial chromosomes
Hordeum
barley
genomics
clones
screening
Clone Cells
expressed sequence tags
Expressed Sequence Tags
genome
Libraries
Sequence Tagged Sites
Genome
loci
Genome Size
genomic libraries
DNA
Genomic Library

Keywords

  • 'Haruna Nijo'
  • Bacterial artificial chromosome (BAC) library
  • DNA pool
  • Hordeum vulgare L.

ASJC Scopus subject areas

  • Agronomy and Crop Science
  • Plant Science

Cite this

Construction and characterization of a bacterial artificial chromosome (BAC) library from the Japanese malting barley variety 'Haruna Nijo'. / Saisho, Daisuke; Myoraku, Eriko; Kawasaki, Shinji; Sato, Kazuhiro; Takeda, Kazuyoshi.

In: Breeding Science, Vol. 57, No. 1, 2007, p. 29-38.

Research output: Contribution to journalArticle

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