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Nucleic Acids Res. 1998 Feb 15; 26(4): 1056–1062.
PMCID: PMC147355

A contiguous 60 kb genomic stretch from barley reveals molecular evidence for gene islands in a monocot genome.


The contiguous DNA sequence of a 60 kb genomic interval of barley chromosome 4HL has been assembled. The region harbours a single and novel gypsy -like retrotransposon, designated BAGY-1. Only three genes appear to reside in the genomic stretch. One predicts a plant homologue of ribophorin I, a subunit of the oligosaccharyltransferase-protein complex located in the rough endoplasmatic reticulum. The second is similar to the Drosophila g1 gene encoding a ring finger protein involved in developmental processes. The observed gene density is approximately 5-fold lower than in the best characterized dicot genome of Arabidopsis but 6- to 10-fold higher than expected from an equidistant gene distribution in the complex barley genome. Our data suggest that the 60 kb genomic interval represents part of a gene island, a seemingly distinctive feature of grass genomes.

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  • Le Guen L, Thomas M, Kreis M. Gene density and organization in a small region of the Arabidopsis thaliana genome. Mol Gen Genet. 1994 Nov 1;245(3):390–396. [PubMed]
  • Quigley F, Dao P, Cottet A, Mache R. Sequence analysis of an 81 kb contig from Arabidopsis thaliana chromosome III. Nucleic Acids Res. 1996 Nov 1;24(21):4313–4318. [PMC free article] [PubMed]
  • Tremousaygue D, Bardet C, Dabos P, Regad F, Pelese F, Nazer R, Gander E, Lescure B. Genome DNA sequencing around the EF-1 alpha multigene locus of Arabidopsis thaliana indicates a high gene density and a shuffling of noncoding regions. Genome Res. 1997 Mar;7(3):198–209. [PubMed]
  • Moore G, Devos KM, Wang Z, Gale MD. Cereal genome evolution. Grasses, line up and form a circle. Curr Biol. 1995 Jul 1;5(7):737–739. [PubMed]
  • SanMiguel P, Tikhonov A, Jin YK, Motchoulskaia N, Zakharov D, Melake-Berhan A, Springer PS, Edwards KJ, Lee M, Avramova Z, et al. Nested retrotransposons in the intergenic regions of the maize genome. Science. 1996 Nov 1;274(5288):765–768. [PubMed]
  • Carels N, Barakat A, Bernardi G. The gene distribution of the maize genome. Proc Natl Acad Sci U S A. 1995 Nov 21;92(24):11057–11060. [PMC free article] [PubMed]
  • Barakat A, Carels N, Bernardi G. The distribution of genes in the genomes of Gramineae. Proc Natl Acad Sci U S A. 1997 Jun 24;94(13):6857–6861. [PMC free article] [PubMed]
  • Büschges R, Hollricher K, Panstruga R, Simons G, Wolter M, Frijters A, van Daelen R, van der Lee T, Diergaarde P, Groenendijk J, et al. The barley Mlo gene: a novel control element of plant pathogen resistance. Cell. 1997 Mar 7;88(5):695–705. [PubMed]
  • Crimaudo C, Hortsch M, Gausepohl H, Meyer DI. Human ribophorins I and II: the primary structure and membrane topology of two highly conserved rough endoplasmic reticulum-specific glycoproteins. EMBO J. 1987 Jan;6(1):75–82. [PMC free article] [PubMed]
  • Harnik-Ort V, Prakash K, Marcantonio E, Colman DR, Rosenfeld MG, Adesnik M, Sabatini DD, Kreibich G. Isolation and characterization of cDNA clones for rat ribophorin I: complete coding sequence and in vitro synthesis and insertion of the encoded product into endoplasmic reticulum membranes. J Cell Biol. 1987 Apr;104(4):855–863. [PMC free article] [PubMed]
  • Silberstein S, Collins PG, Kelleher DJ, Rapiejko PJ, Gilmore R. The alpha subunit of the Saccharomyces cerevisiae oligosaccharyltransferase complex is essential for vegetative growth of yeast and is homologous to mammalian ribophorin I. J Cell Biol. 1995 Feb;128(4):525–536. [PMC free article] [PubMed]
  • Kelleher DJ, Kreibich G, Gilmore R. Oligosaccharyltransferase activity is associated with a protein complex composed of ribophorins I and II and a 48 kd protein. Cell. 1992 Apr 3;69(1):55–65. [PubMed]
  • Bouchard ML, Côté S. The Drosophila melanogaster developmental gene g1 encodes a variant zinc-finger-motif protein. Gene. 1993 Mar 30;125(2):205–209. [PubMed]
  • Manninen I, Schulman AH. BARE-1, a copia-like retroelement in barley (Hordeum vulgare L.). Plant Mol Biol. 1993 Aug;22(5):829–846. [PubMed]
  • Grandbastien MA. Retroelements in higher plants. Trends Genet. 1992 Mar;8(3):103–108. [PubMed]
  • Bennetzen JL. The contributions of retroelements to plant genome organization, function and evolution. Trends Microbiol. 1996 Sep;4(9):347–353. [PubMed]
  • Smyth DR, Kalitsis P, Joseph JL, Sentry JW. Plant retrotransposon from Lilium henryi is related to Ty3 of yeast and the gypsy group of Drosophila. Proc Natl Acad Sci U S A. 1989 Jul;86(13):5015–5019. [PMC free article] [PubMed]
  • Purugganan MD, Wessler SR. Molecular evolution of magellan, a maize Ty3/gypsy-like retrotransposon. Proc Natl Acad Sci U S A. 1994 Nov 22;91(24):11674–11678. [PMC free article] [PubMed]
  • Knoop V, Unseld M, Marienfeld J, Brandt P, Sünkel S, Ullrich H, Brennicke A. copia-, gypsy- and LINE-like retrotransposon fragments in the mitochondrial genome of Arabidopsis thaliana. Genetics. 1996 Feb;142(2):579–585. [PMC free article] [PubMed]
  • Larsen F, Gundersen G, Lopez R, Prydz H. CpG islands as gene markers in the human genome. Genomics. 1992 Aug;13(4):1095–1107. [PubMed]
  • Cross SH, Bird AP. CpG islands and genes. Curr Opin Genet Dev. 1995 Jun;5(3):309–314. [PubMed]
  • Fickett JW. Finding genes by computer: the state of the art. Trends Genet. 1996 Aug;12(8):316–320. [PubMed]
  • Miklos GL, Rubin GM. The role of the genome project in determining gene function: insights from model organisms. Cell. 1996 Aug 23;86(4):521–529. [PubMed]
  • Montero LM, Salinas J, Matassi G, Bernardi G. Gene distribution and isochore organization in the nuclear genome of plants. Nucleic Acids Res. 1990 Apr 11;18(7):1859–1867. [PMC free article] [PubMed]
  • Bernardi G. The human genome: organization and evolutionary history. Annu Rev Genet. 1995;29:445–476. [PubMed]
  • Antequera F, Bird AP. Unmethylated CpG islands associated with genes in higher plant DNA. EMBO J. 1988 Aug;7(8):2295–2299. [PMC free article] [PubMed]
  • Langdale JA, Taylor WC, Nelson T. Cell-specific accumulation of maize phosphoenolpyruvate carboxylase is correlated with demethylation at a specific site greater than 3 kb upstream of the gene. Mol Gen Genet. 1991 Jan;225(1):49–55. [PubMed]
  • Sørensen MB, Müller M, Skerritt J, Simpson D. Hordein promoter methylation and transcriptional activity in wild-type and mutant barley endosperm. Mol Gen Genet. 1996 Apr 10;250(6):750–760. [PubMed]
  • SWARTZ MN, TRAUTNER TA, KORNBERG A. Enzymatic synthesis of deoxyribonucleic acid. XI. Further studies on nearest neighbor base sequences in deoxyribonucleic acids. J Biol Chem. 1962 Jun;237:1961–1967. [PubMed]

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  • Nucleotide
    Primary database (GenBank) nucleotide records reported in the current articles as well as Reference Sequences (RefSeqs) that include the articles as references.
  • Protein
    Protein translation features of primary database (GenBank) nucleotide records reported in the current articles as well as Reference Sequences (RefSeqs) that include the articles as references.
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