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PMID: 10899971 Published · ppublish English Comparative Study Journal Article Review

Comparative sequence analysis of plant nuclear genomes:m microcolinearity and its many exceptions.

The Plant cell ·Vol. 12 ·No. 7 ·2000-07-00 ·Pages 1021-9

Bennetzen JL

Abstract

暂无摘要

MeSH Terms
Cell Nucleus/genetics Gene Duplication Genome, Plant Sequence Homology, Nucleic Acid
Authors & Affiliations
1 authors, click to expand affiliations / ORCID
Bennetzen J L
Department of Biological Sciences and Genetics Program, Purdue University, West Lafayette, Indiana 47907-1392, USA. [email protected]
References (66)
66 references, click to expand
  1. The significance of responses of the genome to challenge.
    Science. 1984 Nov 16;226(4676):792-801 PMID: 15739260
  2. Unequal exchange and meiotic instability of disease-resistance genes in the Rp1 region of maize.
    Genetics. 1993 Jan;133(1):119-25 PMID: 8417982
  3. The unified grass genome: synergy in synteny.
    Genome Res. 1997 Apr;7(4):301-6 PMID: 9110169
  4. Molecular evidence for an ancient duplication of the entire yeast genome.
    Nature. 1997 Jun 12;387(6634):708-13 PMID: 9192896
  5. DNA sequence evidence for the segmental allotetraploid origin of maize.
    Proc Natl Acad Sci U S A. 1997 Jun 24;94(13):6809-14 PMID: 11038553
  6. Clusters of resistance genes in plants evolve by divergent selection and a birth-and-death process.
    Genome Res. 1998 Nov;8(11):1113-30 PMID: 9847076
  7. Plant comparative genetics after 10 years.
    Science. 1998 Oct 23;282(5389):656-9 PMID: 9784118
  8. Towards map-based cloning of the barley stem rust resistance genes Rpg1 and rpg4 using rice as an intergenomic cloning vehicle.
    Plant Mol Biol. 1997 Sep;35(1-2):187-95 PMID: 9291972
  9. Arabidopsis-rice: will colinearity allow gene prediction across the eudicot-monocot divide?
    Genome Res. 1999 Sep;9(9):825-9 PMID: 10508840
  10. Genome size and the proportion of repeated nucleotide sequence DNA in plants.
    Biochem Genet. 1974 Oct;12(4):257-69 PMID: 4441361
  11. The paleontology of intergene retrotransposons of maize.
    Nat Genet. 1998 Sep;20(1):43-5 PMID: 9731528
  12. Genetic definition and sequence analysis of Arabidopsis centromeres.
    Science. 1999 Dec 24;286(5449):2468-74 PMID: 10617454
  13. Structural evolution of wheat chromosomes 4A, 5A, and 7B and its impact on recombination.
    Theor Appl Genet. 1995 Jul;91(2):282-8 PMID: 24169776
  14. Rapid reorganization of resistance gene homologues in cereal genomes.
    Proc Natl Acad Sci U S A. 1998 Jan 6;95(1):370-5 PMID: 9419382
  15. The Rp3 disease resistance gene of maize: mapping and characterization of introgressed alleles.
    Theor Appl Genet. 1995 Jul;91(1):25-32 PMID: 24169663
  16. A contiguous 60 kb genomic stretch from barley reveals molecular evidence for gene islands in a monocot genome.
    Nucleic Acids Res. 1998 Feb 15;26(4):1056-62 PMID: 9461468
  17. Grasses as a single genetic system: genome composition, collinearity and compatibility.
    Trends Genet. 1993 Aug;9(8):259-61 PMID: 8379002
  18. Selfish genes, the phenotype paradigm and genome evolution.
    Nature. 1980 Apr 17;284(5757):601-3 PMID: 6245369
  19. Retrotransposons of rice involved in mutations induced by tissue culture.
    Proc Natl Acad Sci U S A. 1996 Jul 23;93(15):7783-8 PMID: 8755553
  20. The evolution of disease resistance genes.
    Plant Mol Biol. 2000 Jan;42(1):195-204 PMID: 10688137
  21. High intrinsic rate of DNA loss in Drosophila.
    Nature. 1996 Nov 28;384(6607):346-9 PMID: 8934517
  22. Mobile genetic elements, chiasmata, and the unique organization of beta-heterochromatin.
    Cytogenet Cell Genet. 1998;80(1-4):113-6 PMID: 9678343
  23. DNA regions flanking the major Arabidopsis thaliana satellite are principally enriched in Athila retroelement sequences.
    Genetica. 1996 Mar;97(2):141-51 PMID: 8984010
  24. Transposable element contributions to plant gene and genome evolution.
    Plant Mol Biol. 2000 Jan;42(1):251-69 PMID: 10688140
  25. The complete sequence of a heterochromatic island from a higher eukaryote. The Cold Spring Harbor Laboratory, Washington University Genome Sequencing Center, and PE Biosystems Arabidopsis Sequencing Consortium.
    Cell. 2000 Feb 4;100(3):377-86 PMID: 10676819
  26. Grass genomes.
    Proc Natl Acad Sci U S A. 1998 Mar 3;95(5):1975-8 PMID: 9482817
  27. The complete sequence of 340 kb of DNA around the rice Adh1-adh2 region reveals interrupted colinearity with maize chromosome 4.
    Plant Cell. 2000 Mar;12(3):381-91 PMID: 10715324
  28. Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis.
    Proc Natl Acad Sci U S A. 2000 Apr 11;97(8):4168-73 PMID: 10759555
  29. Active maize genes are unmodified and flanked by diverse classes of modified, highly repetitive DNA.
    Genome. 1994 Aug;37(4):565-76 PMID: 7958822
  30. Mu1-related transposable elements of maize preferentially insert into low copy number DNA.
    Genetics. 1995 May;140(1):315-24 PMID: 7635296
  31. RFLP-based genetic maps of wheat homoeologous group 7 chromosomes.
    Theor Appl Genet. 1989 Oct;78(4):495-504 PMID: 24225676
  32. Sequence analysis of a rice BAC covering the syntenous barley Rpg1 region
    Genome. 1999 Dec;42(6):1071-6 PMID: 10659772
  33. Selfish DNA: the ultimate parasite.
    Nature. 1980 Apr 17;284(5757):604-7 PMID: 7366731
  34. Comparative mapping in Arabidopsis and Brassica, fine scale genome collinearity and congruence of genes controlling flowering time.
    Plant J. 1996 Jan;9(1):13-20 PMID: 8580970
  35. Genetic mapping and characterization of sorghum and related crops by means of maize DNA probes.
    Proc Natl Acad Sci U S A. 1990 Jun;87(11):4251-5 PMID: 1971947
  36. Sequence organization and conservation in sh2/a1-homologous regions of sorghum and rice.
    Genetics. 1998 Jan;148(1):435-43 PMID: 9475753
  37. Arabidopsis thaliana: a model plant for genome analysis.
    Science. 1998 Oct 23;282(5389):662, 679-82 PMID: 9784120
  38. Gene identification in a complex chromosomal continuum by local genomic cross-referencing.
    Plant J. 1996 Dec;10(6):1163-8 PMID: 9011097
  39. Do Plants Have a One-Way Ticket to Genomic Obesity?
    Plant Cell. 1997 Sep;9(9):1509-1514 PMID: 12237393
  40. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.
    Nature. 1999 Dec 16;402(6763):761-8 PMID: 10617197
  41. Sequence composition and organization in the Sh2/A1-homologous region of rice.
    Plant Mol Biol. 1996 Dec;32(6):999-1001 PMID: 9002598
  42. Correlation of Nuclear Volume and DNA Content with Higher Plant Tolerance to Chronic Radiation.
    Science. 1961 Jul 28;134(3474):282-3 PMID: 17798818
  43. Chromosomal rearrangements in the rye genome relative to that of wheat.
    Theor Appl Genet. 1993 Feb;85(6-7):673-80 PMID: 24196035
  44. Amplicons of maize zein genes are conserved within genic but expanded and constricted in intergenic regions.
    Plant J. 1998 Jul;15(2):211-20 PMID: 9721679
  45. Identification of the genomic locations of duplicate nucleotide sequences in maize by analysis of restriction fragment length polymorphisms.
    Genetics. 1988 Feb;118(2):353-63 PMID: 17246413
  46. LTR-retrotransposons and MITEs: important players in the evolution of plant genomes.
    Curr Opin Genet Dev. 1995 Dec;5(6):814-21 PMID: 8745082
  47. Complex structure of knob DNA on maize chromosome 9. Retrotransposon invasion into heterochromatin.
    Genetics. 1998 Aug;149(4):2025-37 PMID: 9691055
  48. Evidence for orthologous seed weight genes in cowpea and mung bean based on RFLP mapping.
    Genetics. 1992 Nov;132(3):841-6 PMID: 1361476
  49. Convergent domestication of cereal crops by independent mutations at corresponding genetic Loci.
    Science. 1995 Sep 22;269(5231):1714-8 PMID: 17821643
  50. A conserved repetitive DNA element located in the centromeres of cereal chromosomes.
    Proc Natl Acad Sci U S A. 1996 Nov 26;93(24):14210-3 PMID: 8943086
  51. RFLP Maps Based on a Common Set of Clones Reveal Modes of Chromosomal Evolution in Potato and Tomato.
    Genetics. 1988 Dec;120(4):1095-103 PMID: 17246486
  52. Conservation of fine-scale DNA marker order in the genomes of rice and the Triticeae.
    Nucleic Acids Res. 1995 Jul 25;23(14):2724-8 PMID: 7651833
  53. Cereal genome evolution. Grasses, line up and form a circle.
    Curr Biol. 1995 Jul 1;5(7):737-9 PMID: 7583118
  54. Nested retrotransposons in the intergenic regions of the maize genome.
    Science. 1996 Nov 1;274(5288):765-8 PMID: 8864112
  55. Structural analysis of Arabidopsis thaliana chromosome 5. IX. Sequence features of the regions of 1,011,550 bp covered by seventeen P1 and TAC clones.
    DNA Res. 1999 Jun 30;6(3):183-95 PMID: 10470850
  56. Extensive duplication and reshuffling in the Arabidopsis genome.
    Plant Cell. 2000 Jul;12(7):1093-101 PMID: 10899976
  57. Identification and analysis of homoeologous segments of the genomes of rice and Arabidopsis thaliana.
    Genome. 1999 Oct;42(5):887-92 PMID: 10584310
  58. Comparative mapping between Arabidopsis thaliana and Brassica nigra indicates that Brassica genomes have evolved through extensive genome replication accompanied by chromosome fusions and frequent rearrangements.
    Genetics. 1998 Nov;150(3):1217-28 PMID: 9799273
  59. Integrated cytogenetic map of chromosome arm 4S of A. thaliana: structural organization of heterochromatic knob and centromere region.
    Cell. 2000 Feb 4;100(3):367-76 PMID: 10676818
  60. Ancient large-scale genome duplications: phylogenetic and linkage analyses shed light on chordate genome evolution.
    Mol Biol Evol. 1998 Sep;15(9):1145-59 PMID: 9729879
  61. High gene density is conserved at syntenic loci of small and large grass genomes.
    Proc Natl Acad Sci U S A. 1999 Jul 6;96(14):8265-70 PMID: 10393983
  62. Colinearity and its exceptions in orthologous adh regions of maize and sorghum.
    Proc Natl Acad Sci U S A. 1999 Jun 22;96(13):7409-14 PMID: 10377428
  63. Toward a unified genetic map of higher plants, transcending the monocot-dicot divergence.
    Nat Genet. 1996 Dec;14(4):380-2 PMID: 8944014
  64. Genome evolution in polyploids.
    Plant Mol Biol. 2000 Jan;42(1):225-49 PMID: 10688139
  65. Homoeologous relationships of rice, wheat and maize chromosomes.
    Mol Gen Genet. 1993 Dec;241(5-6):483-90 PMID: 7903411
  66. Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor Appl Genet. 1994 Aug;88(6-7):722-6 PMID: 24186168
Article Info
Journal
The Plant cell
Abbr.
Plant Cell
ISSN
1040-4651
Published
2000-07-00
Pages
1021-9
Language
English
Region
England
NLM ID
9208688
PMCID
PMC149046
Subset
IM
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