Assaying gene content in Arabidopsis

被引:28
作者
Allen, KD [1 ]
机构
[1] Paradigm Genet, Bioinformat Dept, Res Triangle Pk, NC 27709 USA
关键词
D O I
10.1073/pnas.142126599
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Arabidopsis has been popular as a model plant system for decades. Completion of the Arabidopsis genome and the availability of large expressed sequence-tag collections from other dicot species provides an opportunity to assess gene content in Arabidopsis, specifically by identifying genes from dicot test species that are absent from Arabidopsis. I report here results from these sorts of comparisons, carried out in part to assess the extent to which Arabidopsis is representative of dicot genomes and also the degree to which gene loss and novel gene acquisition has accompanied angiosperm speciation. More than 10% of the contigs from each of three dicot test species have no detectable homologue in Arabidopsis. By means of cross comparison among the test species, 154 specific cases of gene loss in the lineage leading to Arabidopsis were identified, including several well characterized enzymes and a group of proteins with strong homologs in the photosynthetic bacterium Synechocystis. These results show that although Arabidopsis is broadly representative of the other dicot genomes, there seems to be substantial variation even among relatively closely related genera. Further, although we cannot yet draw a causative link, variation in actual gene content seems appears to be a feature of angiosperm speciation.
引用
收藏
页码:9568 / 9572
页数:5
相关论文
共 19 条
  • [1] ASSAYING ORNITHINE AND ARGININE DECARBOXYLASES IN SOME PLANT-SPECIES
    BIRECKA, H
    BITONTI, AJ
    MCCANN, PP
    [J]. PLANT PHYSIOLOGY, 1985, 79 (02) : 509 - 514
  • [2] SEQUESTERED END-PRODUCTS AND ENZYME REGULATION - THE CASE OF ORNITHINE DECARBOXYLASE
    DAVIS, RH
    MORRIS, DR
    COFFINO, P
    [J]. MICROBIOLOGICAL REVIEWS, 1992, 56 (02) : 280 - 290
  • [3] Hidden Markov models
    Eddy, SR
    [J]. CURRENT OPINION IN STRUCTURAL BIOLOGY, 1996, 6 (03) : 361 - 365
  • [4] A new fossil flower from the Turonian of New Jersey:: Dressiantha bicarpellata gen. et sp. nov. (Capparales)
    Gandolfo, MA
    Nixon, KC
    Crepet, WL
    [J]. AMERICAN JOURNAL OF BOTANY, 1998, 85 (07) : 964 - 974
  • [5] CAP3: A DNA sequence assembly program
    Huang, XQ
    Madan, A
    [J]. GENOME RESEARCH, 1999, 9 (09) : 868 - 877
  • [6] Differential induction by methyl jasmonate of genes encoding ornithine decarboxylase and other enzymes involved in nicotine biosynthesis in tobacco cell cultures
    Imanishi, S
    Hashizume, K
    Nakakita, M
    Kojima, H
    Matsubayashi, Y
    Hashimoto, T
    Sakagami, Y
    Yamada, Y
    Nakamura, K
    [J]. PLANT MOLECULAR BIOLOGY, 1998, 38 (06) : 1101 - 1111
  • [7] Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    Kaul, S
    Koo, HL
    Jenkins, J
    Rizzo, M
    Rooney, T
    Tallon, LJ
    Feldblyum, T
    Nierman, W
    Benito, MI
    Lin, XY
    Town, CD
    Venter, JC
    Fraser, CM
    Tabata, S
    Nakamura, Y
    Kaneko, T
    Sato, S
    Asamizu, E
    Kato, T
    Kotani, H
    Sasamoto, S
    Ecker, JR
    Theologis, A
    Federspiel, NA
    Palm, CJ
    Osborne, BI
    Shinn, P
    Conway, AB
    Vysotskaia, VS
    Dewar, K
    Conn, L
    Lenz, CA
    Kim, CJ
    Hansen, NF
    Liu, SX
    Buehler, E
    Altafi, H
    Sakano, H
    Dunn, P
    Lam, B
    Pham, PK
    Chao, Q
    Nguyen, M
    Yu, GX
    Chen, HM
    Southwick, A
    Lee, JM
    Miranda, M
    Toriumi, MJ
    Davis, RW
    [J]. NATURE, 2000, 408 (6814) : 796 - 815
  • [8] Comparing sequenced segments of the tomato and Arabidopsis genomes:: Large-scale duplication followed by selective gene loss creates a network of synteny
    Ku, HM
    Vision, T
    Liu, JP
    Tanksley, SD
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2000, 97 (16) : 9121 - 9126
  • [9] Molecular genetic analyses of plant polyamines
    Malmberg, RL
    Watson, MB
    Galloway, GL
    Yu, W
    [J]. CRITICAL REVIEWS IN PLANT SCIENCES, 1998, 17 (02) : 199 - 224
  • [10] Gene transfer to the nucleus and the evolution of chloroplasts
    Martin, W
    Stoebe, B
    Goremykin, V
    Hansmann, S
    Hasegawa, M
    Kowallik, KV
    [J]. NATURE, 1998, 393 (6681) : 162 - 165