Teshima KM, Innan H: The effect of gene conversion on the divergence between duplicated genes. Genetics. 2004, 166 (3): 1553-1560. 10.1534/genetics.166.3.1553.
Article
PubMed
CAS
PubMed Central
Google Scholar
Weiss EH, Mellor A, Golden L, Fahrner K, Simpson E, Hurst J, Flavell RA: The Structure of a Mutant H-2-Gene Suggests That the Generation of Polymorphism in H-2 Genes May Occur by Gene Conversion-Like Events. Nature. 1983, 301 (5902): 671-674. 10.1038/301671a0.
Article
PubMed
CAS
Google Scholar
Martinsohn JT, Sousa AB, Guethlein LA, Howard JC: The gene conversion hypothesis of MHC evolution: a review. Immunogenetics. 1999, 50 (3–4): 168-200. 10.1007/s002510050593.
Article
PubMed
CAS
Google Scholar
Richman AD, Herrera LG, Nash D, Schierup MH: Relative roles of mutation and recombination in generating allelic polymorphism at an MHC class II locus in Peromyseus maniculatus. Genet Res. 2003, 82 (2): 89-99. 10.1017/S0016672303006347.
Article
PubMed
CAS
Google Scholar
Petes TD, Hill CW: Recombination between Repeated Genes in Microorganisms. Annu Rev Genet. 1988, 22: 147-168. 10.1146/annurev.ge.22.120188.001051.
Article
PubMed
CAS
Google Scholar
Drouin G: Characterization of the gene conversions between the multigene family members of the yeast genome. J Mol Evol. 2002, 55 (1): 14-23. 10.1007/s00239-001-0085-y.
Article
PubMed
CAS
Google Scholar
Semple C, Wolfe KH: Gene duplication and gene conversion in the Caenorhabditis elegans genome. J Mol Evol. 1999, 48 (5): 555-564. 10.1007/PL00006498.
Article
PubMed
CAS
Google Scholar
Ezawa K, S OO, Saitou N: Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Genome-wide search of gene conversions in duplicated genes of mouse and rat. Mol Biol Evol. 2006, 23 (5): 927-940. 10.1093/molbev/msj093.
Article
PubMed
CAS
Google Scholar
Padhukasahasram B, Marjoram P, Nordborg M: Estimating the rate of gene conversion on human chromosome 21. Am J Hum Genet. 2004, 75 (3): 386-397. 10.1086/423451.
Article
PubMed
CAS
PubMed Central
Google Scholar
Jeffreys AJ, May CA: Intense and highly localized gene conversion activity in human meiotic crossover hot spots. Nat Genet. 2004, 36 (2): 151-156. 10.1038/ng1287.
Article
PubMed
CAS
Google Scholar
Rozen S, Skaletsky H, Marszalek JD, Minx PJ, Cordum HS, Waterston RH, Wilson RK, Page DC: Abundant gene conversion between arms of palindromes in human and ape Y chromosomes. Nature. 2003, 423 (6942): 873-876. 10.1038/nature01723.
Article
PubMed
CAS
Google Scholar
Bosch E, Hurles ME, Navarro A, Jobling MA: Dynamics of a human interparalog gene conversion hotspot. Genome Res. 2004, 14 (5): 835-844. 10.1101/gr.2177404.
Article
PubMed
CAS
PubMed Central
Google Scholar
Mondragon-Palomino M, Gaut BS: Gene conversion and the evolution of three leucine-rich repeat gene families in Arabidopsis thaliana. Mol Biol Evol. 2005, 22 (12): 2444-2456. 10.1093/molbev/msi241.
Article
PubMed
CAS
Google Scholar
Haubold B, Kroymann J, Ratzka A, Mitchell-Olds T, Wiehe T: Recombination and gene conversion in a 170-kb genomic region of Arabidopsis thaliana. Genetics. 2002, 161 (3): 1269-1278.
PubMed
CAS
PubMed Central
Google Scholar
Yu J, Hu SN, Wang J, Wong GKS, Li SG, Liu B, Deng YJ, Dai L, Zhou Y, Zhang XQ, et al: A draft sequence of the rice genome (Oryza sativa L. ssp indica). Science. 2002, 296 (5565): 79-92. 10.1126/science.1068037.
Article
PubMed
CAS
Google Scholar
Yu J, Wang J, Lin W, Li SG, Li H, Zhou J, Ni PX, Dong W, Hu SN, Zeng CQ, et al: The Genomes of Oryza sativa: A history of duplications. PLoS Biol. 2005, 3 (2): e38-. 10.1371/journal.pbio.0030038. Epub 2005 Feb 1.
Article
PubMed
PubMed Central
Google Scholar
The map-based sequence of the rice genome. Nature. 2005, 436 (7052): 793-800. 10.1038/nature03895.
Modrich P, Lahue R: Mismatch repair in replication fidelity, genetic recombination, and cancer biology. Annu Rev Biochem. 1996, 65: 101-133. 10.1146/annurev.bi.65.070196.000533.
Article
PubMed
CAS
Google Scholar
Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Edgar R, Federhen S, et al: Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2007, D5-12. 10.1093/nar/gkl1031. 35 Database
Gaut BS, Morton BR, McCaig BC, Clegg MT: Substitution rate comparisons between grasses and palms: Synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc Natl Acad Sci USA. 1996, 93 (19): 10274-10279. 10.1073/pnas.93.19.10274.
Article
PubMed
CAS
PubMed Central
Google Scholar
Laxalt AM, Munnik T: Phospholipid signalling in plant defence. Curr Opin Plant Biol. 2002, 5 (4): 332-338. 10.1016/S1369-5266(02)00268-6.
Article
PubMed
CAS
Google Scholar
Hayakawa T, Angata T, Lewis AL, Mikkelsen TS, Varki NM, Varki A: A human-specific gene in microglia. Science. 2005, 309 (5741): 1693-1693.
PubMed
CAS
Google Scholar
Balakirev ES, Ayala FJ: Pseudogenes: are they "junk" or functional DNA?. Annu Rev Genet. 2003, 37: 123-151. 10.1146/annurev.genet.37.040103.103949.
Article
PubMed
CAS
Google Scholar
Parniske M, HammondKosack KE, Golstein C, Thomas CM, Jones DA, Harrison K, Wulff BBH, Jones JDG: Novel disease resistance specificities result from sequence exchange between tandemly repeated genes at the Cf-4/9 locus of tomato. Cell. 1997, 91 (6): 821-832. 10.1016/S0092-8674(00)80470-5.
Article
PubMed
CAS
Google Scholar
Wong WSW, Yang ZH, Goldman N, Nielsen R: Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics. 2004, 168 (2): 1041-1051. 10.1534/genetics.104.031153.
Article
PubMed
CAS
PubMed Central
Google Scholar
Kuang H, Woo SS, Meyers BC, Nevo E, Michelmore RW: Multiple genetic processes result in heterogeneous rates of evolution within the major cluster disease resistance genes in lettuce. Plant Cell. 2004, 16 (11): 2870-2894. 10.1105/tpc.104.025502.
Article
PubMed
CAS
PubMed Central
Google Scholar
Zimmer EA, Martin SL, Beverley SM, Kan YW, Wilson AC: Rapid Duplication and Loss of Genes-Coding for the Alpha-Chains of Hemoglobin. Proc Natl Acad Sci USA. 1980, 77 (4): 2158-2162. 10.1073/pnas.77.4.2158.
Article
PubMed
CAS
PubMed Central
Google Scholar
Ohta T: Role of Diversifying Selection and Gene Conversion in Evolution of Major Histocompatibility Complex Loci. Proc Natl Acad Sci USA. 1991, 88 (15): 6716-6720. 10.1073/pnas.88.15.6716.
Article
PubMed
CAS
PubMed Central
Google Scholar
Ohta T: Role of gene conversion in generating polymorphisms at major histocompatibility complex loci. Hereditas. 1997, 127 (1–2): 97-103. 10.1111/j.1601-5223.1997.00097.x.
PubMed
CAS
Google Scholar
Kikuchi S, Satoh K, Nagata T, Kawagashira N, Doi K, Kishimoto N, Yazaki J, Ishikawa M, Yamada H, Ooka H, et al: Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science. 2003, 301 (5631): 376-379. 10.1126/science.1081288.
Article
PubMed
Google Scholar
Kent WJ: BLAT – the BLAST-like alignment tool. Genome Res. 2002, 12 (4): 656-664. 10.1101/gr.229202. Article published online before March 2002.
Article
PubMed
CAS
PubMed Central
Google Scholar
Jurka J: Repeats in genomic DNA: mining and meaning. Curr Opin Struct Biol. 1998, 8 (3): 333-337. 10.1016/S0959-440X(98)80067-5.
Article
PubMed
CAS
Google Scholar
Wang W, Zheng HK, Fan CZ, Li J, Shi JJ, Cai ZQ, Zhang GJ, Liu DY, Zhang JG, Vang S, et al: High rate of chimeric gene origination by retroposition in plant genomes. Plant Cell. 2006, 18 (8): 1791-1802. 10.1105/tpc.106.041905.
Article
PubMed
CAS
PubMed Central
Google Scholar
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215 (3): 403-410.
Article
PubMed
CAS
Google Scholar
Zheng H, Shi J, Fang X, Li Y, Vang S, Fan W, Wang J, Zhang Z, Wang W, Kristiansen K, et al: FGF: a web tool for Fishing Gene Family in a whole genome database. Nucleic Acids Res. 2007, W121-125. 10.1093/nar/gkm426. 35 Web Server
Birney E, Durbin R: Using GeneWise in the Drosophila annotation experiment. Genome Res. 2000, 10 (4): 547-548. 10.1101/gr.10.4.547.
Article
PubMed
CAS
PubMed Central
Google Scholar
Sawyer S: Statistical Tests for Detecting Gene Conversion. Mol Biol Evol. 1989, 6 (5): 526-538.
PubMed
CAS
Google Scholar
Li WH: Unbiased Estimation of the Rates of Synonymous and Nonsynonymous Substitution. J Mol Evol. 1993, 36 (1): 96-99. 10.1007/BF02407308.
Article
PubMed
CAS
Google Scholar
NCBI. [http://www.ncbi.nlm.nih.gov/]