메뉴 건너뛰기




Volumn 26, Issue 7, 2017, Pages 2041-2062

Widespread selective sweeps throughout the genome of model plant pathogenic fungi and identification of effector candidates

Author keywords

arms race; co evolution; effectors; GC content; linked selection; Microbotryum violaceum

Indexed keywords

FUNGAL DNA;

EID: 85011340482     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.13976     Document Type: Article
Times cited : (62)

References (111)
  • 1
    • 80053359585 scopus 로고    scopus 로고
    • The genome of the green anole lizard and a comparative analysis with birds and mammals
    • Alföldi J, Di Palma F, Grabherr M et al. (2011) The genome of the green anole lizard and a comparative analysis with birds and mammals. Nature, 477, 587–591.
    • (2011) Nature , vol.477 , pp. 587-591
    • Alföldi, J.1    Di Palma, F.2    Grabherr, M.3
  • 2
    • 84857551173 scopus 로고    scopus 로고
    • Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity
    • Andersen EC, Gerke JP, Shapiro JA et al. (2012) Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nature Genetics, 44, 285–290.
    • (2012) Nature Genetics , vol.44 , pp. 285-290
    • Andersen, E.C.1    Gerke, J.P.2    Shapiro, J.A.3
  • 3
    • 4544348578 scopus 로고    scopus 로고
    • Emerging infectious diseases of plants: pathogen pollution, climate change and agrotechnology drivers
    • Anderson PK, Cunningham AA, Patel NG et al. (2004) Emerging infectious diseases of plants: pathogen pollution, climate change and agrotechnology drivers. Trends in Ecology & Evolution, 19, 535–544.
    • (2004) Trends in Ecology & Evolution , vol.19 , pp. 535-544
    • Anderson, P.K.1    Cunningham, A.A.2    Patel, N.G.3
  • 4
    • 84905276956 scopus 로고    scopus 로고
    • Parasitic castration promotes coevolutionary cycling but also imposes a cost on sex
    • Ashby B, Gupta S (2014) Parasitic castration promotes coevolutionary cycling but also imposes a cost on sex. Evolution; International Journal of Organic Evolution, 68, 2234–2244.
    • (2014) Evolution; International Journal of Organic Evolution , vol.68 , pp. 2234-2244
    • Ashby, B.1    Gupta, S.2
  • 5
    • 34547617172 scopus 로고    scopus 로고
    • Recombination rate estimation in the presence of hotspots
    • Auton A, McVean G (2007) Recombination rate estimation in the presence of hotspots. Genome Research, 17, 1219–1227.
    • (2007) Genome Research , vol.17 , pp. 1219-1227
    • Auton, A.1    McVean, G.2
  • 6
    • 84939453825 scopus 로고    scopus 로고
    • Chaos of rearrangements in the mating-type chromosomes of the anther-smut fungus Microbotryum lychnidis-dioicae
    • Badouin H, Hood ME, Gouzy J et al. (2015) Chaos of rearrangements in the mating-type chromosomes of the anther-smut fungus Microbotryum lychnidis-dioicae. Genetics, 200, 1275–1284.
    • (2015) Genetics , vol.200 , pp. 1275-1284
    • Badouin, H.1    Hood, M.E.2    Gouzy, J.3
  • 8
    • 68149120587 scopus 로고    scopus 로고
    • Silene as a model system in ecology and evolution
    • Bernasconi G, Antonovics J, Biere A et al. (2009) Silene as a model system in ecology and evolution. Heredity, 103, 5–14.
    • (2009) Heredity , vol.103 , pp. 5-14
    • Bernasconi, G.1    Antonovics, J.2    Biere, A.3
  • 9
    • 79955577378 scopus 로고    scopus 로고
    • The coupling hypothesis: why genome scans may fail to map local adaptation genes
    • Bierne N, Welch J, Loire E, Bonhomme F, David P (2011) The coupling hypothesis: why genome scans may fail to map local adaptation genes. Molecular Ecology, 20, 2044–2072.
    • (2011) Molecular Ecology , vol.20 , pp. 2044-2072
    • Bierne, N.1    Welch, J.2    Loire, E.3    Bonhomme, F.4    David, P.5
  • 10
    • 84965134822 scopus 로고    scopus 로고
    • Genomic signature of selective sweeps illuminates adaptation of Medicago truncatula to root-associated microorganisms
    • Bonhomme M, Boitard S, Clemente HS et al. (2015) Genomic signature of selective sweeps illuminates adaptation of Medicago truncatula to root-associated microorganisms. Molecular Biology and Evolution, 32, 2097–2110.
    • (2015) Molecular Biology and Evolution , vol.32 , pp. 2097-2110
    • Bonhomme, M.1    Boitard, S.2    Clemente, H.S.3
  • 11
    • 84996538942 scopus 로고    scopus 로고
    • Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes
    • Branco S, Bi K, Liao HL et al. (2017) Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes. Molecular Ecology, 26, 2063–2076.
    • (2017) Molecular Ecology , vol.26 , pp. 2063-2076
    • Branco, S.1    Bi, K.2    Liao, H.L.3
  • 12
    • 84946553571 scopus 로고    scopus 로고
    • Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers
    • Burri R, Nater A, Kawakami T et al. (2015) Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers. Genome Research, 25, 1656–1665.
    • (2015) Genome Research , vol.25 , pp. 1656-1665
    • Burri, R.1    Nater, A.2    Kawakami, T.3
  • 13
    • 0030728110 scopus 로고    scopus 로고
    • Anther-smut disease in Silene dioica: variation in susceptibility among genotypes and populations, and patterns of disease within populations
    • Carlsson-Granér U (1997) Anther-smut disease in Silene dioica: variation in susceptibility among genotypes and populations, and patterns of disease within populations. Evolution, 51, 1416–1426.
    • (1997) Evolution , vol.51 , pp. 1416-1426
    • Carlsson-Granér, U.1
  • 15
    • 84946900562 scopus 로고    scopus 로고
    • The impact of recombination hotspots on genome evolution of a fungal plant pathogen
    • Croll D, Lendenmann MH, Stewart E, McDonald BA (2015) The impact of recombination hotspots on genome evolution of a fungal plant pathogen. Genetics, 201, 1213–1228.
    • (2015) Genetics , vol.201 , pp. 1213-1228
    • Croll, D.1    Lendenmann, M.H.2    Stewart, E.3    McDonald, B.A.4
  • 16
    • 0038305577 scopus 로고    scopus 로고
    • Selection at linked sites in the partial selfer Caenorhabditis elegans
    • Cutter AD, Payseur BA (2003) Selection at linked sites in the partial selfer Caenorhabditis elegans. Molecular Biology and Evolution, 20, 665–673.
    • (2003) Molecular Biology and Evolution , vol.20 , pp. 665-673
    • Cutter, A.D.1    Payseur, B.A.2
  • 17
    • 70350236484 scopus 로고    scopus 로고
    • Biased gene conversion and the evolution of mammalian genomic landscapes
    • Duret L, Galtier N (2009) Biased gene conversion and the evolution of mammalian genomic landscapes. Annual Review of Genomics and Human Genetics, 10, 285–311.
    • (2009) Annual Review of Genomics and Human Genetics , vol.10 , pp. 285-311
    • Duret, L.1    Galtier, N.2
  • 18
    • 33751511707 scopus 로고    scopus 로고
    • A new perspective on isochore evolution
    • Duret L, Eyre-Walker A, Galtier N (2006) A new perspective on isochore evolution. Gene, 385, 71–74.
    • (2006) Gene , vol.385 , pp. 71-74
    • Duret, L.1    Eyre-Walker, A.2    Galtier, N.3
  • 20
    • 77955381733 scopus 로고    scopus 로고
    • MSMS: a coalescent simulation program including recombination, demographic structure and selection at a single locus
    • Ewing G, Hermisson J (2010) MSMS: a coalescent simulation program including recombination, demographic structure and selection at a single locus. Bioinformatics, 26, 2064–2065.
    • (2010) Bioinformatics , vol.26 , pp. 2064-2065
    • Ewing, G.1    Hermisson, J.2
  • 21
    • 84866943611 scopus 로고    scopus 로고
    • Copper at the front line of the host-pathogen battle
    • Festa RA, Thiele DJ (2012) Copper at the front line of the host-pathogen battle. PLoS Pathogens, 8, e1002887.
    • (2012) PLoS Pathogens , vol.8
    • Festa, R.A.1    Thiele, D.J.2
  • 22
    • 84983002252 scopus 로고    scopus 로고
    • Strong phylogeographic co-structure between the anther-smut fungus and its white campion host
    • Feurtey A, Gladieux P, Hood ME et al. (2016) Strong phylogeographic co-structure between the anther-smut fungus and its white campion host. The New Phytologist, 212, 668–679.
    • (2016) The New Phytologist , vol.212 , pp. 668-679
    • Feurtey, A.1    Gladieux, P.2    Hood, M.E.3
  • 23
    • 84924992957 scopus 로고    scopus 로고
    • Degeneration of the nonrecombining regions in the mating-type chromosomes of the anther-smut fungi
    • Fontanillas E, Hood ME, Badouin H et al. (2015) Degeneration of the nonrecombining regions in the mating-type chromosomes of the anther-smut fungi. Molecular Biology and Evolution, 32, 928–943.
    • (2015) Molecular Biology and Evolution , vol.32 , pp. 928-943
    • Fontanillas, E.1    Hood, M.E.2    Badouin, H.3
  • 25
    • 84861698308 scopus 로고    scopus 로고
    • Sibling competition arena: selfing and a competition arena can combine to constitute a barrier to gene flow in sympatry
    • Gibson AK, Hood ME, Giraud T (2012) Sibling competition arena: selfing and a competition arena can combine to constitute a barrier to gene flow in sympatry. Evolution; International Journal of Organic Evolution, 66, 1917–1930.
    • (2012) Evolution; International Journal of Organic Evolution , vol.66 , pp. 1917-1930
    • Gibson, A.K.1    Hood, M.E.2    Giraud, T.3
  • 27
    • 21244484650 scopus 로고    scopus 로고
    • Selfing propensity under choice conditions in a parasitic fungus, Microbotryum violaceum, and parameters influencing infection success in artificial inoculations
    • Giraud T, Odile J, Shykoff JA (2005) Selfing propensity under choice conditions in a parasitic fungus, Microbotryum violaceum, and parameters influencing infection success in artificial inoculations. International Journal of Plant Sciences, 166, 649–657.
    • (2005) International Journal of Plant Sciences , vol.166 , pp. 649-657
    • Giraud, T.1    Odile, J.2    Shykoff, J.A.3
  • 28
  • 29
    • 38949175704 scopus 로고    scopus 로고
    • Isolation of 60 polymorphic microsatellite loci in EST libraries of four sibling species of the phytopathogenic fungal complex Microbotryum
    • Giraud T, Yockteng R, Marthey S et al. (2008b) Isolation of 60 polymorphic microsatellite loci in EST libraries of four sibling species of the phytopathogenic fungal complex Microbotryum. Molecular Ecology Resources, 8, 387–392.
    • (2008) Molecular Ecology Resources , vol.8 , pp. 387-392
    • Giraud, T.1    Yockteng, R.2    Marthey, S.3
  • 30
    • 77954815758 scopus 로고    scopus 로고
    • Linking the emergence of fungal plant diseases with ecological speciation
    • Giraud T, Gladieux P, Gavrilets S (2010) Linking the emergence of fungal plant diseases with ecological speciation. Trends in Ecology & Evolution, 25, 387–395.
    • (2010) Trends in Ecology & Evolution , vol.25 , pp. 387-395
    • Giraud, T.1    Gladieux, P.2    Gavrilets, S.3
  • 31
    • 78650492295 scopus 로고    scopus 로고
    • Maintenance of fungal pathogen species that are specialized to different hosts: allopatric divergence and introgression through secondary contact
    • Gladieux P, Vercken E, Fontaine MC et al. (2011) Maintenance of fungal pathogen species that are specialized to different hosts: allopatric divergence and introgression through secondary contact. Molecular Biology and Evolution, 28, 459–471.
    • (2011) Molecular Biology and Evolution , vol.28 , pp. 459-471
    • Gladieux, P.1    Vercken, E.2    Fontaine, M.C.3
  • 32
    • 84895008374 scopus 로고    scopus 로고
    • Fungal evolutionary genomics provides insight into the mechanisms of adaptive divergence in eukaryotes
    • Gladieux P, Ropars J, Badouin H et al. (2014) Fungal evolutionary genomics provides insight into the mechanisms of adaptive divergence in eukaryotes. Molecular Ecology, 23, 753–773.
    • (2014) Molecular Ecology , vol.23 , pp. 753-773
    • Gladieux, P.1    Ropars, J.2    Badouin, H.3
  • 33
    • 84903440684 scopus 로고    scopus 로고
    • GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis
    • Glémin S, Clément Y, David J, Ressayre A (2014) GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis. Trends in Genetics, 30, 263–270.
    • (2014) Trends in Genetics , vol.30 , pp. 263-270
    • Glémin, S.1    Clément, Y.2    David, J.3    Ressayre, A.4
  • 34
    • 77954969511 scopus 로고    scopus 로고
    • Genome wide analyses reveal little evidence for adaptive evolution in many plant species
    • Gossmann TI, Song B-H, Windsor AJ et al. (2010) Genome wide analyses reveal little evidence for adaptive evolution in many plant species. Molecular Biology and Evolution, 27, 1822–1832.
    • (2010) Molecular Biology and Evolution , vol.27 , pp. 1822-1832
    • Gossmann, T.I.1    Song, B.-H.2    Windsor, A.J.3
  • 35
    • 0030618285 scopus 로고    scopus 로고
    • Maintenance of the species boundary between Silene dioica and S. latifolia (red and white Campion)
    • Goulson D, Jerrim K (1997) Maintenance of the species boundary between Silene dioica and S. latifolia (red and white Campion). Oikos, 79, 115–126.
    • (1997) Oikos , vol.79 , pp. 115-126
    • Goulson, D.1    Jerrim, K.2
  • 36
    • 84869043759 scopus 로고    scopus 로고
    • Limited evidence for classic selective sweeps in African populations
    • Granka JM, Henn BM, Gignoux CR et al. (2012) Limited evidence for classic selective sweeps in African populations. Genetics, 192, 1049–1064.
    • (2012) Genetics , vol.192 , pp. 1049-1064
    • Granka, J.M.1    Henn, B.M.2    Gignoux, C.R.3
  • 37
    • 73449149044 scopus 로고    scopus 로고
    • Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data
    • Gutenkunst RN, Hernandez RD, Williamson SH, Bustamante CD (2009) Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data. PLoS Genetics, 5, e1000695.
    • (2009) PLoS Genetics , vol.5
    • Gutenkunst, R.N.1    Hernandez, R.D.2    Williamson, S.H.3    Bustamante, C.D.4
  • 38
    • 84954078379 scopus 로고    scopus 로고
    • Fifteen years of genomewide scans for selection: trends, lessons and unaddressed genetic sources of complication
    • Haasl RJ, Payseur BA (2016) Fifteen years of genomewide scans for selection: trends, lessons and unaddressed genetic sources of complication. Molecular Ecology, 25, 5–23.
    • (2016) Molecular Ecology , vol.25 , pp. 5-23
    • Haasl, R.J.1    Payseur, B.A.2
  • 39
    • 80053587873 scopus 로고    scopus 로고
    • Adaptation to climate across the Arabidopsis thaliana genome
    • Hancock AM, Brachi B, Faure N et al. (2011) Adaptation to climate across the Arabidopsis thaliana genome. Science, 334, 83–86.
    • (2011) Science , vol.334 , pp. 83-86
    • Hancock, A.M.1    Brachi, B.2    Faure, N.3
  • 40
    • 79951829399 scopus 로고    scopus 로고
    • Classic selective sweeps were rare in recent human evolution
    • Hernandez RD, Kelley JL, Elyashiv E et al. (2011) Classic selective sweeps were rare in recent human evolution. Science, 331, 920–924.
    • (2011) Science , vol.331 , pp. 920-924
    • Hernandez, R.D.1    Kelley, J.L.2    Elyashiv, E.3
  • 42
    • 0023959349 scopus 로고
    • Variances and covariances of squared linkage disequilibria in finite populations
    • Hill WG, Weir BS (1988) Variances and covariances of squared linkage disequilibria in finite populations. Theoretical Population Biology, 33, 54–78.
    • (1988) Theoretical Population Biology , vol.33 , pp. 54-78
    • Hill, W.G.1    Weir, B.S.2
  • 43
    • 0036185923 scopus 로고    scopus 로고
    • Dimorphic mating-type chromosomes in the fungus Microbotryum violaceum
    • Hood ME (2002) Dimorphic mating-type chromosomes in the fungus Microbotryum violaceum. Genetics, 160, 457–461.
    • (2002) Genetics , vol.160 , pp. 457-461
    • Hood, M.E.1
  • 44
    • 2442511086 scopus 로고    scopus 로고
    • Mating within the meiotic tetrad and the maintenance of genomic heterozygosity
    • Hood ME, Antonovics J (2004) Mating within the meiotic tetrad and the maintenance of genomic heterozygosity. Genetics, 166, 1751–1759.
    • (2004) Genetics , vol.166 , pp. 1751-1759
    • Hood, M.E.1    Antonovics, J.2
  • 45
    • 77954611699 scopus 로고    scopus 로고
    • Distribution of the anther-smut pathogen Microbotryum on species of the Caryophyllaceae
    • Hood ME, Mena-Alí JI, Gibson AK et al. (2010) Distribution of the anther-smut pathogen Microbotryum on species of the Caryophyllaceae. The New Phytologist, 187, 217–229.
    • (2010) The New Phytologist , vol.187 , pp. 217-229
    • Hood, M.E.1    Mena-Alí, J.I.2    Gibson, A.K.3
  • 46
    • 84871792113 scopus 로고    scopus 로고
    • Extensive divergence between mating-type chromosomes of the anther-smut fungus
    • Hood ME, Petit E, Giraud T (2013) Extensive divergence between mating-type chromosomes of the anther-smut fungus. Genetics, 193, 309–315.
    • (2013) Genetics , vol.193 , pp. 309-315
    • Hood, M.E.1    Petit, E.2    Giraud, T.3
  • 47
  • 48
    • 0026709389 scopus 로고
    • Estimation of levels of gene flow from DNA sequence data
    • Hudson RR, Slatkin M, Maddison WP (1992) Estimation of levels of gene flow from DNA sequence data. Genetics, 132, 583–589.
    • (1992) Genetics , vol.132 , pp. 583-589
    • Hudson, R.R.1    Slatkin, M.2    Maddison, W.P.3
  • 49
    • 44349095887 scopus 로고    scopus 로고
    • adegenet: a R package for the multivariate analysis of genetic markers
    • Jombart T (2008) adegenet: a R package for the multivariate analysis of genetic markers. Bioinformatics, 24, 1403–1405.
    • (2008) Bioinformatics , vol.24 , pp. 1403-1405
    • Jombart, T.1
  • 50
    • 84883816471 scopus 로고    scopus 로고
    • Diversity of lactase persistence alleles in Ethiopia: signature of a soft selective sweep
    • Jones BL, Raga TO, Liebert A et al. (2013) Diversity of lactase persistence alleles in Ethiopia: signature of a soft selective sweep. American Journal of Human Genetics, 93, 538–544.
    • (2013) American Journal of Human Genetics , vol.93 , pp. 538-544
    • Jones, B.L.1    Raga, T.O.2    Liebert, A.3
  • 51
    • 2142657817 scopus 로고    scopus 로고
    • A combined transmembrane topology and signal peptide prediction method
    • Käll L, Krogh A, Sonnhammer ELL (2004) A combined transmembrane topology and signal peptide prediction method. Journal of Molecular Biology, 338, 1027–1036.
    • (2004) Journal of Molecular Biology , vol.338 , pp. 1027-1036
    • Käll, L.1    Krogh, A.2    Sonnhammer, E.L.L.3
  • 52
    • 0032965635 scopus 로고    scopus 로고
    • Local maladaptation in the anther-smut fungus Microbotryum violaceum to its host plant Silene latifolia: evidence from a cross-inoculation experiment
    • Kaltz O, Gandon S, Michalakis Y, Shykoff JA (1999) Local maladaptation in the anther-smut fungus Microbotryum violaceum to its host plant Silene latifolia: evidence from a cross-inoculation experiment. Evolution, 53, 395–407.
    • (1999) Evolution , vol.53 , pp. 395-407
    • Kaltz, O.1    Gandon, S.2    Michalakis, Y.3    Shykoff, J.A.4
  • 53
    • 62149118305 scopus 로고    scopus 로고
    • Selection at a single locus leads to widespread expansion of Toxoplasma gondii lineages that are virulent in mice
    • Khan A, Taylor S, Ajioka JW, Rosenthal BM, Sibley LD (2009) Selection at a single locus leads to widespread expansion of Toxoplasma gondii lineages that are virulent in mice. PLoS Genetics, 5, e1000404.
    • (2009) PLoS Genetics , vol.5
    • Khan, A.1    Taylor, S.2    Ajioka, J.W.3    Rosenthal, B.M.4    Sibley, L.D.5
  • 54
    • 84863229597 scopus 로고    scopus 로고
    • VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing
    • Koboldt DC, Zhang Q, Larson DE et al. (2012) VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing. Genome Research, 22, 568–576.
    • (2012) Genome Research , vol.22 , pp. 568-576
    • Koboldt, D.C.1    Zhang, Q.2    Larson, D.E.3
  • 55
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes
    • Krogh A, Larsson B, von Heijne G, Sonnhammer EL (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. Journal of Molecular Biology, 305, 567–580.
    • (2001) Journal of Molecular Biology , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    von Heijne, G.3    Sonnhammer, E.L.4
  • 56
    • 69649109364 scopus 로고    scopus 로고
    • Circos: an information aesthetic for comparative genomics
    • Krzywinski MI, Schein JE, Birol I et al. (2009) Circos: an information aesthetic for comparative genomics. Genome Research, 19, 1639–1645.
    • (2009) Genome Research , vol.19 , pp. 1639-1645
    • Krzywinski, M.I.1    Schein, J.E.2    Birol, I.3
  • 57
    • 27944509040 scopus 로고    scopus 로고
    • Novel G-protein-coupled receptor-like proteins in the plant pathogenic fungus Magnaporthe grisea
    • Kulkarni RD, Thon MR, Pan H, Dean RA (2005) Novel G-protein-coupled receptor-like proteins in the plant pathogenic fungus Magnaporthe grisea. Genome Biology, 6, R24.
    • (2005) Genome Biology , vol.6 , pp. R24
    • Kulkarni, R.D.1    Thon, M.R.2    Pan, H.3    Dean, R.A.4
  • 58
    • 29144485743 scopus 로고    scopus 로고
    • SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and humans
    • Lamason RL, Mohideen M-APK, Mest JR et al. (2005) SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and humans. Science, 310, 1782–1786.
    • (2005) Science , vol.310 , pp. 1782-1786
    • Lamason, R.L.1    Mohideen, M.-A.P.K.2    Mest, J.R.3
  • 59
    • 34347358478 scopus 로고    scopus 로고
    • Evolution of reproductive isolation within a parasitic fungal species complex
    • Le Gac M, Hood ME, Giraud T (2007) Evolution of reproductive isolation within a parasitic fungal species complex. Evolution, 61, 1781–1787.
    • (2007) Evolution , vol.61 , pp. 1781-1787
    • Le Gac, M.1    Hood, M.E.2    Giraud, T.3
  • 60
    • 84877771672 scopus 로고    scopus 로고
    • GC-Biased gene conversion in yeast is specifically associated with crossovers: molecular mechanisms and evolutionary significance
    • Lesecque Y, Mouchiroud D, Duret L (2013) GC-Biased gene conversion in yeast is specifically associated with crossovers: molecular mechanisms and evolutionary significance. Molecular Biology and Evolution, 30, 1409–1419.
    • (2013) Molecular Biology and Evolution , vol.30 , pp. 1409-1419
    • Lesecque, Y.1    Mouchiroud, D.2    Duret, L.3
  • 61
    • 15044339288 scopus 로고    scopus 로고
    • 2-producing glyoxal oxidase is required for filamentous growth and pathogenicity in Ustilago maydis
    • 2-producing glyoxal oxidase is required for filamentous growth and pathogenicity in Ustilago maydis. Molecular Genetics and Genomics, 272, 639–650.
    • (2005) Molecular Genetics and Genomics , vol.272 , pp. 639-650
    • Leuthner, B.1    Aichinger, C.2    Oehmen, E.3
  • 62
    • 84881026985 scopus 로고    scopus 로고
    • Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden
    • Long Q, Rabanal FA, Meng D et al. (2013) Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden. Nature Genetics, 45, 884–890.
    • (2013) Nature Genetics , vol.45 , pp. 884-890
    • Long, Q.1    Rabanal, F.A.2    Meng, D.3
  • 63
    • 37349021695 scopus 로고    scopus 로고
    • Multiple infections by the anther smut pathogen are frequent and involve related strains
    • López-Villavicencio M, Jonot O, Coantic A et al. (2007) Multiple infections by the anther smut pathogen are frequent and involve related strains. PLoS Pathogens, 3, e176.
    • (2007) PLoS Pathogens , vol.3
    • López-Villavicencio, M.1    Jonot, O.2    Coantic, A.3
  • 64
    • 84938838965 scopus 로고    scopus 로고
    • A Phytophthora sojae glycoside hydrolase 12 protein is a major virulence factor during soybean infection and is recognized as a PAMP
    • Ma Z, Song T, Zhu L et al. (2015) A Phytophthora sojae glycoside hydrolase 12 protein is a major virulence factor during soybean infection and is recognized as a PAMP. The Plant Cell, 27, 2057–2072.
    • (2015) The Plant Cell , vol.27 , pp. 2057-2072
    • Ma, Z.1    Song, T.2    Zhu, L.3
  • 65
    • 85027951521 scopus 로고    scopus 로고
    • Chromosomal patterns of diversity and differentiation in creepers: a next-gen phylogeographic investigation of Certhia americana
    • Manthey JD, Klicka J, Spellman GM (2015) Chromosomal patterns of diversity and differentiation in creepers: a next-gen phylogeographic investigation of Certhia americana. Heredity, 115, 165–172.
    • (2015) Heredity , vol.115 , pp. 165-172
    • Manthey, J.D.1    Klicka, J.2    Spellman, G.M.3
  • 66
    • 0038543069 scopus 로고    scopus 로고
    • Biased gene conversion: implications for genome and sex evolution
    • Marais G (2003) Biased gene conversion: implications for genome and sex evolution. Trends in Genetics, 19, 330–338.
    • (2003) Trends in Genetics , vol.19 , pp. 330-338
    • Marais, G.1
  • 67
    • 84859499806 scopus 로고    scopus 로고
    • EggLib: processing, analysis and simulation tools for population genetics and genomics
    • Mita SD, Siol M (2012) EggLib: processing, analysis and simulation tools for population genetics and genomics. BMC Genetics, 13, 27.
    • (2012) BMC Genetics , vol.13 , pp. 27
    • Mita, S.D.1    Siol, M.2
  • 69
    • 10744222802 scopus 로고    scopus 로고
    • A selective sweep driven by pyrimethamine treatment in Southeast Asian malaria parasites
    • Nair S, Williams JT, Brockman A et al. (2003) A selective sweep driven by pyrimethamine treatment in Southeast Asian malaria parasites. Molecular Biology and Evolution, 20, 1526–1536.
    • (2003) Molecular Biology and Evolution , vol.20 , pp. 1526-1536
    • Nair, S.1    Williams, J.T.2    Brockman, A.3
  • 70
    • 77954241323 scopus 로고    scopus 로고
    • Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control
    • Neafsey DE, Barker BM, Sharpton TJ et al. (2010) Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control. Genome Research, 20, 938–946.
    • (2010) Genome Research , vol.20 , pp. 938-946
    • Neafsey, D.E.1    Barker, B.M.2    Sharpton, T.J.3
  • 71
    • 0022507362 scopus 로고
    • Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions
    • Nei M, Gojobori T (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Molecular Biology and Evolution, 3, 418–426.
    • (1986) Molecular Biology and Evolution , vol.3 , pp. 418-426
    • Nei, M.1    Gojobori, T.2
  • 72
    • 27544437635 scopus 로고    scopus 로고
    • Genomic scans for selective sweeps using SNP data
    • Nielsen R, Williamson S, Kim Y et al. (2005) Genomic scans for selective sweeps using SNP data. Genome Research, 15, 1566–1575.
    • (2005) Genome Research , vol.15 , pp. 1566-1575
    • Nielsen, R.1    Williamson, S.2    Kim, Y.3
  • 73
    • 22744434580 scopus 로고    scopus 로고
    • The pattern of polymorphism in Arabidopsis thaliana
    • Nordborg M, Hu TT, Ishino Y et al. (2005) The pattern of polymorphism in Arabidopsis thaliana. PLoS Biology, 3, e196.
    • (2005) PLoS Biology , vol.3
    • Nordborg, M.1    Hu, T.T.2    Ishino, Y.3
  • 74
    • 1042304216 scopus 로고    scopus 로고
    • APE: analyses of phylogenetics and evolution in R language
    • Paradis E, Claude J, Strimmer K (2004) APE: analyses of phylogenetics and evolution in R language. Bioinformatics, 20, 289–290.
    • (2004) Bioinformatics , vol.20 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 77
    • 84931267244 scopus 로고    scopus 로고
    • Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus
    • Perlin MH, Amselem J, Fontanillas E et al. (2015) Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus. BMC Genomics, 16, 461.
    • (2015) BMC Genomics , vol.16 , pp. 461
    • Perlin, M.H.1    Amselem, J.2    Fontanillas, E.3
  • 78
    • 80053345905 scopus 로고    scopus 로고
    • SignalP 4.0: discriminating signal peptides from transmembrane regions
    • Petersen TN, Brunak S, von Heijne G, Nielsen H (2011) SignalP 4.0: discriminating signal peptides from transmembrane regions. Nature Methods, 8, 785–786.
    • (2011) Nature Methods , vol.8 , pp. 785-786
    • Petersen, T.N.1    Brunak, S.2    von Heijne, G.3    Nielsen, H.4
  • 80
    • 34247598733 scopus 로고    scopus 로고
    • Host fidelity of the pollinator guilds of Silene dioica and Silene latifolia: possible consequences for sympatric host race differentiation of a vectored plant disease
    • van Putten WF, Elzinga Jelmer A, Biere A (2007) Host fidelity of the pollinator guilds of Silene dioica and Silene latifolia: possible consequences for sympatric host race differentiation of a vectored plant disease. International Journal of Plant Sciences, 168, 421–434.
    • (2007) International Journal of Plant Sciences , vol.168 , pp. 421-434
    • van Putten, W.F.1    Elzinga Jelmer, A.2    Biere, A.3
  • 81
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: a flexible suite of utilities for comparing genomic features
    • Quinlan AR, Hall IM (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics, 26, 841–842.
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 83
    • 84902485214 scopus 로고    scopus 로고
    • fastSTRUCTURE: variational inference of population structure in large SNP data sets
    • Raj A, Stephens M, Pritchard JK (2014) fastSTRUCTURE: variational inference of population structure in large SNP data sets. Genetics, 197, 573–589.
    • (2014) Genetics , vol.197 , pp. 573-589
    • Raj, A.1    Stephens, M.2    Pritchard, J.K.3
  • 84
    • 77957878154 scopus 로고    scopus 로고
    • No evidence of reproductive character displacement between two sister fungal species causing anther smut disease in Silene
    • Refrégier G, Hood ME, Giraud T (2010) No evidence of reproductive character displacement between two sister fungal species causing anther smut disease in Silene. International Journal of Plant Sciences, 171, 847–859.
    • (2010) International Journal of Plant Sciences , vol.171 , pp. 847-859
    • Refrégier, G.1    Hood, M.E.2    Giraud, T.3
  • 85
    • 84900500340 scopus 로고    scopus 로고
    • Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data
    • Rödelsperger C, Neher RA, Weller AM et al. (2014) Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data. Genetics, 196, 1153–1165.
    • (2014) Genetics , vol.196 , pp. 1153-1165
    • Rödelsperger, C.1    Neher, R.A.2    Weller, A.M.3
  • 86
    • 84875420788 scopus 로고    scopus 로고
    • Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations
    • Rouxel T, Grandaubert J, Hane JK et al. (2011) Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations. Nature Communications, 2, 202.
    • (2011) Nature Communications , vol.2 , pp. 202
    • Rouxel, T.1    Grandaubert, J.2    Hane, J.K.3
  • 87
    • 77950080740 scopus 로고    scopus 로고
    • Whole-genome resequencing reveals loci under selection during chicken domestication
    • Rubin C-J, Zody MC, Eriksson J et al. (2010) Whole-genome resequencing reveals loci under selection during chicken domestication. Nature, 464, 587–591.
    • (2010) Nature , vol.464 , pp. 587-591
    • Rubin, C.-J.1    Zody, M.C.2    Eriksson, J.3
  • 89
    • 0023375195 scopus 로고
    • The neighbor-joining method: a new method for reconstructing phylogenetic trees
    • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4, 406–425.
    • (1987) Molecular Biology and Evolution , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 90
    • 79952263624 scopus 로고    scopus 로고
    • Pervasive adaptive protein evolution apparent in diversity patterns around amino acid substitutions in Drosophila simulans
    • Sattath S, Elyashiv E, Kolodny O, Rinott Y, Sella G (2011) Pervasive adaptive protein evolution apparent in diversity patterns around amino acid substitutions in Drosophila simulans. PLoS Genetics, 7, e1001302.
    • (2011) PLoS Genetics , vol.7
    • Sattath, S.1    Elyashiv, E.2    Kolodny, O.3    Rinott, Y.4    Sella, G.5
  • 91
    • 77954966377 scopus 로고    scopus 로고
    • Genome-wide evidence for efficient positive and purifying selection in Capsella grandiflora, a plant species with a large effective population size
    • Slotte T, Foxe JP, Hazzouri KM, Wright SI (2010) Genome-wide evidence for efficient positive and purifying selection in Capsella grandiflora, a plant species with a large effective population size. Molecular Biology and Evolution, 27, 1813–1821.
    • (2010) Molecular Biology and Evolution , vol.27 , pp. 1813-1821
    • Slotte, T.1    Foxe, J.P.2    Hazzouri, K.M.3    Wright, S.I.4
  • 96
    • 64749114678 scopus 로고    scopus 로고
    • Population genetics of fungal and oomycete effectors involved in gene-for-gene interactions
    • Stukenbrock EH, McDonald BA (2009) Population genetics of fungal and oomycete effectors involved in gene-for-gene interactions. Molecular Plant-Microbe Interactions, 22, 371–380.
    • (2009) Molecular Plant-Microbe Interactions , vol.22 , pp. 371-380
    • Stukenbrock, E.H.1    McDonald, B.A.2
  • 97
    • 67649324657 scopus 로고    scopus 로고
    • Recent strong positive selection on Drosophila melanogaster HDAC6, a gene encoding a stress surveillance factor, as revealed by population genomic analysis
    • Svetec N, Pavlidis P, Stephan W (2009) Recent strong positive selection on Drosophila melanogaster HDAC6, a gene encoding a stress surveillance factor, as revealed by population genomic analysis. Molecular Biology and Evolution, 26, 1549–1556.
    • (2009) Molecular Biology and Evolution , vol.26 , pp. 1549-1556
    • Svetec, N.1    Pavlidis, P.2    Stephan, W.3
  • 98
    • 0024313579 scopus 로고
    • Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
    • Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123, 585–595.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 99
    • 84905230182 scopus 로고    scopus 로고
    • Speed of adaptation and genomic footprints of host–parasite coevolution under arms race and trench warfare dynamics
    • Tellier A, Moreno-Gámez S, Stephan W (2014) Speed of adaptation and genomic footprints of host–parasite coevolution under arms race and trench warfare dynamics. Evolution, 68, 2211–2224.
    • (2014) Evolution , vol.68 , pp. 2211-2224
    • Tellier, A.1    Moreno-Gámez, S.2    Stephan, W.3
  • 100
    • 0344464730 scopus 로고    scopus 로고
    • Libsequence: a C++ class library for evolutionary genetic analysis
    • Thornton K (2003) Libsequence: a C++ class library for evolutionary genetic analysis. Bioinformatics, 19, 2325–2327.
    • (2003) Bioinformatics , vol.19 , pp. 2325-2327
    • Thornton, K.1
  • 102
    • 84941645639 scopus 로고    scopus 로고
    • The relationship of recombination rate, genome structure, and patterns of molecular evolution across angiosperms
    • Tiley GP, Burleigh G (2015) The relationship of recombination rate, genome structure, and patterns of molecular evolution across angiosperms. BMC Evolutionary Biology, 15, 194.
    • (2015) BMC Evolutionary Biology , vol.15 , pp. 194
    • Tiley, G.P.1    Burleigh, G.2
  • 103
    • 84899102898 scopus 로고    scopus 로고
    • Whole genome sequencing of Ethiopian highlanders reveals conserved hypoxia tolerance genes
    • Udpa N, Ronen R, Zhou D et al. (2014) Whole genome sequencing of Ethiopian highlanders reveals conserved hypoxia tolerance genes. Genome Biology, 15, R36.
    • (2014) Genome Biology , vol.15 , pp. R36
    • Udpa, N.1    Ronen, R.2    Zhou, D.3
  • 104
    • 0038395923 scopus 로고    scopus 로고
    • Intraspecific competition and mating between fungal strains of the anther smut Microbotryum violaceum from the host plants Silene latifolia and S. dioica
    • Van Putten WF, Biere A, Van Damme JMM, May G (2003) Intraspecific competition and mating between fungal strains of the anther smut Microbotryum violaceum from the host plants Silene latifolia and S. dioica. Evolution, 57, 766–776.
    • (2003) Evolution , vol.57 , pp. 766-776
    • Van Putten, W.F.1    Biere, A.2    Van Damme, J.M.M.3    May, G.4
  • 105
    • 78650446432 scopus 로고    scopus 로고
    • Glacial refugia in pathogens: European genetic structure of anther smut pathogens on Silene latifolia and Silene dioica
    • Vercken E, Fontaine MC, Gladieux P et al. (2010) Glacial refugia in pathogens: European genetic structure of anther smut pathogens on Silene latifolia and Silene dioica. PLoS Pathogens, 6, e1001229.
    • (2010) PLoS Pathogens , vol.6
    • Vercken, E.1    Fontaine, M.C.2    Gladieux, P.3
  • 106
    • 62449145221 scopus 로고    scopus 로고
    • Hybrid sterility and inviability in the parasitic fungal species complex Microbotryum
    • de Vienne DM, Refrégier G, Hood ME et al. (2009) Hybrid sterility and inviability in the parasitic fungal species complex Microbotryum. Journal of Evolutionary Biology, 22, 683–698.
    • (2009) Journal of Evolutionary Biology , vol.22 , pp. 683-698
    • de Vienne, D.M.1    Refrégier, G.2    Hood, M.E.3
  • 107
    • 0016491430 scopus 로고
    • On the number of segregating sites in genetical models without recombination
    • Watterson GA (1975) On the number of segregating sites in genetical models without recombination. Theoretical Population Biology, 7, 256–276.
    • (1975) Theoretical Population Biology , vol.7 , pp. 256-276
    • Watterson, G.A.1
  • 109
    • 18744383071 scopus 로고    scopus 로고
    • GMAP: a genomic mapping and alignment program for mRNA and EST sequences
    • Wu TD, Watanabe CK (2005) GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Bioinformatics, 21, 1859–1875.
    • (2005) Bioinformatics , vol.21 , pp. 1859-1875
    • Wu, T.D.1    Watanabe, C.K.2
  • 110
    • 0034800374 scopus 로고    scopus 로고
    • InterProScan – an integration platform for the signature-recognition methods in InterPro
    • Zdobnov EM, Apweiler R (2001) InterProScan – an integration platform for the signature-recognition methods in InterPro. Bioinformatics, 17, 847–848.
    • (2001) Bioinformatics , vol.17 , pp. 847-848
    • Zdobnov, E.M.1    Apweiler, R.2
  • 111
    • 33751342650 scopus 로고    scopus 로고
    • Statistical tests for detecting positive selection by utilizing high-frequency variants
    • Zeng K, Fu Y-X, Shi S, Wu C-I (2006) Statistical tests for detecting positive selection by utilizing high-frequency variants. Genetics, 174, 1431–1439.
    • (2006) Genetics , vol.174 , pp. 1431-1439
    • Zeng, K.1    Fu, Y.-X.2    Shi, S.3    Wu, C.-I.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.