메뉴 건너뛰기
mBio
Volumn 7, Issue 5, 2016, Pages
The evolution of orphan regions in genomes of a fungal pathogen of wheat
Author keywords

[No Author keywords available]
Indexed keywords

ARTICLE; CHROMOSOME REARRANGEMENT; CHROMOSOME STRUCTURE; COMPARATIVE STUDY; CONTROLLED STUDY; DNA TRANSPOSITION; FUNGAL VIRULENCE; GENE CLUSTER; GENE IDENTIFICATION; GENE LOCATION; GENE MAPPING; GENETIC POLYMORPHISM; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; HOST RESISTANCE; MICROBIAL DIVERSITY; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NONHUMAN; POINT MUTATION; PRIORITY JOURNAL; PROMOTER REGION; UPREGULATION; WHEAT; ZYMOSEPTORIA TRITICI; ADAPTATION; ASCOMYCETES; FUNGAL GENOME; GENETIC RECOMBINATION; GENETICS; MICROBIOLOGY; PLANT DISEASE; VIRULENCE;
EID: 84994469211     PISSN: 21612129     EISSN: 21507511     Source Type: Journal    
DOI: 10.1128/mBio.01231-16     Document Type: Article
Times cited : (95)
References (79)
  • 1
    • 0042027896 scopus 로고    scopus 로고
    • Structural dynamics of eukaryotic chromosome evolution
    • Eichler EE, Sankoff D. 2003. Structural dynamics of eukaryotic chromosome evolution. Science 301:793–797. http://dx.doi.org/10.1126/science.1086132.
    • (2003) Science , vol.301 , pp. 793-797
    • Eichler, E.E.1    Sankoff, D.2
  • 2
    • 32944456965 scopus 로고    scopus 로고
    • Plant selfincompatibility systems: A molecular evolutionary perspective
    • Charlesworth D, Vekemans X, Castric V, Glémin S. 2005. Plant selfincompatibility systems: a molecular evolutionary perspective. New Phytol 168:61–69. http://dx.doi.org/10.1111/j.1469-8137.2005.01443.x.
    • (2005) New Phytol , vol.168 , pp. 61-69
    • Charlesworth, D.1    Vekemans, X.2    Castric, V.3    Glémin, S.4
  • 3
    • 70349707128 scopus 로고    scopus 로고
    • Genomic analyses of sex chromosome evolution
    • Wilson MA, Makova KD. 2009. Genomic analyses of sex chromosome evolution. Annu Rev Genomics Hum Genet 10:333–354. http:// dx.doi.org/10.1146/annurev-genom-082908-150105.
    • (2009) Annu Rev Genomics Hum Genet , vol.10 , pp. 333-354
    • Wilson, M.A.1    Makova, K.D.2
  • 4
    • 84901239093 scopus 로고    scopus 로고
    • Rearrangements as a major mechanism in the onset of reproductive isolation in Saccharomyces cerevisiae
    • Hou J, Friedrich A, de Montigny J, Schacherer J. 2014. Chromosomal Plissonneau et al. rearrangements as a major mechanism in the onset of reproductive isolation in Saccharomyces cerevisiae. Curr Biol 24:1153–1159. http://dx.doi.org/10.1016/j.cub.2014.03.063.
    • (2014) Curr Biol , vol.24 , pp. 1153-1159
    • Hou, J.1    Friedrich, A.2    De Montigny, J.3    Schacherer, J.4
  • 5
    • 84872506987 scopus 로고    scopus 로고
    • Phenotypic impact of genomic structural variation: Insights from and for human disease
    • Weischenfeldt J, Symmons O, Spitz F, Korbel JO. 2013. Phenotypic impact of genomic structural variation: insights from and for human disease. Nat Rev Genet 14:125–138. http://dx.doi.org/10.1038/nrg3373.
    • (2013) Nat Rev Genet , vol.14 , pp. 125-138
    • Weischenfeldt, J.1    Symmons, O.2    Spitz, F.3    Korbel, J.O.4
  • 6
    • 84255162277 scopus 로고    scopus 로고
    • Recombination rate variation and speciation: Theoretical predictions and empirical results from rabbits and mice
    • Nachman MW, Payseur BA. 2012. Recombination rate variation and speciation: theoretical predictions and empirical results from rabbits and mice. Philos Trans R Soc Lond B Biol Sci 367:409–421. http://dx.doi.org/10.1098/rstb.2011.0249.
    • (2012) Philos Trans R Soc Lond B Biol Sci , vol.367 , pp. 409-421
    • Nachman, M.W.1    Payseur, B.A.2
  • 7
    • 84861182813 scopus 로고    scopus 로고
    • Genome evolution in filamentous plant pathogens: Why bigger can be better
    • Raffaele S, Kamoun S. 2012. Genome evolution in filamentous plant pathogens: why bigger can be better. Nat Rev Microbiol 10:417–430. http://dx.doi.org/10.1038/nrmicro2790.
    • (2012) Nat Rev Microbiol , vol.10 , pp. 417-430
    • Raffaele, S.1    Kamoun, S.2
  • 8
    • 84938699156 scopus 로고    scopus 로고
    • Understanding plant immunity as a surveillance system to detect invasion
    • Cook DE, Mesarich CH, Thomma BP. 2015. Understanding plant immunity as a surveillance system to detect invasion. Annu Rev Phytopathol 53:541–563. http://dx.doi.org/10.1146/annurev-phyto-080614-120114.
    • (2015) Annu Rev Phytopathol , vol.53 , pp. 541-563
    • Cook, D.E.1    Mesarich, C.H.2    Thomma, B.P.3
  • 9
    • 33751100626 scopus 로고    scopus 로고
    • The plant immune system
    • Jones JD, Dangl JL. 2006. The plant immune system. Nature 444: 323–329. http://dx.doi.org/10.1038/nature05286.
    • (2006) Nature , vol.444 , pp. 323-329
    • Jones, J.D.1    Dangl, J.L.2
  • 11
    • 0034525256 scopus 로고    scopus 로고
    • A telomeric avirulence gene determines efficacy for the rice blast resistance gene Pi-ta
    • Orbach MJ, Farrall L, Sweigard JA, Chumley FG, Valent B. 2000. A telomeric avirulence gene determines efficacy for the rice blast resistance gene Pi-ta. Plant Cell 12:2019–2032. http://dx.doi.org/10.1105/tpc.12.11.2019.
    • (2000) Plant Cell , vol.12 , pp. 2019-2032
    • Orbach, M.J.1    Farrall, L.2    Sweigard, J.A.3    Chumley, F.G.4    Valent, B.5
  • 12
    • 84943519161 scopus 로고    scopus 로고
    • The two-speed genomes of filamentous pathogens: Waltz with plants
    • Dong S, Raffaele S, Kamoun S. 2015. The two-speed genomes of filamentous pathogens: waltz with plants. Curr Opin Genet Dev 35:57–65. http://dx.doi.org/10.1016/j.gde.2015.09.001.
    • (2015) Curr Opin Genet Dev , vol.35 , pp. 57-65
    • Dong, S.1    Raffaele, S.2    Kamoun, S.3
  • 15
    • 4143050271 scopus 로고    scopus 로고
    • RIP: The evolutionary cost of genome defense
    • Galagan JE, Selker EU. 2004. RIP: the evolutionary cost of genome defense. Trends Genet 20:417–423. http://dx.doi.org/10.1016/j.tig.2004.07.007.
    • (2004) Trends Genet , vol.20 , pp. 417-423
    • Galagan, J.E.1    Selker, E.U.2
  • 17
    • 67650473552 scopus 로고    scopus 로고
    • Repeat-induced point mutation (RIP) as an alternative mechanism of evolution toward virulence in Leptosphaeria maculans
    • Fudal I, Ross S, Brun H, Besnard A-L, Ermel M, Kuhn M-L, Balesdent M-H, Rouxel T. 2009. Repeat-induced point mutation (RIP) as an alternative mechanism of evolution toward virulence in Leptosphaeria maculans. Mol Plant Microbe Interact 22:932–941. http://dx.doi.org/10.1094/MPMI-22-8-0932.
    • (2009) Mol Plant Microbe Interact , vol.22 , pp. 932-941
    • Fudal, I.1    Ross, S.2    Brun, H.3    Besnard, A.-L.4    Ermel, M.5    Kuhn, M.-L.6    Balesdent, M.-H.7    Rouxel, T.8
  • 18
    • 0038330375 scopus 로고    scopus 로고
    • Analysis of loss of pathogenicity mutants reveals that repeat-induced point mutations can occur in the Dothideomycete Leptosphaeria maculans
    • Idnurm A, Howlett BJ. 2003. Analysis of loss of pathogenicity mutants reveals that repeat-induced point mutations can occur in the Dothideomycete Leptosphaeria maculans. Fungal Genet Biol 39:31–37. http://dx.doi.org/10.1016/S1087-1845(02)00588-1.
    • (2003) Fungal Genet Biol , vol.39 , pp. 31-37
    • Idnurm, A.1    Howlett, B.J.2
  • 19
    • 78149494002 scopus 로고    scopus 로고
    • Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans
    • Raffaele S, Win J, Cano LM, Kamoun S. 2010. Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans. BMCGenomics 11:637. http://dx.doi.org/10.1186/1471-2164-11-637.
    • (2010) Bmcgenomics , vol.11
    • Raffaele, S.1    Win, J.2    Cano, L.M.3    Kamoun, S.4
  • 20
    • 84881145993 scopus 로고    scopus 로고
    • Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen
    • De Jonge R, Bolton MD, Kombrink A, van den Berg GC, Yadeta KA, Thomma BP. 2013. Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen. Genome Res 23:1271–1282. http://dx.doi.org/10.1101/gr.152660.112.
    • (2013) Genome Res , vol.23 , pp. 1271-1282
    • De Jonge, R.1    Bolton, M.D.2    Kombrink, A.3    Van Den Berg, G.C.4    Yadeta, K.A.5    Thomma, B.P.6
  • 22
    • 84982953280 scopus 로고    scopus 로고
    • Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen
    • Faino L, Seidl MF, Shi-Kunne X, Pauper M, van den Berg GC, Wittenberg AH, Thomma BP. 2016. Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen. Genome Res26:1091–1100. http://dx.doi.org/10.1101/gr.204974.116.
    • (2016) Genome Res26 , pp. 1091-1100
    • Faino, L.1    Seidl, M.F.2    Shi-Kunne, X.3    Pauper, M.4    Van Den Berg, G.C.5    Wittenberg, A.H.6    Thomma, B.P.7
  • 23
    • 84937577974 scopus 로고    scopus 로고
    • The impact of Septoria tritici blotch disease on wheat: An EU perspective
    • Fones H, Gurr S. 2015. The impact of Septoria tritici blotch disease on wheat: an EU perspective. Fungal Genet Biol 79:3–7. http://dx.doi.org/10.1016/j.fgb.2015.04.004.
    • (2015) Fungal Genet Biol , vol.79 , pp. 3-7
    • Fones, H.1    Gurr, S.2
  • 24
    • 0037383062 scopus 로고    scopus 로고
    • The global genetic structure of the wheat pathogen Mycosphaerella graminicola is characterized by high nuclear diversity, low mitochondrial diversity, regular recombination, and gene flow
    • Zhan J, Pettway RE, McDonald BA. 2003. The global genetic structure of the wheat pathogen Mycosphaerella graminicola is characterized by high nuclear diversity, low mitochondrial diversity, regular recombination, and gene flow. Fungal Genet Biol 38:286–297. http://dx.doi.org/10.1016/S1087-1845(02)00538-8.
    • (2003) Fungal Genet Biol , vol.38 , pp. 286-297
    • Zhan, J.1    Pettway, R.E.2    McDonald, B.A.3
  • 25
    • 82955200227 scopus 로고    scopus 로고
    • The making of a new pathogen: Insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species
    • Stukenbrock EH, Bataillon T, Dutheil JY, Hansen TT, Li R, Zala M, McDonald BA, Wang J, Schierup MH. 2011. The making of a new pathogen: insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species. Genome Res 21:2157–2166. http://dx.doi.org/10.1101/gr.118851.110.
    • (2011) Genome Res , vol.21 , pp. 2157-2166
    • Stukenbrock, E.H.1    Bataillon, T.2    Dutheil, J.Y.3    Hansen, T.T.4    Li, R.5    Zala, M.6    McDonald, B.A.7    Wang, J.8    Schierup, M.H.9
  • 26
    • 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. http://dx.doi.org/10.1534/genetics.115.180968.
    • (2015) Genetics , vol.201 , pp. 1213-1228
    • Croll, D.1    Lendenmann, M.H.2    Stewart, E.3    McDonald, B.A.4
  • 27
    • 0033867551 scopus 로고    scopus 로고
    • Specific adaptation by Mycosphaerella graminicola to a resistant wheat cultivar
    • Cowger C, Hoffer ME, Mundt CC. 2000. Specific adaptation by Mycosphaerella graminicola to a resistant wheat cultivar. Plant Pathol 49: 445–451. http://dx.doi.org/10.1046/j.1365-3059.2000.00472.x.
    • (2000) Plant Pathol , vol.49 , pp. 445-451
    • Cowger, C.1    Hoffer, M.E.2    Mundt, C.C.3
  • 28
    • 60249100256 scopus 로고    scopus 로고
    • QoI resistance emerged independently at least 4 times in European populations of Mycosphaerella graminicola
    • Torriani SF, Brunner PC, McDonald BA, Sierotzki H. 2009. QoI resistance emerged independently at least 4 times in European populations of Mycosphaerella graminicola. Pest Manag Sci 65:155–162. http://dx.doi.org/10.1002/ps.1662.
    • (2009) Pest Manag Sci , vol.65 , pp. 155-162
    • Torriani, S.F.1    Brunner, P.C.2    McDonald, B.A.3    Sierotzki, H.4
  • 29
    • 33645240588 scopus 로고    scopus 로고
    • Resistance of wheat to septoria tritici blotch (Mycosphaerella graminicola) and associations with plant ideotype and the 1BL-1RS translocation
    • Arraiano LS, Brading PA, Dedryver F, Brown JKM. 2006. Resistance of wheat to septoria tritici blotch (Mycosphaerella graminicola) and associations with plant ideotype and the 1BL-1RS translocation. Plant Pathol 55:54–61. http://dx.doi.org/10.1111/j.1365-3059.2005.01319.x.
    • (2006) Plant Pathol , vol.55 , pp. 54-61
    • Arraiano, L.S.1    Brading, P.A.2    Dedryver, F.3    Brown, J.K.M.4
  • 30
    • 84964262309 scopus 로고    scopus 로고
    • Dissecting the molecular interactions between wheat and the fungal pathogen Zymoseptoria tritici
    • Kettles GJ, Kanyuka K. 2016. Dissecting the molecular interactions between wheat and the fungal pathogen Zymoseptoria tritici. Front Plant Sci 7:508. http://dx.doi.org/10.3389/fpls.2016.00508.
    • (2016) Front Plant Sci , vol.7
    • Kettles, G.J.1    Kanyuka, K.2
  • 31
    • 84879670944 scopus 로고    scopus 로고
    • Breakage-fusion-bridge cycles and large insertions contribute to the rapid evolution of accessory chromosomes in a fungal pathogen
    • Croll D, Zala M, McDonald BA. 2013. Breakage-fusion-bridge cycles and large insertions contribute to the rapid evolution of accessory chromosomes in a fungal pathogen. PLoS Genet 9:e1003567. http://dx.doi.org/10.1371/journal.pgen.1003567.
    • (2013) Plos Genet , vol.9
    • Croll, D.1    Zala, M.2    McDonald, B.A.3
  • 33
    • 84937570578 scopus 로고    scopus 로고
    • RNA-seqbased gene annotation and comparative genomics of four fungal grass pathogens in the genus Zymoseptoria identify novel orphan genes and species-specific invasions of transposable elements
    • Grandaubert J, Bhattacharyya A, Stukenbrock EH. 2015. RNA-seqbased gene annotation and comparative genomics of four fungal grass pathogens in the genus Zymoseptoria identify novel orphan genes and species-specific invasions of transposable elements. G3 (Bethesda) 5:1323–1333. http://dx.doi.org/10.1534/g3.115.017731.
    • (2015) G3 (Bethesda) , vol.5 , pp. 1323-1333
    • Grandaubert, J.1    Bhattacharyya, A.2    Stukenbrock, E.H.3
  • 34
    • 84938765406 scopus 로고    scopus 로고
    • Rapidly evolving genes are key players in host specialization and virulence of the fungal wheat pathogen Zymoseptoria tritici (Mycosphaerella graminicola)
    • Poppe S, Dorsheimer L, Happel P, Stukenbrock EH. 2015. Rapidly evolving genes are key players in host specialization and virulence of the fungal wheat pathogen Zymoseptoria tritici (Mycosphaerella graminicola). PLoS Pathog 11:e1005055. http://dx.doi.org/10.1371/journal.ppat.1005055.
    • (2015) Plos Pathog , vol.11
    • Poppe, S.1    Dorsheimer, L.2    Happel, P.3    Stukenbrock, E.H.4
  • 35
    • 84963959878 scopus 로고    scopus 로고
    • Utilizing gene tree variation to identify candidate effector genes in Zymoseptoria tritici
    • McDonald MC, McGinness L, Hane JK, Williams AH, Milgate A, Solomon PS. 2016. Utilizing gene tree variation to identify candidate effector genes in Zymoseptoria tritici. G3 (Bethesda) 6:779–791. http://dx.doi.org/10.1534/g3.115.025197.
    • (2016) G3 (Bethesda) , vol.6 , pp. 779-791
    • McDonald, M.C.1    McGinness, L.2    Hane, J.K.3    Williams, A.H.4    Milgate, A.5    Solomon, P.S.6
  • 36
    • 24944527490 scopus 로고    scopus 로고
    • Variation for neutral markers is correlated with variation for quantitative traits in the plant pathogenic fungus Mycosphaerella graminicola
    • Zhan J, Linde CC, Jürgens T, Merz U, Steinebrunner F, McDonald BA. 2005. Variation for neutral markers is correlated with variation for quantitative traits in the plant pathogenic fungus Mycosphaerella graminicola. Mol Ecol 14:2683–2693. http://dx.doi.org/10.1111/j.1365 -294X.2005.02638.x.
    • (2005) Mol Ecol , vol.14 , pp. 2683-2693
    • Zhan, J.1    Linde, C.C.2    Jürgens, T.3    Merz, U.4    Steinebrunner, F.5    McDonald, B.A.6
  • 37
    • 84964315075 scopus 로고    scopus 로고
    • Quantitative trait locus mapping of melanization in the plant pathogenic fungus Zymoseptoria tritici
    • Lendenmann MH, Croll D, Stewart EL, McDonald BA. 2014. Quantitative trait locus mapping of melanization in the plant pathogenic fungus Zymoseptoria tritici. G3 (Bethesda) 4:2519–2533. http://dx.doi.org/10.1534/g3.114.015289.
    • (2014) G3 (Bethesda) , vol.4 , pp. 2519-2533
    • Lendenmann, M.H.1    Croll, D.2    Stewart, E.L.3    McDonald, B.A.4
  • 38
    • 84930203700 scopus 로고    scopus 로고
    • QTL mapping of fungicide sensitivity reveals novel genes and pleiotropy with melanization in the pathogen Zymoseptoria tritici
    • Lendenmann MH, Croll D, McDonald BA. 2015. QTL mapping of fungicide sensitivity reveals novel genes and pleiotropy with melanization in the pathogen Zymoseptoria tritici. Fungal Genet Biol 80:53–67. http://dx.doi.org/10.1016/j.fgb.2015.05.001.
    • (2015) Fungal Genet Biol , vol.80 , pp. 53-67
    • Lendenmann, M.H.1    Croll, D.2    McDonald, B.A.3
  • 39
    • 84960363280 scopus 로고    scopus 로고
    • QTLmapping of temperature sensitivity reveals candidate genes for thermal adaptation and growth morphology in the plant pathogenic fungus Zymoseptoria tritici
    • Lendenmann MH, Croll D, Palma-Guerrero J, Stewart EL, McDonald BA. 2016.QTLmapping of temperature sensitivity reveals candidate genes for thermal adaptation and growth morphology in the plant pathogenic fungus Zymoseptoria tritici. Heredity 116:384–394. http://dx.doi.org/10.1038/hdy.2015.111.
    • (2016) Heredity , vol.116 , pp. 384-394
    • Lendenmann, M.H.1    Croll, D.2    Palma-Guerrero, J.3    Stewart, E.L.4    McDonald, B.A.5
  • 41
    • 85027919155 scopus 로고    scopus 로고
    • Comparative transcriptomic analyses of Zymoseptoria tritici strains show complex lifestyle transitions and intraspecific variability in transcription profiles
    • Palma-Guerrero J, Torriani SF, Zala M, Carter D, Courbot M, Rudd JJ, McDonald BA, Croll D. 2016. Comparative transcriptomic analyses of Zymoseptoria tritici strains show complex lifestyle transitions and intraspecific variability in transcription profiles. Mol Plant Pathol 17:845–859. http://dx.doi.org/10.1111/mpp.12333.
    • (2016) Mol Plant Pathol , vol.17 , pp. 845-859
    • Palma-Guerrero, J.1    Torriani, S.F.2    Zala, M.3    Carter, D.4    Courbot, M.5    Rudd, J.J.6    McDonald, B.A.7    Croll, D.8
  • 42
    • 84923674139 scopus 로고    scopus 로고
    • Transcriptome and metabolite profiling of the infection cycle of Zymoseptoria tritici on wheat reveals a biphasic interaction with plant immunity involving differential pathogen chromosomal contributions and a variation on the hemibiotrophic lifestyle definition
    • Rudd JJ, Kanyuka K, Hassani-Pak K, Derbyshire M, Andongabo A, Devonshire J, Lysenko A, Saqi M, Desai NM, Powers SJ, Hooper J, Ambroso L, Bharti A, Farmer A, Hammond-Kosack KE, Dietrich RA, CourbotM. 2015. Transcriptome and metabolite profiling of the infection cycle of Zymoseptoria tritici on wheat reveals a biphasic interaction with plant immunity involving differential pathogen chromosomal contributions and a variation on the hemibiotrophic lifestyle definition. Plant Physiol 167:1158–1185. http://dx.doi.org/10.1104/pp.114.255927.
    • (2015) Plant Physiol , vol.167 , pp. 1158-1185
    • Rudd, J.J.1    Kanyuka, K.2    Hassani-Pak, K.3    Derbyshire, M.4    Ongabo, A.5    Devonshire, J.6    Lysenko, A.7    Saqi, M.8    Desai, N.M.9    Powers, S.J.10    Hooper, J.11    Ambroso, L.12    Bharti, A.13    Farmer, A.14    Hammond-Kosack, K.E.15    Dietrich, R.A.16
  • 44
    • 84930318442 scopus 로고    scopus 로고
    • Advances and challenges in computational prediction of effectors from plant pathogenic fungi
    • Sperschneider J, Dodds PN, Gardiner DM, Manners JM, Singh KB, Taylor JM. 2015. Advances and challenges in computational prediction of effectors from plant pathogenic fungi. PLoS Pathog 11:e1004806. http://dx.doi.org/10.1371/journal.ppat.1004806.
    • (2015) Plos Pathog , vol.11
    • Sperschneider, J.1    Dodds, P.N.2    Gardiner, D.M.3    Manners, J.M.4    Singh, K.B.5    Taylor, J.M.6
  • 45
    • 0026693522 scopus 로고
    • Autonomously replicating plasmids and chromosomerearrangement during transformation of nectria haematococca
    • Kistler HC, Benny U. 1992. Autonomously replicating plasmids and chromosomerearrangement during transformation of nectria haematococca. Gene 117:81–89. http://dx.doi.org/10.1016/0378-1119(92)90493-9.
    • (1992) Gene , vol.117 , pp. 81-89
    • Kistler, H.C.1    Benny, U.2
  • 46
    • 0025881998 scopus 로고
    • Chromosome length polymorphisms in a Septoria tritici population
    • McDonald BA, Martinez JP. 1991. Chromosome length polymorphisms in a Septoria tritici population. Curr Genet 19:265–271. http://dx.doi.org/10.1007/BF00355053.
    • (1991) Curr Genet , vol.19 , pp. 265-271
    • McDonald, B.A.1    Martinez, J.P.2
  • 47
    • 0028838341 scopus 로고
    • Chromosome-length polymorphism in fungi
    • Zolan ME. 1995. Chromosome-length polymorphism in fungi. Microbiol Rev 59:686–698.
    • (1995) Microbiol Rev , vol.59 , pp. 686-698
    • Zolan, M.E.1
  • 48
    • 0036828166 scopus 로고    scopus 로고
    • Frequency of sexual reproduction by Mycosphaerella graminicola on partially resistant wheat cultivars
    • Cowger C, McDonald BA, Mundt CC. 2002. Frequency of sexual reproduction by Mycosphaerella graminicola on partially resistant wheat cultivars. Phytopathology 92:1175–1181. http://dx.doi.org/10.1094/PHYTO.2002.92.11.1175.
    • (2002) Phytopathology , vol.92 , pp. 1175-1181
    • Cowger, C.1    McDonald, B.A.2    Mundt, C.C.3
  • 49
    • 84863539444 scopus 로고    scopus 로고
    • Genomic and comparative analysis of the class Dothideomycetes
    • Pöggeler S, Wöstemeyer J, Berlin, Germany
    • Hane JK, Williams AH, Oliver RP. 2011. Genomic and comparative analysis of the class Dothideomycetes, p 205–229. In Pöggeler S, Wöstemeyer J (ed), Evolution of fungi and fungal-like organisms. Springer, Berlin, Germany.
    • (2011) Evolution of Fungi and Fungal-Like Organisms. Springer , pp. 205-229
    • Hane, J.K.1    Williams, A.H.2    Oliver, R.P.3
  • 50
    • 0036209507 scopus 로고    scopus 로고
    • Resolving the paradox of sex and recombination
    • Otto SP, Lenormand T. 2002. Resolving the paradox of sex and recombination. Nat Rev Genet 3:252–261. http://dx.doi.org/10.1038/nrg761.
    • (2002) Nat Rev Genet , vol.3 , pp. 252-261
    • Otto, S.P.1    Lenormand, T.2
  • 51
    • 0034644576 scopus 로고    scopus 로고
    • Deleterious mutations and the evolution of sex
    • Keightley PD, Eyre-Walker A. 2000. Deleterious mutations and the evolution of sex. Science 290:331–333. http://dx.doi.org/10.1126/science.290.5490.331.
    • (2000) Science , vol.290 , pp. 331-333
    • Keightley, P.D.1    Eyre-Walker, A.2
  • 52
    • 33847076849 scopus 로고    scopus 로고
    • Chromatin modifications and their function
    • Kouzarides T. 2007. Chromatin modifications and their function. Cell 128:693–705. http://dx.doi.org/10.1016/j.cell.2007.02.005.
    • (2007) Cell , vol.128 , pp. 693-705
    • Kouzarides, T.1
  • 55
    • 78449261719 scopus 로고    scopus 로고
    • Diversification and evolution of the avirulence gene AVR-Pita1 in field isolates of Magnaporthe oryzae
    • Dai Y, Jia Y, Correll J, Wang X, Wang Y. 2010. Diversification and evolution of the avirulence gene AVR-Pita1 in field isolates of Magnaporthe oryzae. Fungal Genet Biol 47:973–980. http://dx.doi.org/10.1016/j.fgb.2010.08.003.
    • (2010) Fungal Genet Biol , vol.47 , pp. 973-980
    • Dai, Y.1    Jia, Y.2    Correll, J.3    Wang, X.4    Wang, Y.5
  • 57
    • 84926528832 scopus 로고    scopus 로고
    • Gene loss rather than gene gain is associated with a host jump from monocots to dicots in the smut fungus Melanopsichium pennsylvanicum
    • Sharma R, Mishra B, Runge F, Thines M. 2014. Gene loss rather than gene gain is associated with a host jump from monocots to dicots in the smut fungus Melanopsichium pennsylvanicum. Genome Biol Evol 6:2034–2049. http://dx.doi.org/10.1093/gbe/evu148.
    • (2014) Genome Biol Evol , vol.6 , pp. 2034-2049
    • Sharma, R.1    Mishra, B.2    Runge, F.3    Thines, M.4
  • 58
    • 0036723575 scopus 로고    scopus 로고
    • Population structure of Mycosphaerella graminicola: From lesions to continents
    • Linde CC, Zhan J, McDonald BA. 2002. Population structure of Mycosphaerella graminicola: from lesions to continents. Phytopathology 92: 946–955. http://dx.doi.org/10.1094/PHYTO.2002.92.9.946.
    • (2002) Phytopathology , vol.92 , pp. 946-955
    • Linde, C.C.1    Zhan, J.2    McDonald, B.A.3
  • 59
    • 34548829078 scopus 로고    scopus 로고
    • A modified protocol for rapidDNAisolation from plant tissues using cetyltrimethylammonium bromide
    • Allen GC, Flores-Vergara MA, Krasynanski S, Kumar S, Thompson WF. 2006. A modified protocol for rapidDNAisolation from plant tissues using cetyltrimethylammonium bromide. Nat Protoc 1:2320–2325. http://dx.doi.org/10.1038/nprot.2006.384.
    • (2006) Nat Protoc , vol.1 , pp. 2320-2325
    • Allen, G.C.1    Flores-Vergara, M.A.2    Krasynanski, S.3    Kumar, S.4    Thompson, W.F.5
  • 60
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead B, Salzberg SL. 2012. Fast gapped-read alignment with Bowtie 2. Nat Methods 9:357–359. http://dx.doi.org/10.1038/nmeth.1923.
    • (2012) Nat Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 63
    • 55449100528 scopus 로고    scopus 로고
    • Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph
    • Wu Y, Bhat PR, Close TJ, Lonardi S. 2008. Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. PLoS Genet 4:e1000212. http://dx.doi.org/10.1371/journal.pgen.1000212.
    • (2008) Plos Genet , vol.4
    • Wu, Y.1    Bhat, P.R.2    Close, T.J.3    Lonardi, S.4
  • 66
    • 84859898660 scopus 로고    scopus 로고
    • A beginner’s guide to eukaryotic genome annotation
    • Yandell M, Ence D. 2012. A beginner’s guide to eukaryotic genome annotation. Nat Rev Genet 13:329–342. http://dx.doi.org/10.1038/nrg3174.
    • (2012) Nat Rev Genet , vol.13 , pp. 329-342
    • Yandell, M.1    Ence, D.2
  • 67
    • 84905049901 scopus 로고    scopus 로고
    • Trimmomatic: A flexible trimmer for Illumina sequence data
    • Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30:2114–2120. http://dx.doi.org/10.1093/bioinformatics/btu170.
    • (2014) Bioinformatics , vol.30 , pp. 2114-2120
    • Bolger, A.M.1    Lohse, M.2    Usadel, B.3
  • 68
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splice junctions with RNA-Seq
    • Trapnell C, Pachter L, Salzberg SL. 2009. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25:1105–1111. http://dx.doi.org/10.1093/bioinformatics/btp120.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 69
    • 33645161645 scopus 로고    scopus 로고
    • Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources
    • Stanke M, Schöffmann O, Morgenstern B, Waack S. 2006. Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources. BMC Bioinformatics 7:62. http://dx.doi.org/10.1186/1471-2105-7-62.
    • (2006) BMC Bioinformatics , vol.7
    • Stanke, M.1    Schöffmann, O.2    Morgenstern, B.3    Waack, S.4
  • 70
    • 24044447664 scopus 로고    scopus 로고
    • Automated generation of heuristics for biological sequence comparison
    • Slater GS, Birney E. 2005. Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6:31. http://dx.doi.org/10.1186/1471-2105-6-31.
    • (2005) BMC Bioinformatics , vol.6
    • Slater, G.S.1    Birney, E.2
  • 71
    • 84960089630 scopus 로고    scopus 로고
    • BRAKER1: Unsupervised RNA-Seq-based genome annotation with GeneMark-ET and AUGUSTUS
    • Hoff KJ, Lange S, Lomsadze A, Borodovsky M, Stanke M. 2016. BRAKER1: unsupervised RNA-Seq-based genome annotation with GeneMark-ET and AUGUSTUS. Bioinformatics 32:767–769. http://dx.doi.org/10.1093/bioinformatics/btv661.
    • (2016) Bioinformatics , vol.32 , pp. 767-769
    • Hoff, K.J.1    Lange, S.2    Lomsadze, A.3    Borodovsky, M.4    Stanke, M.5
  • 73
    • 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. Nat Methods 8:785–786. http://dx.doi.org/10.1038/nmeth.1701.
    • (2011) Nat Methods , vol.8 , pp. 785-786
    • Petersen, T.N.1    Brunak, S.2    Von Heijne, G.3    Nielsen, H.4
  • 74
    • 2142657817 scopus 로고    scopus 로고
    • A combined transmembrane topology and signal peptide prediction method
    • Käll L, Krogh A, Sonnhammer EL. 2004. A combined transmembrane topology and signal peptide prediction method. J Mol Biol 338: 1027–1036. http://dx.doi.org/10.1016/j.jmb.2004.03.016.
    • (2004) J Mol Biol , vol.338 , pp. 1027-1036
    • Käll, L.1    Krogh, A.2    Sonnhammer, E.L.3
  • 75
    • 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. J Mol Biol 305:567–580. http://dx.doi.org/10.1006/jmbi.2000.4315.
    • (2001) J Mol Biol , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    Von Heijne, G.3    Sonnhammer, E.L.4
  • 76
    • 84928987900 scopus 로고    scopus 로고
    • HTSeq—a Python framework to work with high-throughput sequencing data
    • Anders S, Pyl PT, Huber W. 2015. HTSeq—a Python framework to work with high-throughput sequencing data. Bioinformatics 31:166–169. http://dx.doi.org/10.1093/bioinformatics/btu638.
    • (2015) Bioinformatics , vol.31 , pp. 166-169
    • Anders, S.1    Pyl, P.T.2    Huber, W.3
  • 77
    • 75249087100 scopus 로고    scopus 로고
    • EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
    • Robinson MD, McCarthy DJ, Smyth GK. 2010. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26:139–140. http://dx.doi.org/10.1093/bioinformatics/btp616.
    • (2010) Bioinformatics , vol.26 , pp. 139-140
    • Robinson, M.D.1    McCarthy, D.J.2    Smyth, G.K.3
  • 79
    • 77956519355 scopus 로고    scopus 로고
    • GenoPlotR: Comparative gene and genome visualization in R
    • Guy L, Roat Kultima J, Andersson SGE. 2010. genoPlotR: comparative gene and genome visualization in R. Bioinformatics 26:2334–2335. http://dx.doi.org/10.1093/bioinformatics/btq413.
    • (2010) Bioinformatics , vol.26 , pp. 2334-2335
    • Guy, L.1    Roat Kultima, J.2    Ersson, S.3

* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.