메뉴 건너뛰기




Volumn 4, Issue 11, 2012, Pages 1148-1161

Intron gains and losses in the evolution of fusarium and cryptococcus fungi

Author keywords

Cryptococcus; Fusarium; Intron gains; Population genomics; Spliceosomal introns

Indexed keywords

ASCOMYCOTA; CRYPTOCOCCUS GATTII; FUNGI; FUSARIUM; FUSARIUM OXYSPORUM; LYCOPERSICON ESCULENTUM;

EID: 84876036998     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evs091     Document Type: Article
Times cited : (18)

References (53)
  • 1
    • 0003574283 scopus 로고    scopus 로고
    • Oxford (UK): Elsevier Academic Press
    • Agrios GN. 2005. Plant pathology. Oxford (UK): Elsevier Academic Press.
    • (2005) Plant Pathology
    • Agrios, G.N.1
  • 2
    • 41049096607 scopus 로고    scopus 로고
    • The emergence of Cryptococcus gattii in British Columbia and the Pacific Northwest
    • Bartlett KH, Kidd SE, Kronstad JW. 2008. The emergence of Cryptococcus gattii in British Columbia and the Pacific Northwest. Curr Infect Dis Rep. 10:58-65.
    • (2008) Curr Infect Dis Rep. , vol.10 , pp. 58-65
    • Bartlett, K.H.1    Kidd, S.E.2    Kronstad, J.W.3
  • 3
    • 0022431014 scopus 로고
    • Selfish DNA and the origin of introns
    • Cavalier-Smith T. 1985. Selfish DNA and the origin of introns. Nature 315: 283-284.
    • (1985) Nature , vol.315 , pp. 283-284
    • Cavalier-Smith, T.1
  • 4
    • 33747584933 scopus 로고    scopus 로고
    • Multistate outbreak of Fusarium keratitis associated with use of a contact lens solution
    • Chang DC, et al. 2006. Multistate outbreak of Fusarium keratitis associated with use of a contact lens solution. JAMA. 296:953-963.
    • (2006) JAMA. , vol.296 , pp. 953-963
    • Chang, D.C.1
  • 5
    • 70149110707 scopus 로고    scopus 로고
    • The genome of Nectria haematococca: Contribution of supernumerary chromosomes to gene expansion
    • Coleman JJ, et al. 2009. The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion. PLoS Genet. 5:e1000618.
    • (2009) PLoS Genet. , vol.5
    • Coleman, J.J.1
  • 6
    • 16344385067 scopus 로고    scopus 로고
    • Complex spliceosomal organization ancestral to extant eukaryotes
    • Collins L, Penny D. 2005. Complex spliceosomal organization ancestral to extant eukaryotes. Mol Biol Evol. 22:1053-1066.
    • (2005) Mol Biol Evol. , vol.22 , pp. 1053-1066
    • Collins, L.1    Penny, D.2
  • 7
    • 33845982198 scopus 로고    scopus 로고
    • Characterization of intron loss events in mammals
    • Coulombe-Huntington J, Majewski J. 2007. Characterization of intron loss events in mammals. Genome Res. 17:23-32.
    • (2007) Genome Res. , vol.17 , pp. 23-32
    • Coulombe-Huntington, J.1    Majewski, J.2
  • 8
    • 78649705889 scopus 로고    scopus 로고
    • Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate
    • Denoeud F, et al. 2010. Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate. Science 330: 1381-1385.
    • (2010) Science , vol.330 , pp. 1381-1385
    • Denoeud, F.1
  • 9
    • 0027254031 scopus 로고
    • Why do genes have introns
    • Dibb NJ. 1993. Why do genes have introns? FEBS Lett. 325:135-139.
    • (1993) FEBS Lett , vol.325 , pp. 135-139
    • Dibb, N.J.1
  • 10
    • 0030927867 scopus 로고    scopus 로고
    • Searching for regulatory elements in human noncoding sequences
    • Duret L, Bucher P. 1997. Searching for regulatory elements in human noncoding sequences. Curr Opin Struct Biol. 7:399-406.
    • (1997) Curr Opin Struct Biol. , vol.7 , pp. 399-406
    • Duret, L.1    Bucher, P.2
  • 11
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar RC. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26:2460-2461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 12
    • 0037630627 scopus 로고    scopus 로고
    • Introns in gene evolution
    • Fedorova L, Fedorov A. 2003. Introns in gene evolution. Genetica 118: 123-131.
    • (2003) Genetica , vol.118 , pp. 123-131
    • Fedorova, L.1    Fedorov, A.2
  • 13
    • 84862977387 scopus 로고    scopus 로고
    • The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes
    • Floudas D, et al. 2012. The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science 336: 1715-1719.
    • (2012) Science , vol.336 , pp. 1715-1719
    • Floudas, D.1
  • 14
  • 15
    • 77957232919 scopus 로고    scopus 로고
    • Large-scale tRNA intron transposition in the archaeal order Thermoproteales represents a novel mechanism of intron gain
    • Fujishima K, Sugahara J, Tomita M, Kanai A. 2010. Large-scale tRNA intron transposition in the archaeal order Thermoproteales represents a novel mechanism of intron gain. Mol Biol Evol. 27:2233-2243.
    • (2010) Mol Biol Evol. , vol.27 , pp. 2233-2243
    • Fujishima, K.1    Sugahara, J.2    Tomita, M.3    Kanai, A.4
  • 16
    • 82855163991 scopus 로고    scopus 로고
    • Whole genome sequence analysis of Cryptococcus gattii from the Pacific Northwest reveals unexpected diversity
    • Gillece JD, et al. 2011. Whole genome sequence analysis of Cryptococcus gattii from the Pacific Northwest reveals unexpected diversity. PLoS One. 6:e28550.
    • (2011) PLoS One. , vol.6
    • Gillece, J.D.1
  • 17
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S, Gascuel O. 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. System Biol. 52: 696-704.
    • (2003) System Biol. , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 19
    • 47249165090 scopus 로고    scopus 로고
    • Origin of introns by "intronization" of exonic sequences
    • Irimia M, et al. 2008. Origin of introns by "intronization" of exonic sequences. Trends Genet. 24:378-381.
    • (2008) Trends Genet. , vol.24 , pp. 378-381
    • Irimia, M.1
  • 20
    • 33750329972 scopus 로고    scopus 로고
    • Reconstructing the early evolution of fungi using a six-gene phylogeny
    • James TY, et al. 2006. Reconstructing the early evolution of fungi using a six-gene phylogeny. Nature 443:818-822.
    • (2006) Nature , vol.443 , pp. 818-822
    • James, T.Y.1
  • 22
    • 45949107473 scopus 로고    scopus 로고
    • Recent developments in the MAFFT multiple sequence alignment program
    • Katoh K, Toh H. 2008. Recent developments in the MAFFT multiple sequence alignment program. Brief Bioinformatics 9:286-298.
    • (2008) Brief Bioinformatics , vol.9 , pp. 286-298
    • Katoh, K.1    Toh, H.2
  • 23
    • 69249211050 scopus 로고    scopus 로고
    • Intron-dominated genomes of early ancestors of eukaryotes
    • Koonin EV. 2009. Intron-dominated genomes of early ancestors of eukaryotes. J Hered. 100:618-623.
    • (2009) J Hered. , vol.100 , pp. 618-623
    • Koonin, E.V.1
  • 24
    • 34249703972 scopus 로고    scopus 로고
    • The emergence of alternative 30 and 50 splice site exons from constitutive exons
    • Koren E, Lev-Maor G, Ast G. 2007. The emergence of alternative 30 and 50 splice site exons from constitutive exons. PLoS Comput Biol. 3: 895-908.
    • (2007) PLoS Comput Biol. , vol.3 , pp. 895-908
    • Koren, E.1    Lev-Maor, G.2    Ast, G.3
  • 25
    • 75649124547 scopus 로고    scopus 로고
    • De novo assembly of human genomes with massively parallel short read sequencing
    • Li R, et al. 2010. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20:265-272.
    • (2010) Genome Res. , vol.20 , pp. 265-272
    • Li, R.1
  • 26
    • 70849137211 scopus 로고    scopus 로고
    • Extensive, recent intron gains in Daphnia populations
    • Li W, Tucker AE, Sung W, Thomas WK, Lynch M. 2009. Extensive, recent intron gains in Daphnia populations. Science 326:1260-1262.
    • (2009) Science , vol.326 , pp. 1260-1262
    • Li, W.1    Tucker, A.E.2    Sung, W.3    Thomas, W.K.4    Lynch, M.5
  • 27
    • 0022000773 scopus 로고
    • Intron exon structure of the chicken pyruvate-kinase gene
    • Lonberg N, Gilbert W. 1985. Intron exon structure of the chicken pyruvate-kinase gene. Cell 40:81-90.
    • (1985) Cell , vol.40 , pp. 81-90
    • Lonberg, N.1    Gilbert, W.2
  • 28
    • 0037197986 scopus 로고    scopus 로고
    • Intron evolution as a population-genetic process
    • Lynch M. 2002. Intron evolution as a population-genetic process. Proc Natl Acad Sci U S A. 99:6118-6123.
    • (2002) Proc Natl Acad Sci U S A. , vol.99 , pp. 6118-6123
    • Lynch, M.1
  • 29
    • 30744475434 scopus 로고    scopus 로고
    • The origins of eukaryotic gene structure
    • Lynch M. 2006. The origins of eukaryotic gene structure. Mol Biol Evol. 23: 450-468.
    • (2006) Mol Biol Evol. , vol.23 , pp. 450-468
    • Lynch, M.1
  • 31
  • 32
    • 77949714038 scopus 로고    scopus 로고
    • Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium
    • Ma L-J, et al. 2010. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature 464:367-373.
    • (2010) Nature , vol.464 , pp. 367-373
    • Ma, L.-J.1
  • 33
    • 43449098828 scopus 로고    scopus 로고
    • Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)
    • Martinez D, et al. 2008. Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat Biotechnol. 26:553-560.
    • (2008) Nat Biotechnol. , vol.26 , pp. 553-560
    • Martinez, D.1
  • 34
    • 64949161460 scopus 로고    scopus 로고
    • Pathogen profile update: Fusarium oxysporum
    • Michielse CB, Rep M. 2009. Pathogen profile update: Fusarium oxysporum. Mol Plant Pathol. 10:311-324.
    • (2009) Mol Plant Pathol. , vol.10 , pp. 311-324
    • Michielse, C.B.1    Rep, M.2
  • 35
    • 0038780670 scopus 로고    scopus 로고
    • Eukaryotic intron loss
    • Mourier T, Jeffares DC. 2003. Eukaryotic intron loss. Science 300:1393.
    • (2003) Science , vol.300 , pp. 1393
    • Mourier, T.1    Jeffares, D.C.2
  • 37
    • 8644265007 scopus 로고    scopus 로고
    • Genetic diversity of human pathogenic members of the Fusarium oxysporum complex inferred from multilocus DNA sequence data and amplified fragment length polymorphism analyses: Evidence for the recent dispersion of a geographically widespread clonal lineage and nosocomial origin
    • O'Donnell K, et al. 2004. Genetic diversity of human pathogenic members of the Fusarium oxysporum complex inferred from multilocus DNA sequence data and amplified fragment length polymorphism analyses: evidence for the recent dispersion of a geographically widespread clonal lineage and nosocomial origin. J Clin Microbiol. 42: 5109-5120.
    • (2004) J Clin Microbiol. , vol.42 , pp. 5109-5120
    • O'Donnell, K.1
  • 38
    • 62349130224 scopus 로고    scopus 로고
    • Estimation of the current global burden of cryptococcal meningitis among persons living with HIV/AIDS
    • Park BJ, et al. 2009. Estimation of the current global burden of cryptococcal meningitis among persons living with HIV/AIDS. AIDS 23: 525-530.
    • (2009) AIDS , vol.23 , pp. 525-530
    • Park, B.J.1
  • 39
    • 33747188649 scopus 로고    scopus 로고
    • Intron-rich ancestors
    • Roy S. 2006. Intron-rich ancestors. Trends Genet. 22:468-471.
    • (2006) Trends Genet. , vol.22 , pp. 468-471
    • Roy, S.1
  • 40
    • 70349100354 scopus 로고    scopus 로고
    • Intronization, de-intronization, and intron sliding are rare in Cryptococcus
    • Roy SW. 2009. Intronization, de-intronization, and intron sliding are rare in Cryptococcus. BMC Evol Biol. 9:192.
    • (2009) BMC Evol Biol. , vol.9 , pp. 192
    • Roy, S.W.1
  • 41
    • 33644847698 scopus 로고    scopus 로고
    • The evolution of spliceosomal introns: Patterns, puzzles, and progress
    • Roy SW, Gilbert W. 2006. The evolution of spliceosomal introns: patterns, puzzles, and progress. Nat Rev Genet. 7:211-221.
    • (2006) Nat Rev Genet. , vol.7 , pp. 211-221
    • Roy, S.W.1    Gilbert, W.2
  • 42
    • 84866329751 scopus 로고    scopus 로고
    • Genome evolution: Where do new introns come from
    • Roy SW, Irimia M. 2012. Genome evolution: where do new introns come from? Curr Biol. 22:R529-R531.
    • (2012) Curr Biol , vol.22
    • Roy, S.W.1    Irimia, M.2
  • 43
    • 59349107038 scopus 로고    scopus 로고
    • Mystery of intron gain: New data and new models
    • Roy SW, Irimia M. 2009. Mystery of intron gain: new data and new models. Trends Genet. 25:67-73.
    • (2009) Trends Genet. , vol.25 , pp. 67-73
    • Roy, S.W.1    Irimia, M.2
  • 45
    • 0038486897 scopus 로고    scopus 로고
    • Intronic sequences flanking alternatively spliced exons are conserved between human and mouse
    • Sorek R, Ast G. 2003. Intronic sequences flanking alternatively spliced exons are conserved between human and mouse. Genome Res. 13: 1631-1637.
    • (2003) Genome Res. , vol.13 , pp. 1631-1637
    • Sorek, R.1    Ast, G.2
  • 46
    • 33646904207 scopus 로고    scopus 로고
    • Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans
    • Stajich JE, Dietrich FS. 2006. Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans. Eukaryot Cell. 5:789-793.
    • (2006) Eukaryot Cell. , vol.5 , pp. 789-793
    • Stajich, J.E.1    Dietrich, F.S.2
  • 47
    • 42949174108 scopus 로고    scopus 로고
    • Comparative genomic analysis of fungal genomes reveals intron-rich ancestors
    • Stajich JE, Dietrich FS, Roy SW. 2007. Comparative genomic analysis of fungal genomes reveals intron-rich ancestors. Genome Biol. 8:R223.
    • (2007) Genome Biol. , vol.8
    • Stajich, J.E.1    Dietrich, F.S.2    Roy, S.W.3
  • 48
    • 55049094489 scopus 로고    scopus 로고
    • The oldest fossil evidence of animal parasitism by fungi supports a Cretaceous diversification of fungal-arthropod symbioses
    • Sung G-H, Poinar GO Jr, Spatafora JW. 2008. The oldest fossil evidence of animal parasitism by fungi supports a Cretaceous diversification of fungal-arthropod symbioses. Mol Phylogenet Evol. 49:495-502.
    • (2008) Mol Phylogenet Evol. , vol.49 , pp. 495-502
    • Sung, G.-H.1    Poinar Jr., G.O.2    Spatafora, J.W.3
  • 50
    • 46449086933 scopus 로고    scopus 로고
    • Both catalytic steps of nuclear pre-mRNA splicing are reversible
    • Tseng C-K, Cheng S-C. 2008. Both catalytic steps of nuclear pre-mRNA splicing are reversible. Science 320:1782-1784.
    • (2008) Science , vol.320 , pp. 1782-1784
    • Tseng, C.-K.1    Cheng, S.-C.2
  • 51
    • 84863723204 scopus 로고    scopus 로고
    • Birth of new spliceosomal introns in fungi by multiplication of introner-like elements
    • van der Burgt A, Severing E, de Wit PJGM, Collémare J. 2012. Birth of new spliceosomal introns in fungi by multiplication of introner-like elements. Curr Biol. 22:1260-1265.
    • (2012) Curr Biol. , vol.22 , pp. 1260-1265
    • Van Der Burgt, A.1    Severing, E.2    De Wit, P.J.G.M.3    Collémare, J.4
  • 52
    • 64849088316 scopus 로고    scopus 로고
    • Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas
    • Worden AZ, et al. 2009. Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science 324:268-272.
    • (2009) Science , vol.324 , pp. 268-272
    • Worden, A.Z.1
  • 53
    • 0033675677 scopus 로고    scopus 로고
    • Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans
    • Xu J, Vilgalys R, Mitchell TG. 2000. Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans. Mol Ecol. 9:1471-1481.
    • (2000) Mol Ecol. , vol.9 , pp. 1471-1481
    • Xu, J.1    Vilgalys, R.2    Mitchell, T.G.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.