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Volumn 9, Issue 4, 2014, Pages

The draft genome sequence of European pear (Pyrus communis L. 'Bartlett')

(37)  Chagné, David a   Crowhurst, Ross N a   Pindo, Massimo b   Thrimawithana, Amali a   Deng, Cecilia a   Ireland, Hilary a   Fiers, Mark c   Dzierzon, Helge a   Cestaro, Alessandro b   Fontana, Paolo b   Bianco, Luca b   Lu, Ashley c   Storey, Roy a   Knäbel, Mareike a,d   Saeed, Munazza a,e   Montanari, Sara a,b,f   Kim, Yoon Kyeong g   Nicolini, Daniela b   Larger, Simone b   Stefani, Erika b   more..


Author keywords

[No Author keywords available]

Indexed keywords

PLANT DNA; GENETIC MARKER; PLANT RNA; PROTEOME;

EID: 84899102199     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0092644     Document Type: Article
Times cited : (217)

References (61)
  • 4
    • 70649085835 scopus 로고    scopus 로고
    • The genome of the cucumber, Cucumis sativus L
    • Huang S, Li R, Zhang Z, Li L, Gu X, et al. (2009) The genome of the cucumber, Cucumis sativus L. Nature Genetics 41: 1275-U1229.
    • (2009) Nature Genetics , vol.41
    • Huang, S.1    Li, R.2    Zhang, Z.3    Li, L.4    Gu, X.5
  • 5
    • 34848886909 scopus 로고    scopus 로고
    • The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
    • Jaillon O, Aury J-M, Noel B, Policriti A, Clepet C, et al. (2007) The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 449: 463-U465.
    • (2007) Nature , vol.449
    • Jaillon, O.1    Aury, J.-M.2    Noel, B.3    Policriti, A.4    Clepet, C.5
  • 6
    • 42949157236 scopus 로고    scopus 로고
    • The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
    • Ming R, Hou S, Feng Y, Yu Q, Dionne-Laporte A, et al. (2008) The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature 452: 991-U997.
    • (2008) Nature , vol.452
    • Ming, R.1    Hou, S.2    Feng, Y.3    Yu, Q.4    Dionne-Laporte, A.5
  • 9
    • 84863693752 scopus 로고    scopus 로고
    • The tomato genome sequence provides insights into fleshy fruit evolution
    • Tomato Genome C (2012) The tomato genome sequence provides insights into fleshy fruit evolution. Nature 485: 635-641.
    • (2012) Nature , vol.485 , pp. 635-641
    • Tomato Genome, C.1
  • 12
    • 41249098849 scopus 로고    scopus 로고
    • A high quality draft consensus sequence of the genome of a heterozygous grapevine variety
    • Velasco R, Zharkikh A, Troggio M, Cartwright DA, Cestaro A, et al. (2007) A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. PLoS One 2: e1326.
    • (2007) PLoS One , vol.2
    • Velasco, R.1    Zharkikh, A.2    Troggio, M.3    Cartwright, D.A.4    Cestaro, A.5
  • 13
    • 79960422847 scopus 로고    scopus 로고
    • Genome sequence and analysis of the tuber crop potato
    • Xu X, Pan S, Cheng S, Zhang B, Mu D, et al. (2011) Genome sequence and analysis of the tuber crop potato. Nature 475: 189-U194.
    • (2011) Nature , vol.475
    • Xu, X.1    Pan, S.2    Cheng, S.3    Zhang, B.4    Mu, D.5
  • 19
    • 84878553926 scopus 로고    scopus 로고
    • The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
    • Verde I, Abbott AG, Scalabrin S, Jung S, Shu S, et al. (2013) The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution. Nat Genet advance online publication.
    • (2013) Nat Genet Advance Online Publication
    • Verde, I.1    Abbott, A.G.2    Scalabrin, S.3    Jung, S.4    Shu, S.5
  • 25
    • 78651259869 scopus 로고    scopus 로고
    • Comparative analysis of rosaceous genomes and the reconstruction of a putative ancestral genome for the family
    • Illa E, Sargent DJ, Girona EL, Bushakra J, Cestaro A, et al. (2011) Comparative analysis of rosaceous genomes and the reconstruction of a putative ancestral genome for the family. BMC Evolutionary Biology 11.
    • (2011) BMC Evolutionary Biology , vol.11
    • Illa, E.1    Sargent, D.J.2    Girona, E.L.3    Bushakra, J.4    Cestaro, A.5
  • 26
    • 84859166720 scopus 로고    scopus 로고
    • Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies
    • Jung S, Cestaro A, Troggio M, Main D, Zheng P, et al. (2012) Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies. BMC Genomics 13.
    • (2012) BMC Genomics , vol.13
    • Jung, S.1    Cestaro, A.2    Troggio, M.3    Main, D.4    Zheng, P.5
  • 28
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead B, Salzberg SL (2012) Fast gapped-read alignment with Bowtie 2. Nature Methods 9: 357-U354.
    • (2012) Nature Methods , vol.9
    • Langmead, B.1    Salzberg, S.L.2
  • 29
    • 77951985425 scopus 로고    scopus 로고
    • The Role of Ethylene and Cold Temperature in the Regulation of the Apple POLYGALACTURONASE1 Gene and Fruit Softening
    • Tacken E, Ireland H, Gunaseelan K, Karunairetnam S, Wang D, et al. (2010) The Role of Ethylene and Cold Temperature in the Regulation of the Apple POLYGALACTURONASE1 Gene and Fruit Softening. Plant Physiology 153: 294-305.
    • (2010) Plant Physiology , vol.153 , pp. 294-305
    • Tacken, E.1    Ireland, H.2    Gunaseelan, K.3    Karunairetnam, S.4    Wang, D.5
  • 30
    • 34249848751 scopus 로고    scopus 로고
    • CEGMA: A pipeline to accurately annotate core genes in eukaryotic genomes
    • DOI 10.1093/bioinformatics/btm071
    • Parra G, Bradnam K, Korf I (2007) CEGMA: a pipeline to accurately annotate core genes in eukaryotic genornes. Bioinformatics 23: 1061-1067. (Pubitemid 47050556)
    • (2007) Bioinformatics , vol.23 , Issue.9 , pp. 1061-1067
    • Parra, G.1    Bradnam, K.2    Korf, I.3
  • 31
    • 84857433347 scopus 로고    scopus 로고
    • Genome-wide SNP detection, validation, and development of an 8K SNP array for apple
    • Chagné D, Crowhurst RN, Troggio M, Davey MW, Gilmore B, et al. (2012) Genome-wide SNP detection, validation, and development of an 8K SNP array for apple. PLoS One 7.
    • (2012) PLoS One , vol.7
    • Chagné, D.1    Crowhurst, R.N.2    Troggio, M.3    Davey, M.W.4    Gilmore, B.5
  • 32
    • 84885405628 scopus 로고    scopus 로고
    • Identification of Pyrus single nucleotide polymorphisms (SNPs) and evaluation for genetic mapping in European pear and interspecific Pyrus hybrids
    • Montanari S, Saeed M, Knäbel M, Kim Y, Troggio M, et al. (2013) Identification of Pyrus single nucleotide polymorphisms (SNPs) and evaluation for genetic mapping in European pear and interspecific Pyrus hybrids. PLoS One 8: e77022.
    • (2013) PLoS One , vol.8
    • Montanari, S.1    Saeed, M.2    Knäbel, M.3    Kim, Y.4    Troggio, M.5
  • 33
    • 84860503096 scopus 로고    scopus 로고
    • Genomic selection for fruit quality traits in apple (Malus6domestica Borkh.)
    • Kumar S, Chagné D, Bink MCAM, Volz RK, Whitworth C, et al. (2012) Genomic selection for fruit quality traits in apple (Malus6domestica Borkh.). PLoS One 7.
    • (2012) PLoS One , vol.7
    • Kumar, S.1    Chagné, D.2    Bink, M.C.A.M.3    Volz, R.K.4    Whitworth, C.5
  • 34
    • 0036226603 scopus 로고    scopus 로고
    • BLAT - The BLAST-like alignment tool
    • Kent WJ (2002) BLAT - The BLAST-like alignment tool. Genome Research 12: 656-664.
    • (2002) Genome Research , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 38
    • 2442713832 scopus 로고    scopus 로고
    • GeneWise and Genomewise
    • DOI 10.1101/gr.1865504
    • Birney E, Clamp M, Durbin R (2004) GeneWise and genomewise. Genome Research 14: 988-995. (Pubitemid 38660520)
    • (2004) Genome Research , vol.14 , Issue.5 , pp. 988-995
    • Birney, E.1    Clamp, M.2    Durbin, R.3
  • 40
    • 34347388470 scopus 로고    scopus 로고
    • UniRef: Comprehensive and non-redundant UniProt reference clusters
    • DOI 10.1093/bioinformatics/btm098
    • Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH (2007) UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 23: 1282-1288. (Pubitemid 47050545)
    • (2007) Bioinformatics , vol.23 , Issue.10 , pp. 1282-1288
    • Suzek, B.E.1    Huang, H.2    McGarvey, P.3    Mazumder, R.4    Wu, C.H.5
  • 41
    • 84859436530 scopus 로고    scopus 로고
    • NCBI Reference Sequences (RefSeq): Current status, new features and genome annotation policy
    • Pruitt KD, Tatusova T, Brown GR, Maglott DR (2012) NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Research 40: D130-D135.
    • (2012) Nucleic Acids Research , vol.40
    • Pruitt, K.D.1    Tatusova, T.2    Brown, G.R.3    Maglott, D.R.4
  • 42
    • 36549003965 scopus 로고    scopus 로고
    • InterPro and InterProScan: Tools for protein sequence classification and comparison
    • DOI 10.1385/1-59745-515-6:59, Comparative Genomics
    • Mulder N, Apweiler R (2007) InterPro and InterProScan: tools for protein sequence classification and comparison. Methods in molecular biology (Clifton, NJ) 396: 59-70. (Pubitemid 350190034)
    • (2007) Methods in Molecular Biology , vol.396 , pp. 59-70
    • Mulder, N.1    Apweiler, R.2
  • 43
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: Identification of ortholog groups for eukaryotic genomes
    • DOI 10.1101/gr.1224503
    • Li L, Stoeckert CJ, Roos DS (2003) OrthoMCL: Identification of ortholog groups for eukaryotic genomes. Genome Research 13: 2178-2189. (Pubitemid 37161775)
    • (2003) Genome Research , vol.13 , Issue.9 , pp. 2178-2189
    • Li, L.1    Stoeckert Jr., C.J.2    Roos, D.S.3
  • 45
    • 29144455282 scopus 로고    scopus 로고
    • De novo identification of repeat families in large genomes
    • DOI 10.1093/bioinformatics/bti1018
    • Price AL, Jones NC, Pevzner PA (2005) De novo identification of repeat families in large genomes. Bioinformatics 21: i351-i358. (Pubitemid 41794508)
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 1
    • Price, A.L.1    Jones, N.C.2    Pevzner, P.A.3
  • 46
    • 65549101705 scopus 로고    scopus 로고
    • TEclass - A tool for automated classification of unknown eukaryotic transposable elements
    • Abrusán G, Grundmann N, DeMester L, Makalowski W (2009) TEclass - a tool for automated classification of unknown eukaryotic transposable elements Bioinformatics 25: 1329-1330.
    • (2009) Bioinformatics , vol.25 , pp. 1329-1330
    • Abrusán, G.1    Grundmann, N.2    DeMester, L.3    Makalowski, W.4
  • 47
    • 67650711615 scopus 로고    scopus 로고
    • SOAP2: An improved ultrafast tool for short read alignment
    • Li RQ, Yu C, Li YR, Lam TW, Yiu SM, et al. (2009) SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25: 1966-1967.
    • (2009) Bioinformatics , vol.25 , pp. 1966-1967
    • Li, R.Q.1    Yu, C.2    Li, Y.R.3    Lam, T.W.4    Yiu, S.M.5
  • 48
    • 84863167808 scopus 로고    scopus 로고
    • Genome resequencing and identification of variations by Illumina Genome Analyzer Reads
    • Wang J, Li R, Li Y, Fang X, Feng B, et al. (2008) Genome resequencing and identification of variations by Illumina Genome Analyzer Reads. Protocol Exchange.
    • (2008) Protocol Exchange
    • Wang, J.1    Li, R.2    Li, Y.3    Fang, X.4    Feng, B.5
  • 52
    • 0032700126 scopus 로고    scopus 로고
    • Modification of expansin protein abundance in tomato fruit alters softening and cell wall polymer metabolism during ripening
    • Brummell DA, Harpster MH, Civello PM, Palys JM, Bennett AB, et al. (1999) Modification of expansin protein abundance in tomato fruit alters softening and cell wall polymer metabolism during ripening. Plant Cell 11: 2203-2216.
    • (1999) Plant Cell , vol.11 , pp. 2203-2216
    • Brummell, D.A.1    Harpster, M.H.2    Civello, P.M.3    Palys, J.M.4    Bennett, A.B.5
  • 53
    • 0038734417 scopus 로고    scopus 로고
    • Differential expression of seven alpha-expansin genes during growth and ripening of pear fruit
    • DOI 10.1034/j.1399-3054.2003.00064.x
    • Hiwasa K, Rose JKC, Nakano R, Inaba A, Kubo Y (2003) Differential expression of seven alpha-expansin genes during growth and ripening of pear fruit. Physiologia Plantarum 117: 564-572. (Pubitemid 36573146)
    • (2003) Physiologia Plantarum , vol.117 , Issue.4 , pp. 564-572
    • Hiwasa, K.1    Rose, J.K.C.2    Nakano, R.3    Inaba, A.4    Kubo, Y.5
  • 55
    • 24944455598 scopus 로고    scopus 로고
    • Expression of genes encoding cell wall modifying enzymes is induced by cold storage and reflects changes in pear fruit texture
    • DOI 10.1093/jxb/eri201
    • Fonseca S, Monteiro L, Barreiro MG, Pais MS (2005) Expression of genes encoding cell wall modifying enzymes is induced by cold storage and reflects changes in pear fruit texture. Journal of Experimental Botany 56: 2029-2036. (Pubitemid 41373553)
    • (2005) Journal of Experimental Botany , vol.56 , Issue.418 , pp. 2029-2036
    • Fonseca, S.1    Monteiro, L.2    Barreiro, M.G.3    Pais, M.S.4
  • 56
    • 38949143251 scopus 로고    scopus 로고
    • Cloning, characterisation and expression analyses of cDNA clones encoding cell wall-modifying enzymes isolated from ripe apples
    • DOI 10.1016/j.postharvbio.2007.09.022, PII S0925521407003031
    • Goulao LF, Cosgrove DJ, Oliveira CM (2008) Cloning, characterisation and expression analyses of cDNA clones encoding cell wall-modifying enzymes isolated from ripe apples. Postharvest Biology and Technology 48: 37-51. (Pubitemid 351215887)
    • (2008) Postharvest Biology and Technology , vol.48 , Issue.1 , pp. 37-51
    • Goulao, L.F.1    Cosgrove, D.J.2    Oliveira, C.M.3
  • 57
    • 84856210930 scopus 로고    scopus 로고
    • Examination of expansin genes as related to apple fruit crispness
    • Trujillo DI, Mann HS, Tong CBS (2012) Examination of expansin genes as related to apple fruit crispness. Tree Genetics & Genomes 8: 27-38.
    • (2012) Tree Genetics & Genomes , vol.8 , pp. 27-38
    • Trujillo, D.I.1    Mann, H.S.2    Tong, C.B.S.3
  • 58
    • 44149108681 scopus 로고    scopus 로고
    • Map position and functional allelic diversity of Md-Exp7, a new putative expansin gene associated with fruit softening in apple (Malus6domestica Borkh.) and pear (Pyrus communis)
    • Costa F, Van de Weg WE, Stella S, Dondini L, Pratesi D, et al. (2008) Map position and functional allelic diversity of Md-Exp7, a new putative expansin gene associated with fruit softening in apple (Malus6domestica Borkh.) and pear (Pyrus communis). Tree Genetics & Genomes 4: 575-586.
    • (2008) Tree Genetics & Genomes , vol.4 , pp. 575-586
    • Costa, F.1    Van De Weg, W.E.2    Stella, S.3    Dondini, L.4    Pratesi, D.5
  • 59
    • 84860015620 scopus 로고    scopus 로고
    • Development and evaluation of a 9K SNP array for peach by internationally coordinated SNP detection and validation in breeding germplasm
    • Verde I, Bassil N, Scalabrin S, Gilmore B, Lawley CT, et al. (2012) Development and evaluation of a 9K SNP array for peach by internationally coordinated SNP detection and validation in breeding germplasm. PLoS One 7.
    • (2012) PLoS One , vol.7
    • Verde, I.1    Bassil, N.2    Scalabrin, S.3    Gilmore, B.4    Lawley, C.T.5
  • 60
    • 79955783956 scopus 로고    scopus 로고
    • A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species
    • Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, et al. (2011) A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One 6.
    • (2011) PLoS One , vol.6
    • Elshire, R.J.1    Glaubitz, J.C.2    Sun, Q.3    Poland, J.A.4    Kawamoto, K.5
  • 61
    • 84856215647 scopus 로고    scopus 로고
    • Towards genomic selection in apple (Malus6domestica Borkh.) breeding programmes: Prospects, challenges and strategies
    • Kumar S, Bink MCAM, Volz RK, Bus VGM, Chagné D (2012) Towards genomic selection in apple (Malus6domestica Borkh.) breeding programmes: Prospects, challenges and strategies. Tree Genetics & Genomes 8: 1-14.
    • (2012) Tree Genetics & Genomes , vol.8 , pp. 1-14
    • Kumar, S.1    Bink, M.C.A.M.2    Volz, R.K.3    Bus, V.G.M.4    Chagné, D.5


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