Varshney R K,Nayak S N,May G D,et al.Next-generation sequencing technologies and their implications for crop genetics and breeding[J].Trends in Biotechnology,2009,27(9):522-530.
[2]
Service R F.Gene sequencing,the race for the $1 000 genome[J].Science,2006,311(5767):1544-1546.
[3]
Margulies M,Egholm M,Altman W E, et al. Genome sequencing in microfabricated high-density picolitre reactors[J].Nature,2005,437(757):376-380.
[4]
Wicker T,Schlagenhauf E,Graner A, et al. 454 sequencing put to the test using the complex genome of barley[J].BMC Genomics,2006,7:275.
[5]
Glazov E A,Cottee P A,Barris W C,et al.A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach[J].Genome Research,2008,18(6):957-964.
[6]
Morozova O,Marra M A.Applications of next-generation sequencing technologies in functional genomics[J].Genomics,2008,92(5):255-264.
[7]
Harris T D,Buzby P R,Babcock H,et al.Single-molecule DNA sequencing of a viral genome[J].Science,2008,320(5872):106-109.
[8]
Eid J,Fehr A,Gray J,et al.Real-time DNA sequencing fromsingle polymerase molecules[J].Science,2009,323(5910):133-138.
Calderon-Vazquez C,Ibarra-Laclette E,Caballero-Perez J, et al.Transcript profiling of Zea mays Roots reveals gene responses to phosphate deficiency at the plant-and species-specific levels[J].Journal of Experimental Botany,2008,59(9):2479-2497.
[13]
许长征.玉米根系对低磷胁迫响应的转录组分析[D].济南:山东大学,2009.
[14]
Poroyko V,Hejlek L G,Spollen W G,et al.The maize root transcriptome by serial analysis of gene expression[J].Plant Physiology,2005,138(3):1700-1710.
[15]
Fizames C,Munos S,Cazettes C,et al.The Arabidopsis root transcriptome by serial analysis of gene expression [J].Plant Physiol,2004,134:67-80.
[16]
Wang X,Elling A A,Li X,et al.Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and small RNA transcriptomes in maize[J].The Plant Cell,2009,21(4):1053-1069.
[17]
Trevisan S,Manoli A,Begheldo M, et al. Transcriptome analysis reveals coordinated spatiotemporal regulation of hemoglobin and nitrate reductase in response to nitrate in maize Roots[J].The New Phytologist,2011,192(2):338-352.
[18]
Casati P,Morrow D J,Fernandes J F,et al.UV-B signaling in maize:transcriptomic and metabolomic studies at different irradiation times[J].Plant Signaling & Behavior,2011,6(12):1926-1931.
[19]
Guo M,Mary AR,Christopher Z,et al.Variation of gene expression in maize hybrids [J].The Plant Cell,2004.16:1707-1716.
[20]
项仲凯.新一代测序技术对玉米转录组的研究[D].北京:中国农业大学,2010.
[21]
Eckardt N A.Deep sequencing maps the maize epigenomic landscape[J].The Plant Cell,2009,21(4):1024-1026.
[22]
Cokus S J,Feng S,Zhang X,et al.Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning[J].Nature,2008,452(7184):215-219.
[23]
Elling A A,Deng X W.Next-generation sequencing reveals complex relationships between the epigenome and transcriptome in maize[J].Plant Signaling & Behavior,2009,4(8):760-762.
[24]
Nobuta K,Lu C,Shrivastava R,et al.Distinct size distribution of endogeneous siRNAs in maize:Evidence from deep sequencing in the mop1-1 mutant[J].Proceedings of the National Academy of Sciences of the United States of America,2008,105(39):14958-14963.
[25]
Gupta P K,Roy J K,Prasad M.Single nucleotide polymorphisms:A new paradigm for molecular marker technology and DNA polymorphism detection with emphasis on their use in plants[J].Current Science,2001,80(4):524-535.
[26]
Novaes E,Drost D R,Farmerie W G,et al.High-throughput gene and SNP discovery in Eucalyptus grandis,an uncharacterized genome[J].BMC Genomics,2008,9(1):312.
[27]
Ponting R C,Drayton M C,Cogan N O,et al.SNP discovery,validation,haplotype structure and linkage disequilibrium in full-length herbage nutritive quality genes of perennial ryegrass ( Lolium perenne L.) [J].Molecular Genetics and Genomics:MGG,2007,278(5):585-597.
[28]
Barbazuk W B,Emrich S J,Chen H D, et al.SNP discovery via 454 transcriptome sequencing[J].The Plant Journal:for Cell and Molecular Biology,2007,51(5):910-918.
[29]
Springer N M,Ying K,Fu Y,et al.Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content[J].PLOS Genetics,2009,5(11):e1000734.
[30]
Ruth A,Yi J,Rhonda D C, et al.All possible modes of gene action are observed in a global comparison of gene expression in a maize F1 hybrid and its inbred parents[J].PANS,2006,103(18):6805-6810.
[31]
Guo M,Rupe M A,Yang X, et al. Genome-wide transcript analysis of maize hybrids:allelic additive gene expression and yield heterosis[J].Theoretical and Applied Genetics,2006,113(5):831-845.
International H.Genome sequencing consortium initial sequencing and analysis of the human genome[J].Nature,2001,409(6822):860-921.
[34]
International H.Genome sequencing consortium finishing the euchromatic sequence of the human genome[J].Nature,2004,431(7011):931-945.
[35]
Moxon S,Jing R,Szittya G,et al.Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening[J].Genome Research,2008,18(10):1602-1609.
[36]
Wei B,Cai T,Zhang R,et al.Novel microRNAs uncovered by deep sequencing of small RNA transcriptomes in bread wheat (Triticum aestivum L.) and Brachypodium distachyon (L.) Beauv[J].Functional & Integrative Genomics,2009,9(4):499-511.
[37]
Yamaguchi T,Nakayama K,Hayashi T, et al.cDNA microarray analysis of rice anther genes under chilling stress at the microsporogenesis stage revealed two genes with DNA transposon castaway in the 5''-flanking region[J].Bioscience Biotechnology and Biochemistry,2004,68(6):1315-1323.
[38]
Liu X X,Chen C.De Novo assembly of allotetraploid arabidopsis suecica transcriptome using short reads for gene discovery and marker identification[J].China Biotechnology,2011,31(7):45-53.
Guan H,Liu C,Zhao Y,et al.Characterization,fine mapping and expression profiling of Ragged leaves 1 in maize[J].Theoretical and Applied Genetics,2012,125(6):1125-1135.
Xiong Y Q,Li Q B,Kang B H,et al.Discovery of genes expressed in basal endosperm transfer cells in maize using 454 transcriptome sequencing[J].Plant Molecular Biology Reporter,2011,29(4):835-847.
[47]
付亚茹.玉米气生根早期发育的转录组和候选基因的功能分析[D].泰安:山东农业大学,2011.
[48]
Sekhon R S,Lin H,Childs K L, et al. Genome-wide Atlas of transcription during maize development[J].The Plant Journal:for Cell and Molecular Biology,2011,66(4):553-563.
[49]
Paschold A,Marcon C,Hoecker N,et al.Molecular dissection of heterosis manifestation during early maize root development[J].Theoretical and Applied Genetics,2010,120(2):383-388.
