Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs

Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 3...

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Published inPLoS genetics Vol. 5; no. 11; p. e1000740
Main Authors Soderlund, Carol, Descour, Anne, Kudrna, Dave, Bomhoff, Matthew, Boyd, Lomax, Currie, Jennifer, Angelova, Angelina, Collura, Kristi, Wissotski, Marina, Ashley, Elizabeth, Morrow, Darren, Fernandes, John, Walbot, Virginia, Yu, Yeisoo
Format Journal Article
LanguageEnglish
Published United States Public Library of Science 01.11.2009
Public Library of Science (PLoS)
Subjects
Abiotic stress
Arabidopsis
Arabidopsis - genetics
Base Sequence
Chromosome Mapping - methods
Chromosomes, Plant - genetics
Cloning
Contig Mapping
Corn
DNA binding proteins
DNA Transposable Elements - genetics
DNA, Complementary - genetics
Expressed Sequence Tags
Gene expression
Genes, Plant - genetics
Genetic aspects
Genetics
Genetics and Genomics/Bioinformatics
Genetics and Genomics/Gene Discovery
Genetics and Genomics/Plant Genomes and Evolution
Genomes
Genomics
Internet
Minisatellite Repeats - genetics
Molecular Sequence Data
Oryza - genetics
Oryza sativa
Physiological aspects
Plant Proteins - metabolism
Poly A - genetics
Polymorphism, Single Nucleotide - genetics
Populus - genetics
Sequence Analysis, DNA - methods
Sequence Homology, Nucleic Acid
Sorghum
Sorghum - genetics
Transcription Factors - genetics
Transposons
Zea mays
Zea mays - genetics
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Abstract Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 321 bases of 5' and 3' UTR, respectively, with 8.6% of the FLcDNAs encoding predicted proteins of fewer than 100 amino acids. Approximately 94% of the FLcDNAs were stringently mapped to the maize genome. Although nearly two-thirds of this genome is composed of transposable elements (TEs), only 5.6% of the FLcDNAs contained TE sequences in coding or UTR regions. Approximately 7.2% of the FLcDNAs are putative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis, or poplar annotated genes. A strict FLcDNA assembly generated 24,467 non-redundant sequences, of which 88% have non-maize protein matches. The FLcDNAs were also assembled with 41,759 FLcDNAs in GenBank from other projects, where semi-strict parameters were used to identify 13,368 potentially unique non-redundant sequences from this project. The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource (www.maizecdna.org).
AbstractList   Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 321 bases of 5' and 3' UTR, respectively, with 8.6% of the FLcDNAs encoding predicted proteins of fewer than 100 amino acids. Approximately 94% of the FLcDNAs were stringently mapped to the maize genome. Although nearly two-thirds of this genome is composed of transposable elements (TEs), only 5.6% of the FLcDNAs contained TE sequences in coding or UTR regions. Approximately 7.2% of the FLcDNAs are putative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis, or poplar annotated genes. A strict FLcDNA assembly generated 24,467 non-redundant sequences, of which 88% have non-maize protein matches. The FLcDNAs were also assembled with 41,759 FLcDNAs in GenBank from other projects, where semi-strict parameters were used to identify 13,368 potentially unique non-redundant sequences from this project. The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource (www.maizecdna.org).
Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 321 bases of 5a2 and 3a2 UTR, respectively, with 8.6% of the FLcDNAs encoding predicted proteins of fewer than 100 amino acids. Approximately 94% of the FLcDNAs were stringently mapped to the maize genome. Although nearly two-thirds of this genome is composed of transposable elements (TEs), only 5.6% of the FLcDNAs contained TE sequences in coding or UTR regions. Approximately 7.2% of the FLcDNAs are putative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis, or poplar annotated genes. A strict FLcDNA assembly generated 24,467 non-redundant sequences, of which 88% have non-maize protein matches. The FLcDNAs were also assembled with 41,759 FLcDNAs in GenBank from other projects, where semi-strict parameters were used to identify 13,368 potentially unique non-redundant sequences from this project. The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource ( www.maizecdna.org ). Author Summary To complement the completion of sequencing the maize B73 genome, we sequenced 27,455 full-length cDNAs (FLcDNA) from two maize B73 libraries representing the gene transcripts from most tissues and common abiotic stress conditions. The FLcDNAs are beneficial in determining the exon/intron structure of genes by aligning them to the sequenced genome; 94% of our FLcDNAs aligned to the maize genome. The 27,455 FLcDNAs were compared to gene sequences for rice, sorghum, Arabidopsis, and poplar; 22,874 were found in all four sets, and 1,737 were unique to maize. Two-thirds of the maize genome is composed of a type of repetitive sequence called atransposable elementsa; only 5.6% of the FLcDNA sequence contained any segment homologous to these repeats. In addition to our set, there are three other sets of maize FLcDNAs for a total of 69,306 gene transcripts, where many of them are from different maize lines (i.e. FLcDNAs often have only slight differences reflecting divergence). We assembled these together using parameters that would allow most alleles and recently diverged gene transcripts to align together, resulting in 46,739 unique gene transcripts.
Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 321 bases of 5' and 3' UTR, respectively, with 8.6% of the FLcDNAs encoding predicted proteins of fewer than 100 amino acids. Approximately 94% of the FLcDNAs were stringently mapped to the maize genome. Although nearly two-thirds of this genome is composed of transposable elements (TEs), only 5.6% of the FLcDNAs contained TE sequences in coding or UTR regions. Approximately 7.2% of the FLcDNAs are putative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis, or poplar annotated genes. A strict FLcDNA assembly generated 24,467 non-redundant sequences, of which 88% have non-maize protein matches. The FLcDNAs were also assembled with 41,759 FLcDNAs in GenBank from other projects, where semi-strict parameters were used to identify 13,368 potentially unique non-redundant sequences from this project. The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource (www.maizecdna.org).
Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues and abiotic stress treatments, 27,455 high-quality FLcDNAs were sequenced. The average transcript length was 1.44 kb including 218 bases and 321 bases of 5′ and 3′ UTR, respectively, with 8.6% of the FLcDNAs encoding predicted proteins of fewer than 100 amino acids. Approximately 94% of the FLcDNAs were stringently mapped to the maize genome. Although nearly two-thirds of this genome is composed of transposable elements (TEs), only 5.6% of the FLcDNAs contained TE sequences in coding or UTR regions. Approximately 7.2% of the FLcDNAs are putative transcription factors, suggesting that rare transcripts are well-enriched in our FLcDNA set. Protein similarity searching identified 1,737 maize transcripts not present in rice, sorghum, Arabidopsis , or poplar annotated genes. A strict FLcDNA assembly generated 24,467 non-redundant sequences, of which 88% have non-maize protein matches. The FLcDNAs were also assembled with 41,759 FLcDNAs in GenBank from other projects, where semi-strict parameters were used to identify 13,368 potentially unique non-redundant sequences from this project. The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource ( www.maizecdna.org ). To complement the completion of sequencing the maize B73 genome, we sequenced 27,455 full-length cDNAs (FLcDNA) from two maize B73 libraries representing the gene transcripts from most tissues and common abiotic stress conditions. The FLcDNAs are beneficial in determining the exon/intron structure of genes by aligning them to the sequenced genome; 94% of our FLcDNAs aligned to the maize genome. The 27,455 FLcDNAs were compared to gene sequences for rice, sorghum, Arabidopsis , and poplar; 22,874 were found in all four sets, and 1,737 were unique to maize. Two-thirds of the maize genome is composed of a type of repetitive sequence called “transposable elements”; only 5.6% of the FLcDNA sequence contained any segment homologous to these repeats. In addition to our set, there are three other sets of maize FLcDNAs for a total of 69,306 gene transcripts, where many of them are from different maize lines (i.e. FLcDNAs often have only slight differences reflecting divergence). We assembled these together using parameters that would allow most alleles and recently diverged gene transcripts to align together, resulting in 46,739 unique gene transcripts.
Audience Academic
Author Walbot, Virginia
Angelova, Angelina
Descour, Anne
Yu, Yeisoo
Wissotski, Marina
Currie, Jennifer
Bomhoff, Matthew
Collura, Kristi
Morrow, Darren
Ashley, Elizabeth
Fernandes, John
Boyd, Lomax
Kudrna, Dave
Soderlund, Carol
AuthorAffiliation 2 Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona, United States of America
The Salk Institute for Biological Studies, United States of America
1 BIO5 Institute, University of Arizona, Tucson, Arizona, United States of America
3 Department of Biology, Stanford University, Stanford, California, United States of America
AuthorAffiliation_xml – name: 2 Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona, United States of America
– name: 1 BIO5 Institute, University of Arizona, Tucson, Arizona, United States of America
– name: 3 Department of Biology, Stanford University, Stanford, California, United States of America
– name: The Salk Institute for Biological Studies, United States of America
Author_xml – sequence: 1
  givenname: Carol
  surname: Soderlund
  fullname: Soderlund, Carol
  email: cari@agcol.arizona.edu
  organization: BIO5 Institute, University of Arizona, Tucson, Arizona, USA. cari@agcol.arizona.edu
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  surname: Bomhoff
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– sequence: 14
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  surname: Yu
  fullname: Yu, Yeisoo
BackLink https://www.ncbi.nlm.nih.gov/pubmed/19936069$$D View this record in MEDLINE/PubMed
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Cites_doi 10.1101/gr.5396706
10.1038/nature03895
10.1093/nar/gkm883
10.1093/nar/gkm841
10.1101/gr.8.3.195
10.1104/pp.105.061978
10.1093/bioinformatics/bti551
10.1038/35048692
10.1093/bib/3.3.285
10.1101/gr.4249906
10.1105/tpc.1.12.1175
10.1016/S0014-5793(03)01041-X
10.1093/bioinformatics/btl107
10.1093/nar/gkm1041
10.1101/gr.229202. Article published online before March 2002
10.1101/gr.2780504
10.1186/1471-2164-10-400
10.1534/genetics.106.064006
10.1101/gr.8.11.1113
10.1073/pnas.0502923102
10.1007/s11103-008-9415-4
10.1089/10665270050081478
10.1105/tpc.021345
10.1038/nature07723
10.1073/pnas.0603080103
10.1016/j.pbi.2006.01.013
10.1093/nar/gkm968
10.1093/nar/gki070
10.1126/science.1128691
10.1101/gr.1239303
10.1074/jbc.M702207200
10.1126/science.1178534
10.1101/gr.9.9.868
10.1101/gr.8.3.175
10.1104/pp.113.1.93
10.1093/bioinformatics/bth302
10.1101/gr.2332504
10.1093/bioinformatics/bti334
10.1016/S0168-9525(00)02024-2
10.1111/j.1365-313X.2006.02905.x
10.1111/j.1467-7652.2008.00360.x
10.1073/pnas.1434476100
10.1371/journal.pgen.0030123
10.1105/tpc.5.12.1795
10.1105/tpc.2.11.1039
10.1093/nar/gkn723
10.1073/pnas.0406163101
10.1093/nar/gkl976
10.1101/gr.1318503
10.1101/gr.189102
ContentType Journal Article
Copyright COPYRIGHT 2009 Public Library of Science
Soderlund et al. 2009
2009 Soderlund et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, et al. (2009) Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs. PLoS Genet 5(11): e1000740. doi:10.1371/journal.pgen.1000740
Copyright_xml – notice: COPYRIGHT 2009 Public Library of Science
– notice: Soderlund et al. 2009
– notice: 2009 Soderlund et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, et al. (2009) Sequencing, Mapping, and Analysis of 27,455 Maize Full-Length cDNAs. PLoS Genet 5(11): e1000740. doi:10.1371/journal.pgen.1000740
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ITC
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Conceived and designed the experiments: CS AD VW YY. Performed the experiments: AA KC MW EA. Analyzed the data: CS AD MB JC JF YY. Contributed reagents/materials/analysis tools: DK MB LB DM VW. Wrote the paper: CS AD VW YY.
OpenAccessLink https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2774520/
PMID 19936069
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References 17933783 - Nucleic Acids Res. 2008 Jan;36(Database issue):D966-9
19709403 - BMC Genomics. 2009;10:400
9521923 - Genome Res. 1998 Mar;8(3):195-202
17984077 - Nucleic Acids Res. 2008 Jan;36(Database issue):D947-53
15731212 - Bioinformatics. 2005 May 15;21(10):2568-9
9847076 - Genome Res. 1998 Nov;8(11):1113-30
17670748 - J Biol Chem. 2007 Sep 28;282(39):28915-28
2535537 - Plant Cell. 1989 Dec;1(12):1175-83
15388850 - Proc Natl Acad Sci U S A. 2004 Oct 5;101(40):14349-54
9008391 - Plant Physiol. 1997 Jan;113(1):93-102
10890397 - J Comput Biol. 2000 Feb-Apr;7(1-2):203-14
12045139 - Genome Res. 2002 Jun;12(6):851-6
14656961 - Genome Res. 2003 Dec;13(12):2533-40
19189423 - Nature. 2009 Jan 29;457(7229):551-6
9521921 - Genome Res. 1998 Mar;8(3):175-85
12230037 - Brief Bioinform. 2002 Sep;3(3):285-95
16339046 - Genome Res. 2006 Jan;16(1):115-22
18937034 - Plant Mol Biol. 2009 Jan;69(1-2):179-94
17658954 - PLoS Genet. 2007 Jul;3(7):e123
15466291 - Genome Res. 2004 Oct;14(10A):1932-7
15608167 - Nucleic Acids Res. 2005 Jan 1;33(Database issue):D154-9
17984083 - Nucleic Acids Res. 2008 Jan;36(Database issue):D440-4
11932250 - Genome Res. 2002 Apr;12(4):656-64
18940867 - Nucleic Acids Res. 2009 Jan;37(Database issue):D26-31
17145706 - Nucleic Acids Res. 2007 Jan;35(Database issue):D883-7
15951422 - Proc Natl Acad Sci U S A. 2005 Jun 21;102(25):9068-73
10508846 - Genome Res. 1999 Sep;9(9):868-77
16166258 - Plant Physiol. 2005 Sep;139(1):27-38
11130711 - Nature. 2000 Dec 14;408(6814):796-815
14596907 - FEBS Lett. 2003 Nov 6;554(1-2):17-22
17076806 - Plant J. 2006 Dec;48(5):710-27
17110490 - Genetics. 2007 Jan;175(1):429-39
16459128 - Curr Opin Plant Biol. 2006 Apr;9(2):172-6
10547847 - Methods Mol Biol. 2000;132:365-86
16755508 - Genet Mol Res. 2006;5(1):169-81
1967051 - Plant Cell. 1990 Nov;2(11):1039-49
15130926 - Bioinformatics. 2004 Nov 1;20(16):2865-6
15972284 - Bioinformatics. 2005 Aug 15;21(16):3448-9
16551659 - Bioinformatics. 2006 May 15;22(10):1286-7
10827456 - Trends Genet. 2000 Jun;16(6):276-7
16973872 - Science. 2006 Sep 15;313(5793):1596-604
18643947 - Plant Biotechnol J. 2008 Oct;6(8):782-98
19965430 - Science. 2009 Nov 20;326(5956):1112-5
18063570 - Nucleic Acids Res. 2008 Jan;36(Database issue):D959-65
16951135 - Genome Res. 2006 Sep;16(9):1159-68
15208399 - Plant Cell. 2004 Jul;16(7):1667-78
8305872 - Plant Cell. 1993 Dec;5(12):1795-805
15466289 - Genome Res. 2004 Oct;14(10A):1916-23
14530400 - Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12265-70
17101975 - Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17644-9
14597658 - Genome Res. 2003 Nov;13(11):2498-504
16100779 - Nature. 2005 Aug 11;436(7052):793-800
KA Marrs (ref37) 1997; 113
SJ Emrich (ref6) 2007; 175
J Jia (ref12) 2006; 48
NN Alexandrov (ref14) 2009; 69
LK Anderson (ref34) 2006; 16
J Fernandes (ref43) 2008; 6
S Ouyang (ref20) 2007; 35
X Huang (ref47) 1999; 9
WM Nelson (ref10) 2005; 139
(ref24) 2008; 36
J Lai (ref36) 2005; 102
M Biswas (ref32) 2002; 3
J Duvick (ref41) 2008; 36
ES Buckler (ref2) 2006; 9
DA Benson (ref8) 2009; 37
PS Schnable (ref9) 2009; 326
(ref22) 2000; 408
C Baudet (ref15) 2006; 5
A Bairoch (ref29) 2005; 33
K Ilic (ref35) 2003; 100
VL Chandler (ref30) 1989; 1
S Fujimori (ref19) 2003; 554
WJ Kent (ref33) 2002; 12
KC Cone (ref31) 1993; 5
D Gordon (ref49) 1998; 8
GA Tuskan (ref23) 2006; 313
S Rozen (ref48) 2000
RW Michelmore (ref52) 1998; 8
Z Swigonova (ref7) 2004; 14
A Guo (ref28) 2005; 21
C Liang (ref42) 2008; 36
P Shannon (ref51) 2003; 13
L Zhang (ref4) 2003; 13
B Ewing (ref44) 1998; 8
GK Wong (ref18) 2002; 12
G Blanc (ref3) 2004; 16
(ref17) 2005; 436
Z Zhang (ref46) 2000; 7
AY Guo (ref26) 2008; 36
CA Soderlund (ref16) 2009; 10
J Messing (ref5) 2004; 101
J Lai (ref13) 2004; 14
Q Wang (ref1) 2006; 103
S Li (ref45) 2004; 20
C Soderlund (ref40) 2006; 16
G Gao (ref27) 2006; 22
F Wei (ref11) 2007; 3
LF Thatcher (ref39) 2007; 282
AH Paterson (ref21) 2009; 457
J Nash (ref38) 1990; 2
P Rice (ref50) 2000; 16
S Maere (ref25) 2005; 21
References_xml – volume: 16
  start-page: 1159
  year: 2006
  ident: ref40
  article-title: SyMAP: A system for discovering and viewing syntenic regions of FPC maps.
  publication-title: Genome Res
  doi: 10.1101/gr.5396706
  contributor:
    fullname: C Soderlund
– volume: 436
  start-page: 793
  year: 2005
  ident: ref17
  article-title: The map-based sequence of the rice genome.
  publication-title: Nature
  doi: 10.1038/nature03895
– volume: 36
  start-page: D440
  year: 2008
  ident: ref24
  article-title: The Gene Ontology project in 2008.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkm883
– volume: 36
  start-page: D966
  year: 2008
  ident: ref26
  article-title: PlantTFDB: a comprehensive plant transcription factor database.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkm841
  contributor:
    fullname: AY Guo
– volume: 8
  start-page: 195
  year: 1998
  ident: ref49
  article-title: Consed: a graphical tool for sequence finishing.
  publication-title: Genome Res
  doi: 10.1101/gr.8.3.195
  contributor:
    fullname: D Gordon
– volume: 139
  start-page: 27
  year: 2005
  ident: ref10
  article-title: Whole-genome validation of high-information-content fingerprinting.
  publication-title: Plant Physiol
  doi: 10.1104/pp.105.061978
  contributor:
    fullname: WM Nelson
– volume: 21
  start-page: 3448
  year: 2005
  ident: ref25
  article-title: BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks.
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bti551
  contributor:
    fullname: S Maere
– volume: 408
  start-page: 796
  year: 2000
  ident: ref22
  article-title: Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.
  publication-title: Nature
  doi: 10.1038/35048692
– volume: 3
  start-page: 285
  year: 2002
  ident: ref32
  article-title: Applications of InterPro in protein annotation and genome analysis.
  publication-title: Brief Bioinform
  doi: 10.1093/bib/3.3.285
  contributor:
    fullname: M Biswas
– volume: 16
  start-page: 115
  year: 2006
  ident: ref34
  article-title: Uneven distribution of expressed sequence tag loci on maize pachytene chromosomes.
  publication-title: Genome Res
  doi: 10.1101/gr.4249906
  contributor:
    fullname: LK Anderson
– volume: 1
  start-page: 1175
  year: 1989
  ident: ref30
  article-title: Two regulatory genes of the maize anthocyanin pathway are homologous: isolation of B utilizing R genomic sequences.
  publication-title: Plant Cell
  doi: 10.1105/tpc.1.12.1175
  contributor:
    fullname: VL Chandler
– volume: 554
  start-page: 17
  year: 2003
  ident: ref19
  article-title: A novel feature of microsatellites in plants: a distribution gradient along the direction of transcription.
  publication-title: FEBS Lett
  doi: 10.1016/S0014-5793(03)01041-X
  contributor:
    fullname: S Fujimori
– volume: 22
  start-page: 1286
  year: 2006
  ident: ref27
  article-title: DRTF: a database of rice transcription factors.
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btl107
  contributor:
    fullname: G Gao
– volume: 5
  start-page: 169
  year: 2006
  ident: ref15
  article-title: Analysis of slipped sequences in EST projects.
  publication-title: Genet Mol Res
  contributor:
    fullname: C Baudet
– volume: 36
  start-page: D959
  year: 2008
  ident: ref41
  article-title: PlantGDB: a resource for comparative plant genomics.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkm1041
  contributor:
    fullname: J Duvick
– volume: 12
  start-page: 656
  year: 2002
  ident: ref33
  article-title: BLAT–the BLAST-like alignment tool.
  publication-title: Genome Res
  doi: 10.1101/gr.229202. Article published online before March 2002
  contributor:
    fullname: WJ Kent
– volume: 14
  start-page: 1932
  year: 2004
  ident: ref13
  article-title: Characterization of the maize endosperm transcriptome and its comparison to the rice genome.
  publication-title: Genome Res
  doi: 10.1101/gr.2780504
  contributor:
    fullname: J Lai
– volume: 10
  start-page: 400
  year: 2009
  ident: ref16
  article-title: PAVE: Program for assembling and viewing ESTs.
  publication-title: BMC Genomics
  doi: 10.1186/1471-2164-10-400
  contributor:
    fullname: CA Soderlund
– volume: 175
  start-page: 429
  year: 2007
  ident: ref6
  article-title: Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution.
  publication-title: Genetics
  doi: 10.1534/genetics.106.064006
  contributor:
    fullname: SJ Emrich
– start-page: 365
  year: 2000
  ident: ref48
  article-title: Primer3 on the WWW for general users and for biologist programmers.
  contributor:
    fullname: S Rozen
– volume: 8
  start-page: 1113
  year: 1998
  ident: ref52
  article-title: Clusters of resistance genes in plants evolve by divergent selection and a birth-and-death process.
  publication-title: Genome Res
  doi: 10.1101/gr.8.11.1113
  contributor:
    fullname: RW Michelmore
– volume: 102
  start-page: 9068
  year: 2005
  ident: ref36
  article-title: Gene movement by Helitron transposons contributes to the haplotype variability of maize.
  publication-title: Proc Natl Acad Sci U S A
  doi: 10.1073/pnas.0502923102
  contributor:
    fullname: J Lai
– volume: 69
  start-page: 179
  year: 2009
  ident: ref14
  article-title: Insights into corn genes derived from large-scale cDNA sequencing.
  publication-title: Plant Mol Biol
  doi: 10.1007/s11103-008-9415-4
  contributor:
    fullname: NN Alexandrov
– volume: 7
  start-page: 203
  year: 2000
  ident: ref46
  article-title: A greedy algorithm for aligning DNA sequences.
  publication-title: J Comput Biol
  doi: 10.1089/10665270050081478
  contributor:
    fullname: Z Zhang
– volume: 16
  start-page: 1667
  year: 2004
  ident: ref3
  article-title: Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes.
  publication-title: Plant Cell
  doi: 10.1105/tpc.021345
  contributor:
    fullname: G Blanc
– volume: 457
  start-page: 551
  year: 2009
  ident: ref21
  article-title: The Sorghum bicolor genome and the diversification of grasses.
  publication-title: Nature
  doi: 10.1038/nature07723
  contributor:
    fullname: AH Paterson
– volume: 103
  start-page: 17644
  year: 2006
  ident: ref1
  article-title: Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus.
  publication-title: Proc Natl Acad Sci U S A
  doi: 10.1073/pnas.0603080103
  contributor:
    fullname: Q Wang
– volume: 9
  start-page: 172
  year: 2006
  ident: ref2
  article-title: Molecular and functional diversity of maize.
  publication-title: Curr Opin Plant Biol
  doi: 10.1016/j.pbi.2006.01.013
  contributor:
    fullname: ES Buckler
– volume: 36
  start-page: D947
  year: 2008
  ident: ref42
  article-title: Gramene: a growing plant comparative genomics resource.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkm968
  contributor:
    fullname: C Liang
– volume: 33
  start-page: D154
  year: 2005
  ident: ref29
  article-title: The Universal Protein Resource (UniProt).
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gki070
  contributor:
    fullname: A Bairoch
– volume: 313
  start-page: 1596
  year: 2006
  ident: ref23
  article-title: The genome of black cottonwood, Populus trichocarpa (Torr. & Gray).
  publication-title: Science
  doi: 10.1126/science.1128691
  contributor:
    fullname: GA Tuskan
– volume: 13
  start-page: 2498
  year: 2003
  ident: ref51
  article-title: Cytoscape: a software environment for integrated models of biomolecular interaction networks.
  publication-title: Genome Res
  doi: 10.1101/gr.1239303
  contributor:
    fullname: P Shannon
– volume: 282
  start-page: 28915
  year: 2007
  ident: ref39
  article-title: Differential gene expression and subcellular targeting of Arabidopsis glutathione S-transferase F8 is achieved through alternative transcription start sites.
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M702207200
  contributor:
    fullname: LF Thatcher
– volume: 326
  year: 2009
  ident: ref9
  article-title: The B73 maize genome: complexity, diversity, and dynamics.
  publication-title: Science
  doi: 10.1126/science.1178534
  contributor:
    fullname: PS Schnable
– volume: 9
  start-page: 868
  year: 1999
  ident: ref47
  article-title: CAP3: A DNA sequence assembly program.
  publication-title: Genome Res
  doi: 10.1101/gr.9.9.868
  contributor:
    fullname: X Huang
– volume: 8
  start-page: 175
  year: 1998
  ident: ref44
  article-title: Base-calling of automated sequencer traces using phred. I. Accuracy assessment.
  publication-title: Genome Res
  doi: 10.1101/gr.8.3.175
  contributor:
    fullname: B Ewing
– volume: 113
  start-page: 93
  year: 1997
  ident: ref37
  article-title: Expression and RNA splicing of the maize glutathione S-transferase Bronze2 gene is regulated by cadmium and other stresses.
  publication-title: Plant Physiol
  doi: 10.1104/pp.113.1.93
  contributor:
    fullname: KA Marrs
– volume: 20
  start-page: 2865
  year: 2004
  ident: ref45
  article-title: LUCY2: an interactive DNA sequence quality trimming and vector removal tool.
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bth302
  contributor:
    fullname: S Li
– volume: 14
  start-page: 1916
  year: 2004
  ident: ref7
  article-title: Close split of sorghum and maize genome progenitors.
  publication-title: Genome Res
  doi: 10.1101/gr.2332504
  contributor:
    fullname: Z Swigonova
– volume: 21
  start-page: 2568
  year: 2005
  ident: ref28
  article-title: DATF: a database of Arabidopsis transcription factors.
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bti334
  contributor:
    fullname: A Guo
– volume: 16
  start-page: 276
  year: 2000
  ident: ref50
  article-title: EMBOSS: the European Molecular Biology Open Software Suite.
  publication-title: Trends Genet
  doi: 10.1016/S0168-9525(00)02024-2
  contributor:
    fullname: P Rice
– volume: 48
  start-page: 710
  year: 2006
  ident: ref12
  article-title: Annotation and expression profile analysis of 2073 full-length cDNAs from stress-induced maize (Zea mays L.) seedlings.
  publication-title: Plant J
  doi: 10.1111/j.1365-313X.2006.02905.x
  contributor:
    fullname: J Jia
– volume: 6
  start-page: 782
  year: 2008
  ident: ref43
  article-title: Distinctive transcriptome responses to adverse environmental conditions in Zea mays L.
  publication-title: Plant Biotechnol J
  doi: 10.1111/j.1467-7652.2008.00360.x
  contributor:
    fullname: J Fernandes
– volume: 100
  start-page: 12265
  year: 2003
  ident: ref35
  article-title: A complex history of rearrangement in an orthologous region of the maize, sorghum, and rice genomes.
  publication-title: Proc Natl Acad Sci U S A
  doi: 10.1073/pnas.1434476100
  contributor:
    fullname: K Ilic
– volume: 3
  start-page: e123
  year: 2007
  ident: ref11
  article-title: Physical and genetic structure of the maize genome reflects its complex evolutionary history.
  publication-title: PLoS Genet
  doi: 10.1371/journal.pgen.0030123
  contributor:
    fullname: F Wei
– volume: 5
  start-page: 1795
  year: 1993
  ident: ref31
  article-title: Maize anthocyanin regulatory gene pl is a duplicate of c1 that functions in the plant.
  publication-title: Plant Cell
  doi: 10.1105/tpc.5.12.1795
  contributor:
    fullname: KC Cone
– volume: 2
  start-page: 1039
  year: 1990
  ident: ref38
  article-title: Bronze-2 gene of maize: reconstruction of a wild-type allele and analysis of transcription and splicing.
  publication-title: Plant Cell
  doi: 10.1105/tpc.2.11.1039
  contributor:
    fullname: J Nash
– volume: 37
  start-page: D26
  year: 2009
  ident: ref8
  article-title: GenBank.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkn723
  contributor:
    fullname: DA Benson
– volume: 101
  start-page: 14349
  year: 2004
  ident: ref5
  article-title: Sequence composition and genome organization of maize.
  publication-title: Proc Natl Acad Sci U S A
  doi: 10.1073/pnas.0406163101
  contributor:
    fullname: J Messing
– volume: 35
  start-page: D883
  year: 2007
  ident: ref20
  article-title: The TIGR Rice Genome Annotation Resource: improvements and new features.
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkl976
  contributor:
    fullname: S Ouyang
– volume: 13
  start-page: 2533
  year: 2003
  ident: ref4
  article-title: Does recombination shape the distribution and evolution of tandemly arrayed genes (TAGs) in the Arabidopsis thaliana genome?
  publication-title: Genome Res
  doi: 10.1101/gr.1318503
  contributor:
    fullname: L Zhang
– volume: 12
  start-page: 851
  year: 2002
  ident: ref18
  article-title: Compositional gradients in Gramineae genes.
  publication-title: Genome Res
  doi: 10.1101/gr.189102
  contributor:
    fullname: GK Wong
SSID ssj0035897
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Snippet Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues...
  Full-length cDNA (FLcDNA) sequencing establishes the precise primary structure of individual gene transcripts. From two libraries representing 27 B73 tissues...
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SubjectTerms Abiotic stress
Arabidopsis
Arabidopsis - genetics
Base Sequence
Chromosome Mapping - methods
Chromosomes, Plant - genetics
Cloning
Contig Mapping
Corn
DNA binding proteins
DNA Transposable Elements - genetics
DNA, Complementary - genetics
Expressed Sequence Tags
Gene expression
Genes, Plant - genetics
Genetic aspects
Genetics
Genetics and Genomics/Bioinformatics
Genetics and Genomics/Gene Discovery
Genetics and Genomics/Plant Genomes and Evolution
Genomes
Genomics
Internet
Minisatellite Repeats - genetics
Molecular Sequence Data
Oryza - genetics
Oryza sativa
Physiological aspects
Plant Proteins - metabolism
Poly A - genetics
Polymorphism, Single Nucleotide - genetics
Populus - genetics
Sequence Analysis, DNA - methods
Sequence Homology, Nucleic Acid
Sorghum
Sorghum - genetics
Transcription Factors - genetics
Transposons
Zea mays
Zea mays - genetics
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Title Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs
URI https://www.ncbi.nlm.nih.gov/pubmed/19936069
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http://dx.doi.org/10.1371/journal.pgen.1000740
Volume 5
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