Soderlund_2009_PLoS.Genet_5_E1000740

Reference

Title : Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs - Soderlund_2009_PLoS.Genet_5_e1000740
Author(s) : Soderlund C , Descour A , Kudrna D , Bomhoff M , Boyd L , Currie J , Angelova A , Collura K , Wissotski M , Ashley E , Morrow D , Fernandes J , Walbot V , Yu Y
Ref : PLoS Genet , 5 :e1000740 , 2009
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).

PubMedSearch : Soderlund_2009_PLoS.Genet_5_e1000740
PubMedID: 19936069
Gene_locus related to this paper: maize-b4f9i1 , maize-b4fc42 , maize-b6t9i6 , maize-b6thh6 , maize-b6u7e1 , maize-b8a0f2 , maize-c0hfi7 , maize-c0hhb1 , maize-c0hhp4 , maize-c0pa79 , maize-b4feg9 , maize-c0pfl3 , maize-b4fpr7 , maize-b4f869 , maize-b4fqc9 , maize-b6svg4 , maize-b4fd83 , maize-b4fv80 , maize-b4fpy6 , maize-c4j9a1 , maize-c0hfy3

Related information

Gene_locus maize-b4f9i1    maize-b4fc42    maize-b6t9i6    maize-b6thh6    maize-b6u7e1    maize-b8a0f2    maize-c0hfi7    maize-c0hhb1    maize-c0hhp4    maize-c0pa79    maize-b4feg9    maize-c0pfl3    maize-b4fpr7    maize-b4f869    maize-b4fqc9    maize-b6svg4    maize-b4fd83    maize-b4fv80    maize-b4fpy6    maize-c4j9a1    maize-c0hfy3
Gene_locus_frgt maize-b4f9i1    maize-b4fc42    maize-b6t9i6    maize-b6thh6    maize-b6u7e1    maize-b8a0f2    maize-c0hfi7    maize-c0hhb1    maize-c0hhp4    maize-c0pa79    maize-b4feg9    maize-c0pfl3    maize-b4fpr7    maize-b4f869    maize-b4fqc9    maize-b6svg4    maize-b4fd83    maize-b4fv80    maize-b4fpy6    maize-c4j9a1    maize-c0hfy3    maize-b4fkx0    maize-b4fra4    maize-c0pjz7    maize-c0p8y2

Citations formats

Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, Currie J, Angelova A, Collura K, Wissotski M, Ashley E, Morrow D, Fernandes J, Walbot V, Yu Y (2009)
Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs
PLoS Genet 5 :e1000740

Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, Currie J, Angelova A, Collura K, Wissotski M, Ashley E, Morrow D, Fernandes J, Walbot V, Yu Y (2009)
PLoS Genet 5 :e1000740