title: RNA-Seq transcriptome analysis of maize inbred carrying nicosulfuron-tolerant and nicosulfuron-susceptible alleles.
abstract: Postemergence applications of nicosulfuron can cause great damage to certain maize inbred lines and hybrids. Variation among different responses to nicosulfuron may be attributed to differential rates of herbicide metabolism. We employed RNA-Seq analysis to compare transcriptome responses between nicosulfuron-treated and untreated in both tolerant and susceptible maize plants. A total of 71.8 million paired end Illumina RNA-Seq reads were generated, representing the transcription of around 40,441 unique reads. About 345,171 gene ontology (GO) term assignments were conducted for the annotation in terms of biological process, cellular component and molecular function categories, and 6413 sequences with 108 enzyme commission numbers were assigned to 134 predicted Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathways. Digital gene expression profile (DGE) analysis using Solexa sequencing was performed within the susceptible and tolerant maize between the nicosulfuron-treated and untreated conditions, 13 genes were selected as the candidates most likely involved in herbicide metabolism, and quantitative RT-PCR validated the RNA-Seq results for eight genes. This transcriptome data may provide opportunities for the study of sulfonylurea herbicides susceptibility emergence of Zea mays.
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. xiaominliu1981@gmail.com.
authors.forename: Xiaomin
authors.initials: X
authors.lastname: Liu
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. xianxu@hotmail.com.
authors.forename: Xian
authors.initials: X
authors.lastname: Xu
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. binghuali@163.com.
authors.forename: Binghua
authors.initials: B
authors.lastname: Li
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. xueqingwang@126.com.
authors.forename: Xueqing
authors.initials: X
authors.lastname: Wang
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. guiqiwang@gmail.com.
authors.forename: Guiqi
authors.initials: G
authors.lastname: Wang
authors.affiliation: Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang 050035, Hebei, China. moranli@163.com.
authors.forename: Moran
authors.initials: M
authors.lastname: Li
mesh_terms: D000483:Alleles; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000187:drug effects; D017343:Genes, Plant; D006540:Herbicides / Q000633:toxicity*; D059014:High-Throughput Nucleotide Sequencing; D010641:Phenotype; D018515:Plant Leaves / Q000235:genetics / Q000378:metabolism; D011725:Pyridines / Q000633:toxicity*; D012313:RNA / Q000737:chemistry / Q000378:metabolism*; D017423:Sequence Analysis, RNA; D013453:Sulfonylurea Compounds / Q000633:toxicity*; D059467:Transcriptome / Q000187:drug effects*; D003313:Zea mays / Q000235:genetics* / Q000378:metabolism
chemical_list: D006540:Herbicides; D011725:Pyridines; D013453:Sulfonylurea Compounds; D012313:RNA; C416723:nicosulfuron