title: Characterization and RNA-seq analysis of underperformer, an activation-tagged potato mutant.
abstract: The potato cv. Bintje and a Bintje activation-tagged mutant, underperformer (up) were compared. Mutant up plants grown in vitro were dwarf, with abundant axillary shoot growth, greater tuber yield, altered tuber traits and early senescence compared to wild type. Under in vivo conditions, the dwarf and early senescence phenotypes of the mutant remained, but the up plants exhibited a lower tuber yield and fewer axillary shoots compared to wild type. Southern blot analyses indicated a single T-DNA insertion in the mutant, located on chromosome 10. Initial PCR-based gene expression studies indicated transcriptional activation/repression of several genes in the mutant flanking the insertion. The gene immediately flanking the right border of the T-DNA insertion, which encoded an uncharacterized Broad complex, Tramtrac, Bric-a-brac; also known as Pox virus and Zinc finger (BTB/POZ) domain-containing protein (StBTB/POZ1) containing an Armadillo repeat region, was up-regulated in the mutant. Global gene expression comparisons between Bintje and up using RNA-seq on leaves from 60 day-old plants revealed a dataset of over 1,600 differentially expressed genes. Gene expression analyses suggested a variety of biological processes and pathways were modified in the mutant, including carbohydrate and lipid metabolism, cell division and cell cycle activity, biotic and abiotic stress responses, and proteolysis.
authors.affiliation: Department of Horticulture, Virginia Tech, Blacksburg, VA, 24061, USA.
authors.forename: Sukhwinder S
authors.initials: SS
authors.lastname: Aulakh
authors.forename: Richard E
authors.initials: RE
authors.lastname: Veilleux
authors.forename: Allan W
authors.initials: AW
authors.lastname: Dickerman
authors.forename: Guozhu
authors.initials: G
authors.lastname: Tang
authors.forename: Barry S
authors.initials: BS
authors.lastname: Flinn
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D019295:Computational Biology; D035264:Flowers / Q000235:genetics / Q000254:growth & development; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D059014:High-Throughput Nucleotide Sequencing; D008969:Molecular Sequence Data; D016254:Mutagenesis, Insertional; D010641:Phenotype; D018515:Plant Leaves / Q000235:genetics / Q000254:growth & development; D018547:Plant Stems / Q000235:genetics / Q000254:growth & development; D035281:Plant Tubers / Q000235:genetics / Q000254:growth & development; D012333:RNA, Messenger / Q000737:chemistry / Q000235:genetics; D018749:RNA, Plant / Q000737:chemistry / Q000235:genetics; D017423:Sequence Analysis, RNA; D011198:Solanum tuberosum / Q000235:genetics* / Q000254:growth & development; D059467:Transcriptome
chemical_list: D012333:RNA, Messenger; D018749:RNA, Plant