title: Alternative splicing studies of the reactive oxygen species gene network in Populus reveal two isoforms of high-isoelectric-point superoxide dismutase.
abstract: Recent evidence has shown that alternative splicing (AS) is widely involved in the regulation of gene expression, substantially extending the diversity of numerous proteins. In this study, a subset of expressed sequence tags representing members of the reactive oxygen species gene network was selected from the PopulusDB database to investigate AS mechanisms in Populus. Examples of all known types of AS were detected, but intron retention was the most common. Interestingly, the closest Arabidopsis (Arabidopsis thaliana) homologs of half of the AS genes identified in Populus are not reportedly alternatively spliced. Two genes encoding the protein of most interest in our study (high-isoelectric-point superoxide dismutase [hipI-SOD]) have been found in black cottonwood (Populus trichocarpa), designated PthipI-SODC1 and PthipI-SODC2. Analysis of the expressed sequence tag libraries has indicated the presence of two transcripts of PthipI-SODC1 (hipI-SODC1b and hipI-SODC1s). Alignment of these sequences with the PthipI-SODC1 gene showed that hipI-SODC1b was 69 bp longer than hipI-SODC1s due to an AS event involving the use of an alternative donor splice site in the sixth intron. Transcript analysis showed that the splice variant hipI-SODC1b was differentially expressed, being clearly expressed in cambial and xylem, but not phloem, regions. In addition, immunolocalization and mass spectrometric data confirmed the presence of hipI-SOD proteins in vascular tissue. The functionalities of the spliced gene products were assessed by expressing recombinant hipI-SOD proteins and in vitro SOD activity assays.
authors.affiliation: Umeå Plant Science Center, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden.
authors.forename: Vaibhav
authors.initials: V
authors.lastname: Srivastava
authors.forename: Manoj Kumar
authors.initials: MK
authors.lastname: Srivastava
authors.forename: Kamel
authors.initials: K
authors.lastname: Chibani
authors.forename: Robert
authors.initials: R
authors.lastname: Nilsson
authors.forename: Nicolas
authors.initials: N
authors.lastname: Rouhier
authors.forename: Michael
authors.initials: M
authors.lastname: Melzer
authors.forename: Gunnar
authors.initials: G
authors.lastname: Wingsle
mesh_terms: D017398:Alternative Splicing / Q000235:genetics*; D000595:Amino Acid Sequence; D002850:Chromatography, Gel; D004926:Escherichia coli / Q000378:metabolism; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D017343:Genes, Plant; D007438:Introns / Q000235:genetics; D007526:Isoelectric Point; D008969:Molecular Sequence Data; D018547:Plant Stems / Q000166:cytology / Q000201:enzymology / Q000648:ultrastructure; D032107:Populus / Q000166:cytology / Q000201:enzymology* / Q000235:genetics* / Q000648:ultrastructure; D020033:Protein Isoforms / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D017433:Protein Structure, Secondary; D021381:Protein Transport; D022821:RNA Splice Sites / Q000235:genetics; D017382:Reactive Oxygen Species / Q000378:metabolism*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D020539:Sequence Analysis, Protein; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D013482:Superoxide Dismutase / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism
chemical_list: D020033:Protein Isoforms; D022821:RNA Splice Sites; D017382:Reactive Oxygen Species; D013482:Superoxide Dismutase