title: Comparative proteomic analysis of developing rhizomes of the ancient vascular plant Equisetum hyemale and different monocot species.
abstract: The rhizome is responsible for the invasiveness and competitiveness of many plants with great economic and agricultural impact worldwide. Besides its value as an invasive organ, the rhizome plays a role in the establishment and massive growth of forage, providing biomass for biofuel production. Despite these features, little is known about the molecular mechanisms that contribute to rhizome growth, development, and function in plants. In this work, we characterized the proteome of rhizome apical tips and elongation zones from different species using a GeLC-MS/MS (one-dimensional electrophoresis in combination with liquid chromatography coupled online with tandem mass spectrometry) spectral-counting proteomics strategy. Five rhizomatous grasses and an ancient species were compared to study the protein regulation in rhizomes. An average of 2200 rhizome proteins per species were confidently identified and quantified. Rhizome-characteristic proteins showed similar functional distributions across all species analyzed. The over-representation of proteins associated with central roles in cellular, metabolic, and developmental processes indicated accelerated metabolism in growing rhizomes. Moreover, 61 rhizome-characteristic proteins appeared to be regulated similarly among analyzed plants. In addition, 36 showed conserved regulation between rhizome apical tips and elongation zones across species. These proteins were preferentially expressed in rhizome tissues regardless of the species analyzed, making them interesting candidates for more detailed investigative studies about their roles in rhizome development.
authors.affiliation: †Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri 65211, United States.
authors.forename: Fernanda
authors.initials: F
authors.lastname: Salvato
authors.affiliation: †Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri 65211, United States.
authors.forename: Tiago S
authors.initials: TS
authors.lastname: Balbuena
authors.affiliation: ‡BIO5 Institute, The University of Arizona, Tucson, Arizona 85721, United States.
authors.forename: William
authors.initials: W
authors.lastname: Nelson
authors.affiliation: †Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri 65211, United States.
authors.forename: R Shyama Prasad
authors.initials: RS
authors.lastname: Rao
authors.affiliation: §Institute of Biological Chemistry, Washington State University, Pullman, Washington 99164, United States.
authors.forename: Ruifeng
authors.initials: R
authors.lastname: He
authors.affiliation: ‡BIO5 Institute, The University of Arizona, Tucson, Arizona 85721, United States.
authors.forename: Carol A
authors.initials: CA
authors.lastname: Soderlund
authors.affiliation: §Institute of Biological Chemistry, Washington State University, Pullman, Washington 99164, United States.
authors.forename: David R
authors.initials: DR
authors.lastname: Gang
authors.affiliation: †Department of Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri 65211, United States.
authors.forename: Jay J
authors.initials: JJ
authors.lastname: Thelen
mesh_terms: D002853:Chromatography, Liquid; D004591:Electrophoresis, Polyacrylamide Gel; D020829:Equisetum / Q000235:genetics* / Q000378:metabolism; D010940:Plant Proteins / Q000032:analysis* / Q000145:classification / Q000378:metabolism; D006109:Poaceae / Q000235:genetics* / Q000378:metabolism; D020543:Proteome / Q000235:genetics* / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D027343:Rhizome / Q000235:genetics / Q000378:metabolism*; D013045:Species Specificity; D053719:Tandem Mass Spectrometry
chemical_list: D010940:Plant Proteins; D020543:Proteome
keywords: label free quantification; proteomics; rhizome development