title: Comparative Proteomic Analysis of Cotton Fiber Development and Protein Extraction Method Comparison in Late Stage Fibers.
abstract: The distinct stages of cotton fiber development and maturation serve as a single-celled model for studying the molecular mechanisms of plant cell elongation, cell wall development and cellulose biosynthesis. However, this model system of plant cell development is compromised for proteomic studies due to a lack of an efficient protein extraction method during the later stages of fiber development, because of a recalcitrant cell wall and the presence of abundant phenolic compounds. Here, we compared the quality and quantities of proteins extracted from 25 dpa (days post anthesis) fiber with multiple protein extraction methods and present a comprehensive quantitative proteomic study of fiber development from 10 dpa to 25 dpa. Comparative analysis using a label-free quantification method revealed 287 differentially-expressed proteins in the 10 dpa to 25 dpa fiber developmental period. Proteins involved in cell wall metabolism and regulation, cytoskeleton development and carbohydrate metabolism among other functional categories in four fiber developmental stages were identified. Our studies provide protocols for protein extraction from maturing fiber tissues for mass spectrometry analysis and expand knowledge of the proteomic profile of cotton fiber development.
authors.affiliation: Department of Biochemistry, Molecular Biology, Entomology, and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA. hm73@msstate.edu.
authors.forename: Hana
authors.initials: H
authors.lastname: Mujahid
authors.affiliation: Institute for Genomics, Biocomputing and Biotechnology, Mississippi Agricultural and Forestry Experiment Station, Mississippi State University, Mississippi State, MS 39762, USA. jkpendarvis@email.arizona.edu.
authors.forename: Ken
authors.initials: K
authors.lastname: Pendarvis
authors.affiliation: College of Veterinary Medicine, Mississippi State University, Mississippi State, MS 39762, USA. Reddy.Joseph@mayo.edu.
authors.forename: Joseph S
authors.initials: JS
authors.lastname: Reddy
authors.affiliation: Department of Biochemistry, Molecular Biology, Entomology, and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA. nbrameshreddy@yahoo.co.in.
authors.forename: Babi Ramesh Reddy
authors.initials: BR
authors.lastname: Nallamilli
authors.affiliation: Department of Plant and Soil Sciences, Mississippi State University, Mississippi State, MS 39762, USA. krreddy@pss.msstate.edu.
authors.forename: K R
authors.initials: KR
authors.lastname: Reddy
authors.affiliation: College of Veterinary Medicine, Mississippi State University, Mississippi State, MS 39762, USA. bnanduri@cvm.msstate.edu.
authors.forename: Bindu
authors.initials: B
authors.lastname: Nanduri
authors.affiliation: Department of Biochemistry, Molecular Biology, Entomology, and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA. zp7@BCH.msstate.edu.
authors.forename: Zhaohua
authors.initials: Z
authors.lastname: Peng
keywords: cell wall; comparative proteomics; cotton; fiber elongation; label-free