Rebecca Roston

Rebecca Roston
University of Nebraska at Lincoln | NU · Department of Biochemistry

Ph.D. Biochemistry, UC Davis

About

133
Publications
10,282
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
1,333
Citations
Introduction
We are currently (2022) studying the role of membrane dynamics affecting plant health using a combination of genetics, molecular biology, protein biochemistry, and biophysical approaches. Our systems are membrane response to low temperature, severe low temperature signaling, and biogenesis of photosynthetic membranes. We are also adding to biochemistry instructional methods and exploring the role of plant antioxidants through fabulous collaborations.
Additional affiliations
July 2009 - July 2014
Michigan State University
Position
  • PostDoc Position
August 2003 - June 2009
University of California, Davis
Position
  • PhD Student

Publications

Publications (133)
Chapter
Glycerolipids form the largest fraction of all membrane lipids and their composition changes quickly during plant development, the diurnal cycle, and in response to hormones and biotic or abiotic stress. A challenge to accurate glycerolipid measurement is that lipid-degrading enzymes tend to remain active during extraction, and special care must be...
Article
Full-text available
Primary and secondary metabolites exuded from roots are key drivers of root-soil microbe interactions that contribute to the structure and function of microbial communities. Studies with model plants have begun to reveal the complex interactions between root exudates and soil microbes, but little is known about the influence of specialized exudates...
Article
Although genome-sequence assemblies are available for a growing number of plant species, gene-expression responses to stimuli have been cataloged for only a subset of these species. Many genes show altered transcription patterns in response to abiotic stresses. However, orthologous genes in related species often exhibit different responses to a giv...
Article
Understanding metabolic function requires knowledge of the dynamics, interdependence, and regulation of metabolic networks. However, multiple professional societies have recognized that most undergraduate biochemistry students acquire only a surface-level understanding of metabolism. We hypothesized that guiding students through interactive compute...
Preprint
Full-text available
Although genome sequence assemblies are available for a growing number of plant species, gene expression responses to stimuli have been catalogued for only a subset of these species. Many genes show altered transcription patterns in response to abiotic stresses. However, orthologous genes in related species often exhibit different responses to a gi...
Article
Our climate is changing due to anthropogenic emissions of greenhouse gases from the production and use of fossil fuels. Present atmospheric levels of CO2 were last seen 3 million years ago, when planetary temperature sustained high Arctic camels. As scientists and educators, we should feel a professional responsibility to discuss major scientific i...
Article
Ensuring undergraduate students become proficient in relating protein structure to biological function has important implications. With current two‐dimensional (2D) methods of teaching, students frequently develop misconceptions, including that proteins contain a lot of empty space, that bond angles for different amino acids can rotate equally, and...
Preprint
Full-text available
Understanding metabolic function requires knowledge of the dynamics, interdependence, and regulation of biochemical networks. However, current approaches are not optimal to develop the needed mechanistic understanding, and misconceptions about biological processes persist even after graduation. To address these issues, we developed a computational...
Article
"Flagella Base Model" and "Flagellin monomer" Description: This is a teaching model of the proteins that make a bacterial flagella. All models are depicted in space-fill. The Flagellin monomer and the Flagella base can slot together to show protein quaternary structure and filamentous protein assembly. Printable models are already uploaded to Shape...
Article
Full-text available
Chloroplasts adapt to freezing and other abiotic stresses in part by modifying their membranes. One key-remodeling enzyme is SENSITIVE TO FREEZING2 (SFR2). SFR2 is unusual because it does not respond to initial cold stress or cold acclimation, instead it responds during freezing conditions in Arabidopsis. This response has been shown to be sensitiv...
Article
Artificial selection has produced varieties of domesticated maize which thrive in temperate climates around the world. However, the direct progenitor of maize, teosinte, is indigenous only to a relatively small range of tropical and sub‐tropical latitudes and grows poorly or not at all outside of this region. Tripsacum, a sister genus to maize and...
Article
Understanding the relationship between molecular structure and function represents an important goal of undergraduate life sciences. Although evidence suggests that handling physical models supports gains in student understanding of structure–function relationships, such models have not been widely implemented in biochemistry classrooms. Three‐dime...
Article
Full-text available
Photosynthetic membranes provide much of the usable energy for life on earth. To produce photosynthetic membrane lipids, multiple transport steps are required, including fatty acid export from the chloroplast stroma to the endoplasmic reticulum, and lipid transport from the endoplasmic reticulum to the chloroplast envelope membranes. Transport of h...
Article
Full-text available
The primary energy resource of life on earth is the sun, whose energy is captured in the form of usable carbons by a process called photosynthesis. Photosynthesis occurs within a cellular organelle adapted to that purpose, called the chloroplast. Chloroplasts are unique metabolic and sensory organelles restricted to plants, algae, and a few protist...
Article
Full-text available
3D printing represents an emerging technology with significant potential to advance life-science education by allowing students to directly explore the relationship between macromolecular structure and function. In this article and supplemental video guide, we describe our development of a model-based instructional module on DNA supercoiling and ou...
Article
This is a teaching model of cytochrome c (PDB: 2FD7). It is designed in a stick representation to explore protein secondary structure and how much space the protein takes up. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Crambin” and is intended to accompany the “Lipoprotein signal peptidase II”...
Article
This is a teaching model for protein primary structure. It consists of four amino acids (tryptophan, proline, arginine, and glycine) depicted in stick and space-fill representations, five peptide bonds depicted in space-fill, and an N-terminus and a C-terminus depicted in space-fill. It is designed so that students can make various peptides to expl...
Article
This is a teaching model of lipoprotein signal peptidase II (PDB: 5DIR). It is designed with different regions of the protein depicted in space-filling, ribbon, stick, and backbone-only representations to explore protein secondary structure and illustrate how much space the protein takes up. The printable model is already uploaded to Shapeways.com...
Article
This is a teaching model of 3 water molecules depicted in space-fill. It is designed to the same scale as the “Lipoprotein signal peptidase II”, “Crambin”, and “Cytochrome c” models to illustrate the amount of space taken up by proteins. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “3 water mole...
Article
This is a teaching model of cytochrome c (PDB: 1B7V). It is designed in a stick representation to explore protein secondary structure and how much space the protein takes up. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Cytochrome c” and is intended to accompany the “Lipoprotein signal peptidas...
Article
This is a teaching model of human Hexokinase I in a surface representation with small molecules ADP and G6P included (PDB: 1DGK). It is designed to be hollow with a lever to mimic allosteric regulation. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Human Hexokinase I - Allosteric regulation mode...
Preprint
Full-text available
Artificial selection has produced varieties of domesticated maize which thrive in temperate climates around the world. However, the direct progenitor of maize, teosinte, is indigenous only to a relatively small range of tropical and sub-tropical latitudes and grows poorly or not at all outside of this region. Tripsacum , a sister genus to maize and...
Article
Full-text available
Model file name: 1lmb-DBD-TFmono.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of the DNA binding domain of a Lambda repressor transcription factor monomer that accompanies the full color DNA helix (PDB: 1lmb). It is in a cartoon ribbon representation with key amino acid residues in stick representation t...
Article
Full-text available
Model file name: 1lmb-DNAlong_fordimer-test6b.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of the 19-bp segment of DNA to which Lambda repressor transcription factor interacts (PDB: 1lmb). It is in a stick representation and has been designed with sites to add magnets to illustrate binding interactions w...
Article
Full-text available
Model file name: alpha helix pro-gly 0.7.dae Authors: Michelle E Howell, Rebecca L Roston This is a teaching model of a stick representation of a protein α-helix with proline and glycine residues highlighted (PDB: 3vjo). This model is designed to accompany a straight α-helix in space fill representation, a straight α-helix in stick representation,...
Article
Full-text available
Model file name: 1ehz-tRNA(thick).stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of Phe-tRNA in a thick stick-representation (PDB: 1ehz), designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shapeways.com under the name “tRNA...
Article
Full-text available
Model file name: 1ehz-tRNA(thin-big).x3d Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of Phe-tRNA in a large, but thin stick-representation (PDB: 1ehz), designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shapeways.com in the...
Article
Full-text available
Model file name: alpha helix 0.7.dae Authors: Michelle E Howell, Rebecca L Roston This is a teaching model of a stick representation of a protein α-helix (PDB: 3vjo). This model can accompany a corresponding space fill representation, a kinked α-helix, and a β-sheet. These models were designed to accompany a teaching module illustrating protein sec...
Article
Full-text available
Model file name: 1lmb-TFdimer-manif-sc1-8-parts-v3b.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a ribbon and stick representation of the transcription factor lambda repressor (PDB: 1lmb). Key amino acid residues are in stick representation to illustrate the interactions between the repressor and the...
Article
Full-text available
Model file name: beta-sheet_rod 0.7.dae Authors: Michelle E Howell, Rebecca L Roston This is a teaching model of a stick representation of a protein β-sheet (PDB: 3vjo). This model is designed to accompany three other α-helix models: a space-fill representation of a straight α-helix, a stick representation of a straight α-helix, and a stick represe...
Article
Full-text available
Model file name: DNA-294bp-handle-supercoil.stl Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston This is a teaching model of a long, thin representation of double stranded DNA (294 bp). The DNA model has small handles on the ends to aid in holding and manipulating the model. The model is designed to go with a teaching mod...
Article
Full-text available
Model file name: DNA-294bp-magnet-supercoil.stl Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston This is a teaching model of a long, thin representation of double stranded DNA (294 bp). The DNA model has small sites on the ends where the user can glue magnets to mimic circular DNA, and to aid in manipulating the model. Di...
Article
Full-text available
Model file name: DNA-420bp-handle-supercoil.stl Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston This is a teaching model of a long, thin representation of double stranded DNA (420 bp). The DNA model has small handles on the ends to aid in holding and manipulating the model. The model is designed to go with a teaching mod...
Article
Full-text available
Model file name: DNA-420bp-magnet-supercoil.stl Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston This is a teaching model of a long, thin representation of double stranded DNA (420 bp). The DNA model has small sites on the ends where the user can glue magnets to mimic circular DNA, and to aid in manipulating the model. Di...
Article
Full-text available
Model file name: Helix_H2O_sphere2.dae Authors: Michelle E Howell, Rebecca L Roston This is a teaching model of a space fill representation of a protein α-helix (PDB: 3vjo). A space fill water molecule is also represented to illustrate the lack of space down the axis of an α-helix. This model can accompany a corresponding stick representation, a ki...
Article
Full-text available
Model file name: Nucleosome.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a crude representation of a nucleosome intended to accompany the H1 histone protein and a long, thin double stranded DNA helix model in order to illustrate DNA packaging and supercoiling. This model is designed to go with a teach...
Article
Full-text available
Model file name: DNA-short-helix.x3d Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a DNA helix in which the atoms are colored by heteroatom (PDB: 1lmb). This model is designed to go with a teaching module comparing DNA and RNA basic structures and functions, and with one that studies transcription factor-D...
Article
Full-text available
Model file name: RNA-short-helix.x3d Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a DNA helix in which the atoms are colored by heteroatom (PDB: 1lmb). This model is designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shape...
Article
Model file name: Video guide to design flexible DNA.mp4 Authors: Michelle E Howell, Karin van Dijk, Christine S Booth, Tomas Helikar, Brian A Couch, Rebecca L Roston This 30-minute video includes step-by-step instructions to design and 3-D print a long flexible DNA model that mimics the structure and function of DNA. The instructions are applicable...
Article
Full-text available
Model file name: H1-protein.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a crude representation of an H1-protein intended to accompany the nucleosome and a long, thin double stranded DNA helix model in order to illustrate DNA packaging and supercoiling. This model is designed to go with a teaching mod...
Article
Full-text available
Model file name: ssRNA.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a single stranded piece of RNA in stick representation (PDB: 1ehz). This model is designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shapeways.com in...
Article
Full-text available
Model file name: TF-monomer-stick.stl Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston This is a teaching model of a ribbon and stick representation of a Lambda repressor transcription factor monomer that accompanies the full color DNA helix (PDB: 1lmb). This model is designed to go with a teaching module illustrating transcription fact...
Article
Facing adverse conditions such as nitrogen (N) deprivation, microalgae enter cellular quiescence, a reversible cell cycle arrest with drastic changes in metabolism allowing cells to remain viable. Recovering from N deprivation and quiescence is an active and orderly process as we are showing here for Chlamydomonas reinhardtii. We conducted comparat...
Article
Full-text available
Short title: Gene regulatory changes between maize and sorghum One-sentence summary: The response of the same genes to cold stress often varies between maize and sorghum, but the set of genes with conserved patterns of regulation show greater evidence of functional constraint. ABSTRACT Identifying interspecies changes in gene regulation, one of the...
Data
Gene annotation. (A) Annotation Edit Distance (AED) distribution of gene models in the first annotation set after eliminating entries with AED = 1. (B). AED distribution of gene models in the second annotation after eliminating entries with AED = 1. (C) Proportion of gene models with protein domain hits in different heterokonts (abbreviated as indi...
Article
Full-text available
PolyGly is present in many proteins in various organisms. One example is found in a transmembrane β-barrel protein, translocon at the outer-envelope-membrane of chloroplasts 75 (Toc75). Toc75 requires its N-terminal extension (t75) for proper localization. t75 comprises signals for chloroplast import (n75) and envelope sorting (c75) in tandem. n75...
Data
Effects of incubation time on thermolysin-susceptibility of imported proteins. Radiolabeled t75-EGFP or precursors of proteins indicated at left were imported into isolated chloroplasts for 30 min, followed by incubation with thermolysin at varying concentrations and for varying times indicated at top, and analyzed as described in Fig 2B. Proteins...
Data
Confocal microscopy analysis of N. benthamiana leaves transiently expressing t75-EGFP at higher magnification. Leaves of N. benthamiana expressing t75-EGFP visualized at 5× zoom. Scale bars represent 10 μm. (PDF)
Data
Confocal microscopy analysis of N. benthamiana leaves transiently expressing t75-EGFPGGA at higher magnification. Leaves of N. benthamiana expressing t75GGA-EGFP visualized at 5× zoom. Scale bars represent 10 μm. (PDF)
Data
Import of Tic22 and Tic40 into isolated chloroplasts followed by protease treatments. Radiolabeled precursors of proteins indicated at left were imported into isolated chloroplasts and their sensitivity to thermolysin (tlysin) or trypsin (tryp) with or without the presence of 1% Triton X-100 (TX) was analyzed as described in the legend to Fig 2B. P...
Data
Confocal microscopy analysis of N. benthamiana leaves transiently expressing Plsp1, t75-EGFP, or t75-EGFPGGA at lower magnification. Leaves of N. benthamiana were agroinfiltrated with constructs encoding proteins shown at left and analyzed as in Fig 4. In the overlay, signals from the GFP and chlorophyll channels are depicted as green and magenta,...
Data
Primers used for cloning. (PDF)
Data
Import of Tic22 into isolated chloroplasts followed by fractionation. Radiolabeled precursor of Tic22 was imported into isolated chloroplasts and its distribution to the total chloroplasts (T), soluble fraction (S1), peripheral membrane fraction (S2), and integral membrane fraction (P) was analyzed as described in the legend to Fig 2A. pr and m ind...
Data
The primary sequences of tp75-mSS and tp75-EGFP. In both sequences, the N-terminal 35 residues corresponding to n75 are in the shaded box. In the t75-mSS sequence, residues deleted in t75?86–103 are double-underlined, the N-terminal five residues of mature psToc75 are underlined, and C-terminal six His residues derived from the pET23 vector are ita...
Article
Full-text available
Galactolipids [monogalactosyldiacylglycerol (MGDG) and digalactosyldiacylglycerol (DGDG)] are the hallmark lipids of photosynthetic membranes. The galactolipid synthases MGD1 and DGD1 catalyze consecutive galactosyltransfer reactions but localize to the inner and outer chloroplast envelopes, respectively, necessitating intermembrane lipid transfer....
Article
Full-text available
Low temperature is a seasonal abiotic stress which restricts native plant ranges and crop distributions. Two types of low temperature stress can be distinguished: chilling and freezing. Much work has been done on the mechanisms by which chilling is sensed, but relatively little is known about how plants sense freezing. Recently, SENSITIVE TO FREEZI...
Article
Full-text available
In plants, lipids of the photosynthetic membrane are synthesized by parallel pathways associated with the endoplasmic reticulum (ER) and the chloroplast envelope membranes. Lipids derived from the two pathways are distinguished by their acyl-constituents. Following this plant paradigm, the prevalent acyl composition of chloroplast lipids suggests t...
Article
Full-text available
Mechanical wounding of Arabidopsis thaliana leaves results in modifications of most membrane lipids within 6 hours. Here, we discuss the lipid changes, their underlying biochemistry, and possible relationships among activated pathways. New evidence is presented supporting the role of the processive galactosylating enzyme SENSITIVE TO FREEZING2 in t...
Article
Full-text available
In plants, neutral lipids are frequently synthesized and stored in seed tissues, where the assembly of lipid droplets (LDs) coincides with the accumulation of triacylglycerols (TAGs). In addition, photosynthetic, vegetative cells can form cytosolic LDs and much less is known about the makeup and biogenesis of these LDs. Here we focus on Chlamydomon...
Article
Full-text available
Triacylglycerol (TAG) metabolism is a key aspect of intracellular lipid homeostasis in yeast and mammals, but its role in vegetative tissues of plants remains poorly defined. We previously reported that PHOSPHOLIPID:DIACYLGLYCEROL ACYLTRANSFERASE1 (PDAT1) is crucial for diverting fatty acids (FAs) from membrane lipid synthesis to TAG and thereby pr...
Article
Full-text available
SENSITIVE TO FREEZING 2 (SFR2) is classified as a family I glycosyl hydrolase but has recently been shown to have galactosyltransferase activity in Arabidopsis thaliana. Natural occurrences of apparent glycosyl hydrolases acting as transferases are interesting from a biocatalysis standpoint, and knowledge about the interconversion can assist in eng...
Conference Paper
Lipid trafficking is essential for chloroplast membrane lipid synthesis in land plants. Based on lipid compositional analyses, it has been suggested that Chlamydomonas reinhardtii does not possess a eukaryotic pathway for chloroplast membrane lipid synthesis, i.e. there is no trafficking of lipid precursors from the ER to the chloroplast. However,...
Chapter
ATP-binding cassette (ABC) proteins belong to a large family of proteins which mostly catalyze ATP-driven membrane translocation. They are found throughout the tree of life, from Archaea to Eukarya. In plants, they are known to perform essential functions in multiple subcellular compartments, though the locations of each ABC protein in a given spec...
Article
Plant cells contain unique organelles such as chloroplasts with an extensive photosynthetic membrane. In addition, specialized epidermal cells produce an extracellular cuticle composed primarily of lipids, and storage cells accumulated large amounts of storage lipids. As lipid assembly is associated only with discrete membranes or organelles, there...