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K. Veluthambi is a plant researcher whose work with B. W. Poovaiah investigated hormonal control of polypeptide patterns during strawberry development. Their 1984 study combined manipulation of auxin supply with SDS-PAGE measurements, connecting whole-fruit growth to changes in molecular composition.[ref]
Auxin-regulated polypeptide changes at different stages of strawberry fruit development by K. Veluthambi and B. W. Poovaiah. Byline, affiliation and Abstract: developmental polypeptide patterns
For example, an approximately polypeptide appeared between five and ten days after pollination in the controls. Removing the achenes prevented its appearance; treatment with the synthetic auxin naphthaleneacetic acid restored it. Other bands changed at later developmental stages, showing why the timing of collection matters.[ref]
Auxin-regulated polypeptide changes at different stages of strawberry fruit development by K. Veluthambi and B. W. Poovaiah. Abstract:81,000-dalton band, five-to-ten-day interval and rescue
An illuminating comparison is between two samples collected on the same day, one deprived of auxin and one supplied with it. Comparing samples of different ages instead would mix treatment effects with ordinary development. This makes the study an example of pairing a physiological intervention with a molecular measurement, while leaving the identities and causal roles of individual proteins as further questions.
B. W. Poovaiah is a researcher in plant signal transduction, particularly the roles of calcium ions and calmodulin. His laboratory's research connects these intracellular signals to plant growth and responses to other organisms.[ref]
B. W. Poovaiah research profile at Washington State University. Research summary: calcium/calmodulin-mediated signaling and plant growth
With K. Veluthambi, B. W. Poovaiah investigated how auxin affects developing strawberries. Removing the surface achenes stopped growth and altered the pattern of polypeptides detected by SDS-PAGE. Applying the synthetic auxin naphthaleneacetic acid restored growth and the appearance of several development-associated polypeptides.[ref]
Auxin-regulated polypeptide changes at different stages of strawberry fruit development by K. Veluthambi and B. W. Poovaiah. Abstract: achene removal, synthetic-auxin rescue and protein-gel comparisons
The experiment illustrates a useful strategy for investigating a biological signal: remove its normal source, then ask whether supplying a candidate signal restores the response. Recovery of both growth and a molecular readout makes the proposed connection more informative than a simple correlation between fruit size and protein abundance. The SDS-PAGE bands report molecular changes; their appearance alone does not identify each protein's function.
Chunying Kang is a researcher in plant developmental biology and genetics, particularly the regulation of strawberry organ development. Her institutional research profile describes using genetic and molecular approaches to investigate the formation of flowers, fruits and other plant structures.[ref]
Chunying Kang research profile at Huazhong Agricultural University. Research summary and named publication record
In a 2013 study, Chunying Kang and collaborators used RNA sequencing to profile five fruit tissue types across five developmental stages in Fragaria vesca. Separating the achenes and receptacle made it possible to investigate gene expression in distinct developmental compartments.[ref]
Genome-scale transcriptomic insights into early-stage fruit development in woodland strawberry Fragaria vesca by Chunying Kang and others. Abstract and study design: five tissue types, five stages and separate fruit parts
The illuminating feature is the choice of what to sample. A whole strawberry combines several tissues whose proportions change as it grows. An apparent increase in a whole-fruit RNA measurement might therefore reflect more of a particular tissue, a change within its cells, or both. Dissection and staged sampling help separate these explanations; the resulting expression patterns supply candidates for functional experiments.
W. K. Yip is the first author of a 1990 study probing the active site of 1-aminocyclopropane-1-carboxylate synthase, an enzyme involved in Ethylene production in plants. The enzyme uses pyridoxal phosphate and acts on S-adenosylmethionine, but its own substrate can also inactivate it. The study investigated the chemistry underlying that apparent paradox.[ref]
The researchers labeled purified apple enzyme, cut it into peptides and separated the products by high-performance liquid chromatography. Peptide sequencing and mass spectrometry located a modified lysine residue in an active site peptide. Their results connected the same lysine residue with binding pyridoxal phosphate and with covalent attachment of a fragment derived from the substrate during inactivation. Rather than merely observing that an enzyme stopped working, the experiments identified the modified site and constrained the chemical explanation.[ref]
Characterization and sequencing of the active site of 1-aminocyclopropane-1-carboxylate synthase by W. K. Yip and others. Abstract: radioactive labeling, shared active-site peptide, hydrolysis and mass-spectrometric identification
Ranjan Swarup is a researcher in plant development, particularly auxin transport and root gravitropism. In a 2001 study, Ranjan Swarup and collaborators investigated where the auxin influx carrier AUX1 operates in Arabidopsis thaliana root tissues. Functional epitope tag versions of AUX1 restored the gravity response of an AUX1 mutant, allowing the team to localize a carrier that still performed its biological function.[ref]
Localization of the auxin permease AUX1 suggests two functionally distinct hormone transport pathways operate in the Arabidopsis root apex by Ranjan Swarup and others. Author byline and equal-contribution note; Results: functional tagged AUX1; Figure 1
A chemical rescue provides an illuminating example. At the same tested concentration, the membrane-permeable auxin analogue naphthaleneacetic acid (1-NAA) restored the mutant root gravity response and outer-tissue reporter gene expression, whereas 2,4-D did not. Combining the rescue with carrier localization linked the visible bending response to the delivery of an auxin signal to growing tissues. The paper proposed distinct inward-to-tip and outward-from-tip transport roles for AUX1, showing how the location of a membrane transport protein helps explain growth of a whole organ.[ref]
Localization of the auxin permease AUX1 suggests two functionally distinct hormone transport pathways operate in the Arabidopsis root apex by Ranjan Swarup and others. Figure 3: aux1-100 and IAA2::uidA at matched concentrations; Implications
Vladimir Shulaev is a researcher in plant genomics. As first author of a large collaborative study published online in 2010, he helped produce a reference genome for woodland strawberry, Fragaria vesca. This diploid plant has 14 chromosomes and a relatively small genome, making it a useful model organism for studying strawberry and related crops.[ref]
The genome of woodland strawberry (Fragaria vesca) by Vladimir Shulaev and others. Abstract and author byline; Nature Genetics 43, 109–116, 2011; online 26 December 2010
The team used DNA sequencing at about 39-fold coverage to assemble the roughly 240-million-base genome, then used a genetic map to organize the assembly into seven chromosome-scale sequences. Repeatedly reading overlapping stretches of DNA supplies evidence for their order; a genetic map supplies a separate kind of evidence about which stretches belong together. The resulting genome lets researchers locate candidate genes for flowering and fruit traits and compare them with corresponding genes in other plants.[ref]
The genome of woodland strawberry (Fragaria vesca) by Vladimir Shulaev and others. Abstract: sequencing coverage, seven pseudochromosomes and horticultural gene candidates
Yaodong Yang is the first author of a 2006 study directly characterizing the auxin influx carrier AUX1. The team expressed this plant membrane transport protein in Xenopus oocytes and measured entry of radioactively labeled indole-3-acetic acid. Uptake was saturable and depended on pH, providing functional evidence about transport rather than only the protein's location.[ref]
High-affinity auxin transport by the AUX1 influx carrier protein by Yaodong Yang and others. Abstract: heterologous expression and radiolabeled IAA uptake; Current Biology 16, 1123–1127, 2006
The mutant comparison connected molecular and organismal observations. Changes in AUX1 that disrupted auxin responses in plants also reduced uptake in the experimental oocytes. Testing the same altered protein in a different cellular setting helped distinguish its transport activity from the many downstream effects of auxin on plant development. Saturation also indicates a limited transport capacity under the assay conditions, rather than an uptake rate that increases without bound.[ref]
High-affinity auxin transport by the AUX1 influx carrier protein by Yaodong Yang and others. Abstract: mutant uptake, concentration dependence and physiological relevance
Ami Ben-Amotz is a researcher in algal physiology. His 1973 work with Mordhay Avron showed how Dunaliella parva can use glycerol in osmoregulation. Raising or lowering the surrounding salt concentration was followed by corresponding changes in intracellular glycerol.[ref]
The lack of detectable glycerol leakage over the reported salt range helped distinguish passive loss from regulated production and breakdown. A changing cellular measurement can have several explanations; perturbing the surroundings while testing retention narrows those explanations.[ref]
Mordhay Avron was a biochemist who investigated how cells adapt to their environment. In a 1973 study with Ami Ben-Amotz, he examined osmoregulation in the salt-tolerant alga Dunaliella parva. Measuring both intracellular glycerol and cell volume let the investigators estimate the internal glycerol concentration, rather than confuse the amount of a solute with its concentration.[ref]
After the surrounding salt concentration changed, intracellular glycerol adjusted over about 90 minutes. The result supported metabolic adjustment of an internal solute as a way to balance an external osmotic challenge.[ref]
The Role of Glycerol in the Osmotic Regulation of the Halophilic Alga Dunaliella parva by Ami Ben-Amotz and Mordhay Avron. Salt-shift experiment and interpretation of glycerol formation/degradation
Sarah J. Liljegren is a researcher in plant development and genetics. In a 2000 collaborative study, she investigated how the SHATTERPROOF genes SHATTERPROOF1 and SHATTERPROOF2 control fruit dehiscence, the opening of a mature fruit that releases its seeds. These genes encode MADS-box transcription factors and help specify the tissues where the fruit opens.[ref]
SHATTERPROOF MADS-box genes control seed dispersal in Arabidopsis by Sarah J. Liljegren and others. Abstract and author byline; Nature 404, 766–770, 2000
The comparison between single and double mutants is illuminating. Disabling either SHATTERPROOF1 or SHATTERPROOF2 alone produced no new visible phenotype, while disrupting both impaired normal fruit dehiscence. This is an example of genetic redundancy: an experiment on only one gene could miss a shared developmental function. The combined mutant and constitutive-expression experiments connected these genes with the differentiation of the opening zone and lignin deposition in neighboring cells, linking gene activity to the mechanics of seed dispersal.[ref]
SHATTERPROOF MADS-box genes control seed dispersal in Arabidopsis by Sarah J. Liljegren and others. Abstract: single versus double mutants, dehiscence-zone differentiation and adjacent lignification
Elison B. Blancaflor is a researcher in plant growth and environmental responses. A 1998 study led by Elison B. Blancaflor used laser ablation to remove defined cells from the root cap of Arabidopsis thaliana and measured the resulting gravitropism. This tested the role of particular cells more precisely than removing the entire root cap.[ref]
Removing inner root-cap columella cells strongly reduced bending without reducing axial growth to the same extent, while removing some peripheral cells had little effect on curvature. Continued growth matters as a control: loss of bending could otherwise reflect an inability to grow at all. Comparing the position of the removed cells with the time course of bending linked a local cellular perturbation to a whole-organ response.[ref]
Mapping the Functional Roles of Cap Cells in the Response of Arabidopsis Primary Roots to Gravity by Elison B. Blancaflor and others. Abstract and growth controls; Plant Physiology 116, 213–222, 1998
S. McQueen-Mason is the first author of the 1992 study that isolated wall-extension-promoting proteins associated with expansin activity. The original paper gives the byline Simon McQueen-Mason. Working with colleagues, S. McQueen-Mason extracted material from growing seedling cell walls and tested whether it could induce extension in isolated walls.[ref]
Two endogenous proteins that induce cell wall extension in plants by S. McQueen-Mason and others. Original first-page byline and Abstract
Separating the extract into active fractions linked the effect to two proteins, each able to promote extension without detectable hydrolytic wall breakdown. Reconstitution made the scientific question sharper: a substance associated with growth was tested for its ability to restore a physical wall response.[ref]
Two endogenous proteins that induce cell wall extension in plants by S. McQueen-Mason and others. Abstract: separated activities and isolated-wall assay
The distinction between extension and hydrolysis is useful beyond this experiment. A wall can change its mechanical behaviour without wholesale digestion of its constituent polysaccharides.
C. van den Berg is the first author of a 1995 study testing positional control of cell fate in the root apical meristem of Arabidopsis thaliana. The team used laser ablation to remove selected biological cells and observe how neighbouring cells subsequently behaved.[ref]
The result challenged a simple ancestry-only account of cell differentiation. Despite regular cell lineage relationships in the meristem, position-dependent signals could guide fate, including signalling from more mature cells toward initial cells.[ref]
Cell fate in the Arabidopsis root meristem determined by directional signalling by C. van den Berg and others. Abstract: positional control and signalling direction
The motivating distinction is between a cell's family history and its current surroundings. Removing a neighbour changes local context without rewriting the remaining cell's ancestry. Subsequent changes in cell fate can therefore test whether developmental identity depends only on descent or also on positional information.
T. Caspar coauthored, with B. G. Pickard, a 1989 experiment testing whether starch-filled plastids are indispensable for gravitropism in Arabidopsis thaliana. The comparison used a mutant unable to synthesize starch in these structures and verified the absence of starch by microscopy.[ref]
Gravitropism in a starchless mutant of Arabidopsis: implications for the starch-statolith theory of gravity sensing by T. Caspar and B. G. Pickard. Abstract: starchless mutant and microscopic controls
The plastids sedimented in normal seedlings when their orientation changed, whereas the mutant's starchless plastids did not show significant sedimentation. Nevertheless, mutant roots still bent in response to gravity. After one five-minute induction followed by rotation on a clinostat, the reported curvature was about in mutants and in controls.[ref]
B. G. Pickard coauthored a 1989 test of gravity sensing in Arabidopsis thaliana using a starchless mutant. With T. Caspar, B. G. Pickard combined microscopic observations of plastids with measurements of gravitropism in roots and other tissues.[ref]
Normal starch-containing plastids settled toward the lower side of the tested cells after inversion. The mutant plastids did not behave similarly, yet mutant roots retained a substantial bending response. Comparing short gravity exposures followed by clinostat rotation connected an initial stimulus to later curvature.[ref]
Nami Ha is the first author of a 2021 study of water movement across Tillandsia usneoides. The work connected rapid external spreading to the bending of flexible trichome wings, rather than treating the plant surface as a fixed network of pores.[ref]
Domino-like water transport on Tillandsia through flexible trichome wings by Nami Ha and others. Original byline; Summary and Results: external transport
Fluorescent tracking and X-ray imaging followed the water and deformation. A moving film flattened successive trichome wings, allowing it to reach neighbouring structures. Artificial wing arrays reproduced this sequence, providing a physical model of the proposed mechanism.[ref]
Domino-like water transport on Tillandsia through flexible trichome wings by Nami Ha and others. Figures 3 and 8; Author contributions: experiments, imaging and artificial trichomes
The example connects surface tension and structural flexibility through elastocapillarity. It also separates spreading across a surface from later uptake into a plant: a long visible wetting front does not by itself measure the volume absorbed. The artificial comparison tested how the surface arrangement contributes without requiring all features of the living tissue.
Yoko Iijima is the first author of a 2004 study characterizing geraniol synthase from aromatic leaf glands. The work connected purification of the plant enzyme with expression in Escherichia coli, where the encoded protein reproduced the geraniol-forming activity.[ref]
Characterization of Geraniol Synthase from the Peltate Glands of Sweet Basil by Yoko Iijima and others. Original byline; Abstract; Figure 3
The team used isotope labelling to test mechanism. Water containing oxygen-18 supplied the oxygen incorporated into geraniol, detected through a mass shift by mass spectrometry. That observation distinguished the tested synthesis route from simple removal of a phosphate group while retaining the substrate's original oxygen.[ref]
Characterization of Geraniol Synthase from the Peltate Glands of Sweet Basil by Yoko Iijima and others. Abstract; Characterization of the Mechanism; Figure 4
M. Hülskamp is the first author of a 1994 study using mutants to dissect trichome development in Arabidopsis thaliana. The investigators isolated and characterized more than mutants representing genes, then compared the shapes and developmental phenotypes of their specialized epidermal cells.[ref]
The phenotypes helped distinguish events contributing to mature-cell architecture. Although these events normally occur in a temporal sequence, the genetic comparisons indicated that much of the final form is assembled through partly independent processes.[ref]
This illustrates how an observed sequence can differ from a strict chain of necessities. If one feature is altered while another still forms, the earlier feature need not be the only route by which the later one is produced. Comparing multiple mutants therefore reveals relationships that a movie of normal morphogenesis alone would not establish.
C. E. Cook is the first author of a 1966 study isolating strigol, a chemical that stimulates germination in the root-parasitic plant Striga. The team obtained crystalline material from cotton root exudates and connected the purified compound to a biological response.[ref]
Germination of Witchweed (Striga lutea Lour.): Isolation and Properties of a Potent Stimulant by C. E. Cook and others. Original byline and Abstract: isolation and germination stimulation
The experiment separated an active substance from a complex mixture. Activity in the original exudate could have arisen from many compounds; obtaining a defined crystalline stimulant allowed the response to be associated with a more specific chemical candidate.[ref]
Germination of Witchweed (Striga lutea Lour.): Isolation and Properties of a Potent Stimulant by C. E. Cook and others. Abstract: crystalline strigol isolated from cotton exudates
The readout was germination. It did not by itself demonstrate subsequent attachment, invasion or successful growth of the parasite on cotton. Distinguishing an initiating cue from the complete biological interaction prevents an assay result from being mistaken for proof of host compatibility.
Pinned article: Introduction to the OurBigBook Project
Welcome to the OurBigBook Project! Our goal is to create the perfect publishing platform for STEM subjects, and get university-level students to write the best free STEM tutorials ever.
Everyone is welcome to create an account and play with the site: ourbigbook.com/go/register. We belive that students themselves can write amazing tutorials, but teachers are welcome too. You can write about anything you want, it doesn't have to be STEM or even educational. Silly test content is very welcome and you won't be penalized in any way. Just keep it legal!
Intro to OurBigBook
. Source. We have two killer features:
- topics: topics group articles by different users with the same title, e.g. here is the topic for the "Fundamental Theorem of Calculus" ourbigbook.com/go/topic/fundamental-theorem-of-calculusArticles of different users are sorted by upvote within each article page. This feature is a bit like:
- a Wikipedia where each user can have their own version of each article
- a Q&A website like Stack Overflow, where multiple people can give their views on a given topic, and the best ones are sorted by upvote. Except you don't need to wait for someone to ask first, and any topic goes, no matter how narrow or broad
This feature makes it possible for readers to find better explanations of any topic created by other writers. And it allows writers to create an explanation in a place that readers might actually find it.Figure 1. Screenshot of the "Derivative" topic page. View it live at: ourbigbook.com/go/topic/derivativeVideo 2. OurBigBook Web topics demo. Source. - local editing: you can store all your personal knowledge base content locally in a plaintext markup format that can be edited locally and published either:This way you can be sure that even if OurBigBook.com were to go down one day (which we have no plans to do as it is quite cheap to host!), your content will still be perfectly readable as a static site.
- to OurBigBook.com to get awesome multi-user features like topics and likes
- as HTML files to a static website, which you can host yourself for free on many external providers like GitHub Pages, and remain in full control
Figure 2. You can publish local OurBigBook lightweight markup files to either OurBigBook.com or as a static website.Figure 3. Visual Studio Code extension installation.Figure 5. . You can also edit articles on the Web editor without installing anything locally. Video 3. Edit locally and publish demo. Source. This shows editing OurBigBook Markup and publishing it using the Visual Studio Code extension. - Infinitely deep tables of contents:
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