Recruitment of the intertidal barnacle Semibalanus balanoides ; metamorphosis and survival from daily to seasonal timescales

Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 2008The benthic habitat is the terminal destination for marine animals in terms of their reproductive lifecycle. Recruitment dynamics relating to seasonal changes in the benthic habitat may be the best source of information for predicting recruit abundance and for marine resources management. The transition from the pelagic to the benthic phases is the last stage in the connectivity between benthic populations. The transition to the benthos may be a process that dominates recruitment dynamics to the exclusion of other characteristics of larvae such as their quality and their density. Recruitment of benthic marine animals is influenced by two seasonally varying factors of the benthic habitat. First, the availability of suitable habitat for recruitment can in large part determine the survival probability for settlers, a trend that is most pronounced for low or no survival when the settlement substrate is saturated by conspecifics from a recruitment cohort. Preemption is caused by the presence of current occupants from a recruit cohort, and it influences the settlement rate or the survival probability of conspecifics. Descriptive statistics (Chapter 2) and a field experiment (Chapter 4) highlight the role of preemption on barnacle recruitment. The second factor results from seasonal changes in environmental conditions that settlers experience in the benthic habitat, which could affect the physiology and survival probability of barnacle settlers. Highly unpredictable features of recruitment dynamics also play a role, such as wind that enhances wave action in the rocky intertidal that has been linked to the rate of settlement. Day to day variability in wind may cause patterns of settlement to be highly unpredictable. Predator induced mortality is spatially aggregated, and the random pattern of mortality in space is highly unpredictable. In contrast to these high frequency sources of recruitment variability, seasonal factors that vary at lower frequencies and that often change monotonically lend great predictive ability for recruitment dynamics. It appears that barnacles have evolved to compete for suitable habitat and have mechanisms to cope with seasonally varying environmental conditions in the benthic habitat, which may be the basis for why these features dominate the barnacle recruitment dynamic

Repentir: Digital exploration beneath the surface of an oil painting

Repentir is a mobile application that employs marker-less tracking and augmented reality to enable gallery visitors to explore the under drawing and successive stages of pigment beneath an oil painting's surface. Repentir recognises the position and orientation of a specific painting within a photograph and precisely overlays images that were captured during that painting's creation. The viewer may then browse through the work's multiple states and closely examine its painted surface in one of two ways: sliding or rubbing. Our current prototype recognises realist painter Nathan Walsh's most recent work, "Transamerica". Repentir enables the viewer to explore intermediary stages in the painting's development and see what is usually lost within the materially additive painting process. The prototype offers an innovative approach to digital reproduction and provides users with unique insights into the painter's working method

Spectral Functions, Maximum Entropy Method and Unconventional Methods in Lattice Field Theory

We present two unconventional methods of extracting information from hadronic 2-point functions produced by Monte Carlo simulations. The first is an extension of earlier work by Leinweber which combines a QCD Sum Rule approach with lattice data. The second uses the Maximum Entropy Method to invert the 2-point data to obtain estimates of the spectral function. The first approach is applied to QCD data, and the second method is applied to the Nambu--Jona-Lasinio model in (2+1)D. Both methods promise to augment the current approach where physical quantities are extracted by fitting to pure exponentials.Comment: Paper presented at the Workshop on Lattice Hadron Physics, July 2001, Cairns, Australia. 5 pages. Minor spelling error correcte

Recruitment of the intertidal barnacle Semibalanus balanoides : metamorphosis and survival from daily to seasonable timescales

Thesis (Ph. D.)--Joint Program in Oceanography/Applied Ocean Science and Engineering (Massachusetts Institute of Technology, Dept. of Biology; and the Woods Hole Oceanographic Institution), 2008.This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.Includes bibliographical references.The benthic habitat is the terminal destination for marine animals in terms of their reproductive lifecycle. Recruitment dynamics relating to seasonal changes in the benthic habitat may be the best source of information for predicting recruit abundance and for marine resources management. The transition from the pelagic to the benthic phases is the last stage in the connectivity between benthic populations. The transition to the benthos may be a process that dominates recruitment dynamics to the exclusion of other characteristics of larvae such as their quality and their density. Recruitment of benthic marine animals is influenced by two seasonally varying factors of the benthic habitat. First, the availability of suitable habitat for recruitment can in large part determine the survival probability for settlers, a trend that is most pronounced for low or no survival when the settlement substrate is saturated by conspecifics from a recruitment cohort. Preemption is caused by the presence of current occupants from a recruit cohort, and it influences the settlement rate or the survival probability of conspecifics. Descriptive statistics (Chapter 2) and a field experiment (Chapter 4) highlight the role of preemption on barnacle recruitment. The second factor results from seasonal changes in environmental conditions that settlers experience in the benthic habitat, which could affect the physiology and survival probability of barnacle settlers. Highly unpredictable features of recruitment dynamics also play a role, such as wind that enhances wave action in the rocky intertidal that has been linked to the rate of settlement. Day to day variability in wind may cause patterns of settlement to be highly unpredictable. Predator induced mortality is spatially aggregated, and the random pattern of mortality in space is highly unpredictable. In contrast to these high frequency sources of recruitment variability, seasonal factors that vary at lower frequencies and that often change monotonically lend great predictive ability for recruitment dynamics. It appears that barnacles have evolved to compete for suitable habitat and have mechanisms to cope with seasonally varying environmental conditions in the benthic habitat, which may be the basis for why these features dominate the barnacle recruitment dynamic.by Jonathan N. Blythe.Ph.D

The role of phonology in lexical access in teenagers with a history of dyslexia

We examined phonological recoding during silent sentence reading in teenagers with a history of dyslexia and their typically developing peers. Two experiments are reported in which participants’ eye movements were recorded as they read sentences containing correctly spelled words (e.g., church), pseudohomophones (e.g., cherch), and spelling controls (e.g., charch). In Experiment 1 we examined foveal processing of the target word/nonword stimuli, and in Experiment 2 we examined parafoveal pre-processing. There were four participant groups–older teenagers with a history of dyslexia, older typically developing teenagers who were matched for age, younger typically developing teenagers who were matched for reading level, and younger teenagers with a history of dyslexia. All four participant groups showed a pseudohomophone advantage, both from foveal processing and parafoveal pre-processing, indicating that teenagers with a history of dyslexia engage in phonological recoding for lexical identification during silent sentence reading in a comparable manner to their typically developing peers

Digital originals: reproduction as a space for design

This paper reports findings from a qualitative study of a group of artists in the North of England. It focuses on the impact of digital technology on their printmaking and wider art practice. Four major themes emerge: apprenticeship, networks, authenticity and commodification. Each of the artists describes a long process of educational and professional apprenticeship. They reflect in detail on the value of networks of support not only in generating contacts for potential professional development but also in affirming their identity as an artist. Current practices around the production of Giclée prints are considered in detail and related to more general problems of what constitutes authentic work and the problems of commodification. After reporting findings from the qualitative study the paper presents initial concept design work around the notion of a "slow print". It also discusses an experience prototype that reveals rather than conceals digital practice. It considers the notion of an original as a social practice and positions reproduction as a space for design

Power spectra of TASEPs with a localized slow site

The totally asymmetric simple exclusion process (TASEP) with a localized defect is revisited in this article with attention paid to the power spectra of the particle occupancy N(t). Intrigued by the oscillatory behaviors in the power spectra of an ordinary TASEP in high/low density phase(HD/LD) observed by Adams et al. (2007 Phys. Rev. Lett. 99 020601), we introduce a single slow site with hopping rate q<1 to the system. As the power spectrum contains time-correlation information of the particle occupancy of the system, we are particularly interested in how the defect affects fluctuation in particle number of the left and right subsystems as well as that of the entire system. Exploiting Monte Carlo simulations, we observe the disappearance of oscillations when the defect is located at the center of the system. When the defect is off center, oscillations are restored. To explore the origin of such phenomenon, we use a linearized Langevin equation to calculate the power spectrum for the sublattices and the whole lattice. We provide insights into the interactions between the sublattices coupled through the defect site for both simulation and analytical results.Comment: 16 pages, 6 figures; v2: Minor revision

Competition for finite resources

The resources in a cell are finite, which implies that the various components of the cell must compete for resources. One such resource is the ribosomes used during translation to create proteins. Motivated by this example, we explore this competition by connecting two totally asymmetric simple exclusion processes (TASEPs) to a finite pool of particles. Expanding on our previous work, we focus on the effects on the density and current of having different entry and exit rates.Comment: 15 pages, 9 figures, v2: minor revisions, v3: additional reference & minor correction

Power Spectra of a Constrained Totally Asymmetric Simple Exclusion Process

To synthesize proteins in a cell, an mRNA has to work with a finite pool of ribosomes. When this constraint is included in the modeling by a totally asymmetric simple exclusion process (TASEP), non-trivial consequences emerge. Here, we consider its effects on the power spectrum of the total occupancy, through Monte Carlo simulations and analytical methods. New features, such as dramatic suppressions at low frequencies, are discovered. We formulate a theory based on a linearized Langevin equation with discrete space and time. The good agreement between its predictions and simulation results provides some insight into the effects of finite resoures on a TASEP.Comment: 4 pages, 2 figures v2: formatting change

Two spatial scales in a bleaching event : corals from the mildest and the most extreme thermal environments escape mortality

Author Posting. © Association for the Sciences of Limnology and Oceanography, 2013. This article is posted here by permission of Association for the Sciences of Limnology and Oceanography for personal use, not for redistribution. The definitive version was published in Limnology and Oceanography 58 (2013): 1531-1545, doi:10.4319/lo.2013.58.5.1531.In summer 2010, a bleaching event decimated the abundant reef flat coral Stylophora pistillata in some areas of the central Red Sea, where a series of coral reefs 100–300 m wide by several kilometers long extends from the coastline to about 20 km offshore. Mortality of corals along the exposed and protected sides of inner (inshore) and mid and outer (offshore) reefs and in situ and satellite sea surface temperatures (SSTs) revealed that the variability in the mortality event corresponded to two spatial scales of temperature variability: 300 m across the reef flat and 20 km across a series of reefs. However, the relationship between coral mortality and habitat thermal severity was opposite at the two scales. SSTs in summer 2010 were similar or increased modestly (0.5°C) in the outer and mid reefs relative to 2009. In the inner reef, 2010 temperatures were 1.4°C above the 2009 seasonal maximum for several weeks. We detected little or no coral mortality in mid and outer reefs. In the inner reef, mortality depended on exposure. Within the inner reef, mortality was modest on the protected (shoreward) side, the most severe thermal environment, with highest overall mean and maximum temperatures. In contrast, acute mortality was observed in the exposed (seaward) side, where temperature fluctuations and upper water temperature values were relatively less extreme. Refuges to thermally induced coral bleaching may include sites where extreme, high-frequency thermal variability may select for coral holobionts preadapted to, and physiologically condition corals to withstand, regional increases in water temperature.J.C.B.S. was partially supported by Fundac¸a˜o para a Cieˆncia e a Tecnologia (project PEst-C/MAR/LA0015/2011) and by the European Regional Development Fund through the Operational Competitiveness Programme (National Strategic Reference Framework). Kristen Davis was partially supported by a Woods Hole Oceanographic Institution postdoctoral scholarship. This research was supported by KAUST with awards USA 00002 and KSA 00011