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Yayın Strategies for the evolution of sex(American Institute of Physics Inc., 2001-12) Tüzel, Erkan; Sevim, Volkan; Erzan, AyşeThe maintenance of a macroscopic sexual population is addressed. As a scenario, the mechanism of random conversion to sex, in the presence of a constant rate of mutation is examined. This scenario is very closely related to "coevolution of cell senescence and diploid sexual reproduction in unicellular organisms." In this work, a "senescence clock" ticks off a finite lifetime for each bit string. Sexual reproduction resets the senescence of clock; unless this happens after a number of generations of cloning, the offspring stop dividing and die.Yayın Quaternary uplift of the northern margin of the Central Anatolian Plateau: New OSL dates of fluvial and delta-terrace deposits of the Kizilirmak River, Black Sea coast, Turkey(Pergamon-Elsevier Science Ltd, 2018-12-01) Berndt, Christopher; Yıldırım, Cengiz; Çiner, Tahsin Attila; Strecker, Manfred R.; Ertunç, Gülgün; Sarıkaya, Mehmet Akif; Özcan, Orkan; Öztürk, Tuğba; Güneç Kıyak, NafiyeWe analysed the interplay between coastal uplift, sea level change in the Black Sea, and incision of the Kizilirmak River in northern Turkey. These processes have created multiple co-genetic fluvial and marine terrace sequences that serve as excellent strain markers to assess the ongoing evolution of the Pontide orogenic wedge and the growth of the northern margin of the Central Anatolian Plateau. We used high-resolution topographic data, OSL ages, and published information on past sea levels to analyse the spatiotemporal evolution of these terraces; we derived a regional uplift model for the northward advancing orogenic wedge that supports the notion of laterally variable uplift rates along the flanks of the Pontides. The best-fit uplift model defines a constant long-term uplift rate of 0.28 +/- 0.07 m/ka for the last 545 ka. This model explains the evolution of the terrace sequence in light of active tectonic processes and superposed cycles of climate-controlled sea-level change. Our new data reveal regional uplift characteristics that are comparable to the inner sectors of the Central Pontides; accordingly, the rate of uplift diminishes with increasing distance from the main strand of the restraining bend of the North Anatolian Fault Zone (NAFZ). This spatial relationship between the regional impact of the restraining bend of the NAFZ and uplift of the Pontide wedge thus suggests a strong link between the activity of the NAFZ, deformation and uplift in the Pontide orogenic wedge, and the sustained lateral growth of the Central Anatolian Plateau flank.Yayın People respond with different moral emotions to violations in different relational models: a cross-cultural comparison(American Psychological Association, 2021-06) Sunar, Diane; Cesur, Sevim; Piyale, Zeynep Ecem; Tepe, Beyza; Biten, Ali Furkan; Hill, Charles T.; Koç, YasinConsonant with a functional view of moral emotions, we argue that morality is best analyzed within relationships rather than in individuals, and use Fiske's (1992) theory of relational models (RMs: communal sharing [CS], authority ranking [AR]. equality matching [EM], and market pricing [MP]) to predict that violations in different RMs will arouse different intensities of other-blaming emotions (anger, contempt and disgust) in both observers and victims, together with different intensities of self-blaming emotions (shame and guilt) in perpetrators, and to predict that these patterns of emotion will show similarity across both individuals and cultures. Three studies, using vignettes portraying moral violations in all RMs in different experimental designs. supported these expectations. while also producing some unexpected results. The intensity of shame and guilt varied markedly across RMs, but with little difference between the two emotions. The intensity of all 3 other-blaming emotions also varied across RMs. Anger was the most intense emotional response to violation in all RMs, whereas disgust and contempt were stronger in CS than in other RMs. Disgust and shame were linked more strongly in CS than in other RMs, and anger and guilt were more strongly linked than other emotion pairs in EM. Moral emotions in RMs involving hierarchy (AR and MP) differed widely depending on the perpetrator's dominant or subordinate status. Both Turkish (TR) and English-speaking (EN) samples showed similar patterns of all moral emotions across RMs. Understanding the functions of moral emotions in relationships using relational models can help to clarify multiple aspects of moral psychology.Yayın Discovering cis-regulatory modules by optimizing barbecues(Elsevier Science Bv, 2009-05-28) Mosig, Axel; Bıyıkoğlu, Türker; Prohaska, Sonja J.; Stadler, Peter F.Gene expression in eukaryotic cells is regulated by a complex network of interactions, in which transcription factors and their binding sites on the genomic DNA play a determining role. As transcription factors rarely, if ever, act in isolation, binding sites of interacting factors are typically arranged in close proximity forming so-called cis-regulatory modules. Even when the individual binding sites are known, module discovery remains a hard combinatorial problem, which we formalize here as the Best Barbecue Problem. It asks for simultaneously stabbing a maximum number of differently colored intervals from K arrangements of colored intervals. This geometric problem turns out to be an elementary, yet previously unstudied combinatorial optimization problem of detecting common edges in a family of hypergraphs, a decision version of which we show here to be NP-complete. Due to its relevance in biological applications, we propose algorithmic variations that are suitable for the analysis of real data sets comprising either many sequences or many binding sites. Being based on set systems induced by interval arrangements, our problem setting generalizes to discovering patterns of co-localized itemsets in non-sequential objects that consist of corresponding arrangements or induce set systems of co-localized items. In fact, our optimization problem is a generalization of the popular concept of frequent itemset mining.Yayın Evolutionary route to diploidy and sex(National Academy of Sciences, 2001-11-20) Tüzel, Erkan; Sevim, Volkan; Erzan, AyşeBy using a bit-string model of evolution, we find a successful route to diploidy and sex in simple organisms. Allowing the sexually reproducing diploid individuals to also perform mitosis, as they do in a haploid-diploid cycle, leads to the complete takeover of the population by sexual diploids. This mechanism is so robust that even the accidental conversion and pairing of only two diploids give rise to a sexual population.Yayın Coupled quintic nonlinear Schrodinger equations in a generalized elastic solid(IOP Publishing Ltd, 2004-10-08) Hacınlıyan, Irma; Erbay, SaadetIn the present study, the nonlinear modulation of transverse waves propagating in a cubically nonlinear dispersive elastic medium is studied using a multiscale expansion of wave solutions. It is found that the propagation of quasimonochromatic transverse waves is described by a pair of coupled nonlinear Schrodinger (CNLS) equations. In the process of deriving the amplitude equations, it is observed that for a specific choice of material constants and wavenumber, the coefficient of nonlinear terms becomes zero, and the CNLS equations are no longer valid for describing the behaviour of transverse waves. In order to balance the nonlinear effects with the dispersive effects, by intensifying the nonlinearity, a new perturbation expansion is used near the critical wavenumber. It is found that the long time behaviour of the transverse waves about the critical wavenumber is given by a pair of coupled quintic nonlinear Schrodinger (CQNLS) equations. In the absence of one of the transverse waves, the CQNLS equations reduce to the single quintic nonlinear Schrodinger (QNLS) equation which has already been obtained in the context of water waves. By using a modified form of the so-called tanh method, some travelling wave solutions of the CQNLS equations are presented.Yayın Eolianite and coquinite as evidence of MIS 6 and 5, NW Black Sea coast, Turkey(Elsevier B.V., 2017-04) Erginal, Ahmet Evren; Güneç Kıyak, Nafiye; Selim, Hamit Haluk; Bozcu, Mustafa; Öztürk, Muhammed Zeynel; Ekinci, Yunus Levent; Demirci, Alper; Elmas, Elmas Kırcı; Öztürk, Tuğba; Çakır, Çağlar; Karabıyıkoğlu, MustafaThis paper discusses the implications of a lowstand carbonate eolianite and overlying transgressive sequence of coquinite at Şile on the Turkish Black Sea coast based on composition, depositional characteristics and optical age estimations. The cross-bedded eolianite is a mixed ooid quartz grainstone in composition, yielding a depositional age matching MIS 6. It formed at the backshore of the paleobeach with the supply of sediment the from the beach face and offering insights into the drift of mixed shallow marine carbonates and siliciclastics together with radial ooids by onshore winds from a subaerially exposed high- to low-energy ooid shoals and oolitic sand complexes which developed parallel to the shoreline on the shallow shelf margin. During this lowstand, a low-relief dune retaining a record of opposing paleowind directions than that of prevalent northeasterly winds of today appears to have been lithified to form dune rock (aeolinite) under drier conditions compared to the present. Coinciding with MIS 5e, shallow marine coquina beds resting unconformably on the eolianite indicate the occurrence of the Mediterranean transgression during the last interglacial, as confirmed by benthic foraminifera within the high-salinity tolerant coquina shells.Yayın Optimization of wastewater treatment systems for growing industrial parks(Elsevier B.V., 2023-12-20) Savun Hekimoğlu, Başak; İşler, Zülal; Hekimoğlu, Mustafa; Burak, Selmin; Karlı, Deniz; Yücekaya, Ahmet; Akpınar, Ersin; Ediger, Volkan Ş.Wastewater treatment is one of the crucial functions of industrial parks as wastewater from industrial facilities usually contains toxic compounds that can cause damage to the environment. To control their environmental loads, industrial parks make investment decisions for wastewater treatment plants. For this, they need to consider technical and economic factors as well as future growth projections as substantial construction and operational costs of wastewater treatment plants have to be shared by all companies in an industrial park. In this paper, we consider the long-term capacity planning problem for wastewater treatment facilities of a stochastically growing industrial park. By explicitly modeling randomness in the arrival of new tenants and their random wastewater discharges, our model calculates the future mean and variance of wastewater flow in the industrial park. Mean and variance are used in a Mixed Integer Programming Model to optimize wastewater treatment plant selection over a long planning horizon (30 years). By fitting our first model to empirical data from an industrial park in Turkey, we find that considering the variance of wastewater load is critical for long-term planning. Also, we quantify the economic significance of lowering wastewater discharges which can be achieved by water recycling or interplant water exchange.Yayın Testing a hypothesis for the evolution of sex(World Scientific Publishing Company, 2000-07-11) Örçal, Bora; Tüzel, Erkan; Sevim, Volkan; Jan, Naeem; Erzan, AyşeAn asexual set of primitive bacteria is simulated with a lit-string Penna model with a Fermi function for survival. A recent hypothesis by Jan, Stauffer, and Moseley on the evolution of sex from asexual cells as a strategy for trying to escape the effects of deleterious mutations is checked. This strategy is found to provide a successful scenario for the evolution of a stable macroscopic sexual population.Yayın Investigation of beachrock using microanalyses and OSL dating: a case study from Bozcaada island, Turkey(Coastal Education & Research Foundation, 2010-03) Erginal, Ahmet Evren; Güneç Kıyak, Nafiye; Öztürk, BeyhanWe investigated the origin and absolute age of beachrock samples on Bozcaada Island, located on the northern Aegean Sea coast of Turkey, using energy dispersive X-ray spectroscopy (EDX) and scanning electron microscopy (SEM) analyses and optically stimulated luminescence (OSL) dating. Various types of cements were identified, such as micritic, meniscus, and biologic cements, revealing that the beachrock could have occurred as a result of the combined effects of marine-phreatic and supratidal cementation conditions. Optical dating results showed that the formation of beachrock ranged in age from 5.41 +/- 0.58 ka BP to 0.33 +/- 0.05 ka BP. However, much of the beachrock body (about 3 m in thickness) is drowned or submerged today, suggesting that submerged beachrocks extending to -5 m date to earlier times than the start of the cementation period discussed herein.
