Why Are There So Many Diverse Replication Machineries?

The replicon model has initiated a major research line in molecular biology: the study of DNA replication mechanisms. Until now, the majority of studies have focused on a limited set of model organisms, mainly from Bacteria or Opisthokont eukaryotes (human, yeasts) and a few viral systems. However, molecular evolutionists have shown that the living world is more complex and diverse than believed when the operon model was proposed. Comparison of DNA replication proteins in the three domains, Archaea, Bacteria, and Eukarya, have surprisingly revealed the existence of two distinct sets of non-homologous cellular DNA replication proteins, one in Bacteria and the other in Archaea and Eukarya, suggesting that the last universal common ancestor possibly still had an RNA genome. A major puzzle is the presence in eukaryotes of the unfaithful DNA polymerase alpha (Pol α) to prime Okazaki fragments. Interestingly, Pol α is specifically involved in telomere biosynthesis, and its absence in Archaea correlates with the absence of telomeres. The recent discovery of telomere-like GC quartets in eukaryotic replication origins suggests a link between Pol α and the overall organization of the eukaryotic chromosome. As previously proposed by Takemura, Pol α might have originated from a mobile element of viral origin that played a critical role in the emergence of the complex eukaryotic genomes. Notably, most large DNA viruses encode DNA replication proteins very divergent from their cellular counterparts. The diversity of viral replication machineries compared to cellular ones suggests that DNA and DNA replication mechanisms first originated and diversified in the ancient virosphere, possibly explaining why they are so many different types of replication machinerie.     

SNARE Proteins-Why So Many,Why So Few?

Abstract: Both trafficking and secretion critically depend on accurate and specific membrane recognition and fusion. A key step in these processes is the assembly of a complex consisting of a small number of proteins, i.e., the exocytic core complex. In nerve terminals, this set consists of VAMP and synaptotagmin, which reside at membranes of synaptic vesicles, and syntaxin and SNAP-25 at the plasma membrane. In this survey, different secretory systems that depend on the exocytic core proteins are considered. The possibility that specificity in membrane recognition and fusion is achieved by the numerous variants of proteins of the exocytic core is discussed. Variability of the core complex proteins is determined by the complexity of gene families, isoform-specific localization, and posttranslational modifications. Basic biochemical properties depend on specific isoforms, and the possible protein-protein interactions are determined, in turn, by the compatibility of different isoforms. A correlation between specific variants and distinct biochemical or cellular properties is shown. The outcome of this survey is that heterogeneity in secretion may be dictated by the large number of possible combinations of variants of only a few proteins.     

Why Are There So Many Waterfowl and So Few Northern Bobwhites? Rethinking Federal Coordination

In this paper we ask whether we should we re-examine the future of upland gamebird management and greater federal oversight and partnerships in the twenty-first century. Management for waterfowl in North America has been successful because of the 1918 Migratory Bird Treaty Act (MBTA) and the subsequent 1986 North American Waterfowl Management Plan (NAWMP). Although the MBTA included most migratory and non-migratory species, upland gamebirds, including the northern bobwhite (Colinus virginianus; bobwhite), were excluded and retained under state control. Although many waterfowl populations have been increasing, bobwhite populations have declined precipitously during much of the period. Excluding non-migratory gamebirds from the MBTA meant that the multistate coordinating efforts that made the MBTA successful for increasing the management of waterfowl have not been applied. The National Bobwhite Conservation Initiative (NBCI) has made a strong effort to unite states within the bobwhite range but does not have the federal anchoring and financial support that were given to states by the MBTA and NAWMP and currently integrate adaptive harvest, habitat management, and financial partnerships to acquire and manage wetlands that support waterfowl production. The NBCI Coordinated Implementation Program (CIP) is designed to serve the function of developing and monitoring habitat for bobwhites but is entirely voluntary and dependent entirely on state and non-governmental organization (NGO) funds, lacking federal grants and Federal Duck Stamp funds. To catch up with the successes of waterfowl, we discuss the implications of increasing coordination, partnerships, and funding mechanisms between the federal government, state governments, and NGOs to provide common landscape-level population monitoring and modeling, adaptive harvest regulations, habitat management goals, and a national upland gamebird stamp. © 2021 The Wildlife Society.     

Replication Origins: Why Do We Need So Many?

During the G1 phase of the cell cycle, replication origins are prepared to fire, a process that is referred to as origin licensing. It was often pondered what a cell’s fate would be if not all of its replication origins were licensed and subsequently activated during S phase. One obvious prediction was that S phase would simply be prolonged. As it turns out, however, the consequences are much more complex. A short G1 phase enforced by premature entry into S phase, or other events that negatively affect origin licensing, will ultimately compromise the cell’s ability to complete DNA replication before entering mitosis. As a result, the cell becomes genomically unstable when it attempts to repair unreplicated DNA during anaphase. Thus, the density of active replication origins in the chromosomes of eukaryotic cells determines S phase dynamics and chromosome stability during mitosis.     

Sex Determination: Why So Many Ways of Doing It?

Sexual reproduction is an ancient feature of life on earth, and the familiar X and Y chromosomes in humans and other model species have led to the impression that sex determination mechanisms are old and conserved. In fact, males and females are determined by diverse mechanisms that evolve rapidly in many taxa. Yet this diversity in primary sex-determining signals is coupled with conserved molecular pathways that trigger male or female development. Conflicting selection on different parts of the genome and on the two sexes may drive many of these transitions, but few systems with rapid turnover of sex determination mechanisms have been rigorously studied. Here we survey our current understanding of how and why sex determination evolves in animals and plants and identify important gaps in our knowledge that present exciting research opportunities to characterize the evolutionary forces and molecular pathways underlying the evolution of sex determination.     

Why Are Computational Neuroscience and Systems Biology So Separate?

Despite similar computational approaches, there is surprisingly little interaction between the computational neuroscience and the systems biology research communities. In this review I reconstruct the history of the two disciplines and show that this may explain why they grew up apart. The separation is a pity, as both fields can learn quite a bit from each other. Several examples are given, covering sociological, software technical, and methodological aspects. Systems biology is a better organized community which is very effective at sharing resources, while computational neuroscience has more experience in multiscale modeling and the analysis of information processing by biological systems. Finally, I speculate about how the relationship between the two fields may evolve in the near future.     

By Jove!! Why Do Alternative Mating Tactics Assume So Many Different Forms?

Tremendous diversity exists in the form of alternative matingtactics (AMTs) employed by males of many species. We developa general framework in which to view alternatives that varyin (i) their frequency in the population, (ii) their fitnessvalue with respect to the primary tactics, (iii) the extentto which the alternative tactic is site-fixed and (iv) the intrinsicability of males to change tactics. The frequency and fitness value of alternatives should be influencedby Resource Holding Potential (RHP), which generally varieswith age, size, and perhaps energy reserves. AMTs should beunequal in fitness value when RHP increases at an acceleratingrate with age. "Subordinate AMTs" can result when various factorsfavor males attempting to reproduce before reaching the agewith maximum RHP. An asymptotic relationship between age andRHP should result in most males in a population having essentiallyequal RHP. Several ways exist for males to partition the setof mating opportunities between two or more "equal AMTs." Transient tactics may occur if (i) resources for females andterritorial males differ and do not covary positively in theirdistribution, or (ii) local areas are so attractive to femalesthat males effectively cannot defend them. We suggest Levins'(1968) "fitness set" analysis as a useful model predicting whethera male should specialize on a single tactic, or partition itseffort between the two tactics.     

How Many Endobains Are There?

Oxidative metabolism is very active in brain, where large amounts of chemical energy as ATP molecules are consumed, mostly required to maintain cellular Na+/K+ gradients through the participation of the sodium pump (Na+,K+-ATPase), whose activity is selectively and potently inhibited by the alkaloid ouabain. Na+/K+ gradients are involved in nerve impulse propagation, in neurotransmitter release and cation homeostasis in the nervous system. Likewise, enzyme activity modulation is crucial for maintaining normal blood pressure and cardiovascular contractility as well as renal sodium excretion. The present article reviews the progress in disclosing putative ouabain-like substances, examines their denomination according to different research teams, tissue or biological fluid sources, extraction and purification, assays, biological properties and chemical and biophysical features. When data is available, comparison with ouabain itself is mentioned. Likewise, their potential action in normal physiology as well as in experimental and human pathology is summarized.     

Why Worry about How Many Species and Their Loss?

We are astonishingly ignorant about how many species are alive on earth today, and even more ignorant about how many we can lose yet still maintain ecosystem services that humanity ultimately depends upon. Mora et al.'s paper is important in offering an imaginative new approach to assessing total species numbers, both on land and in the sea.     

Why Was the 2009 Influenza Pandemic in England So Small?

The "Swine flu" pandemic of 2009 caused world-wide infections and deaths. Early efforts to understand its rate of spread were used to predict the probable future number of cases, but by the end of 2009 it was clear that these predictions had substantially overestimated the pandemic's eventual impact. In England, the Health Protection Agency made announcements of the number of cases of disease, which turned out to be surprisingly low for an influenza pandemic. The agency also carried out a serological survey half-way through the English epidemic. In this study, we use a mathematical model to reconcile early estimates of the rate of spread of infection, weekly data on the number of cases in the 2009 epidemic in England and the serological status of the English population at the end of the first pandemic wave. Our results reveal that if there are around 19 infections (i.e., seroconverters) for every reported case then the three data-sets are entirely consistent with each other. We go on to discuss when in the epidemic such a high ratio of seroconverters to cases of disease might have been detected, either through patterns in the case reports or through even earlier serological surveys.     

Why Is the Mechanical Efficiency of F1-ATPase So High?

The experimentally measured mechanical efficiency of the F₁-ATPase under viscous loading is nearly 100%, far higher than any other hydrolysis-driven molecular motor (Yasuda et al., 1998). Here we give a molecular explanation for this remarkable property.     

Programmed Cell Death in Floral Organs: How and Why do Flowers Die?

BACKGROUND: Flowers have a species-specific, limited life span with an irreversible programme of senescence, which is largely independent of environmental factors, unlike leaf senescence, which is much more closely linked with external stimuli. TIMING: Life span of the whole flower is regulated for ecological and energetic reasons, but the death of individual tissues and cells within the flower is co-ordinated at many levels to ensure correct timing. Some floral cells die selectively during organ development, whereas others are retained until the whole organ dies. TRIGGERS: Pollination is an important floral cell death trigger in many species, and its effects are mediated by the plant growth regulator (PGR) ethylene. In some species ethylene is a major regulator of floral senescence, but in others it plays a very minor role and the co-ordinating signals involved remain elusive. Other PGRs such as cytokinin and brassinosteroids are also important but their role is understood only in some specific systems. MECHANISMS: In two floral cell types (the tapetum and the pollen-tube) there is strong evidence for apoptotic-type cell death, similar to that in animal cells. However, in petals there is stronger evidence for an autophagous type of cell death involving endoplasmic reticulum-derived vesicles and the vacuole. Proteases are important, and homologues to animal caspases, key regulators of animal cell death, exist in plants. However, their role is not yet clear. COMPARISON WITH OTHER ORGANS: There are similarities to cell death in other plant organs, and many of the same genes are up-regulated in both leaf and petal senescence; however, there are also important differences for example in the role of PGRs. CONCLUSIONS: Understanding gene regulation may help to understand cell death in floral organs better, but alone it cannot provide all the answers.