Behavioral metabolution: the adaptive and evolutionary potential of metabolism-based chemotaxis

We use a minimal model of metabolism-based chemotaxis to show how a coupling between metabolism and behavior can affect evolutionary dynamics in a process we refer to as behavioral metabolution. This mutual influence can function as an in-the-moment, intrinsic evaluation of the adaptive value of a novel situation, such as an encounter with a compound that activates new metabolic pathways. Our model demonstrates how changes to metabolic pathways can lead to improvement of behavioral strategies, and conversely, how behavior can contribute to the exploration and fixation of new metabolic pathways. These examples indicate the potentially important role that the interplay between behavior and metabolism could have played in shaping adaptive evolution in early life and protolife. We argue that the processes illustrated by these models can be interpreted as an unorthodox instantiation of the principles of evolution by random variation and selective retention. We then discuss how the interaction between metabolism and behavior can facilitate evolution through (i) increasing exposure to environmental variation, (ii) making more likely the fixation of some beneficial metabolic pathways, (iii) providing a mechanism for in-the-moment adaptation to changes in the environment and to changes in the organization of the organism itself, and (iv) generating conditions that are conducive to speciatio

Combined Effects of Wind-Driven Upwelling and Internal Tide on the Continental Shelf

Internal tides on the continental shelf can be intermittent as a result of changing hydrographic conditions associated with wind-driven upwelling. In turn, the internal tide can affect transports associated with upwelling. To study these processes, simulations in an idealized, alongshore uniform setup are performed utilizing the hydrostatic Regional Ocean Modeling System (ROMS) with conditions corresponding, as closely as possible, to the central Oregon shelf. ‘‘Wind only’’ (WO), ‘‘tide only’’ (TO), and ‘‘tide and wind’’ (TW) solutions are compared, utilizing cases with constant upwelling-favorable wind stress as well as with timevariable observed stress. The tide is forced by applying cross-shore barotropic flow at the offshore boundary with intensity sufficient to generate an internal tide with horizontal velocity amplitudes near 0.15 m s21, corresponding to observed levels. The internal tide affects the subinertial circulation, mostly through the changes in the bottom boundary layer variability, resulting in a larger bottom stress and a weaker depthaveraged alongshore current in the TW case compared to WO. The spatial variability of the cross-shore and vertical volume transport is also affected. Divergence in the Reynolds stress associated with the baroclinic tidal flow contributes to the tidally averaged cross-shore momentum balance. Internal waves cause highfrequency variability in the turbulent kinetic energy in both the bottom and surface boundary layers, causing periodic restratification of the inner shelf in the area of the upwelling front. Increased vertical shear in the horizontal velocity resulting from the superposition of the upwelling jet and the internal tide results in intermittent patches of intensified turbulence in the mid–water column. Variability in stratification associated with upwelling can affect not only the propagation of the internal tide on the shelf, but also the barotropic-tobaroclinic energy conversion on the continental slope, in this case changing the classification of the slope from nearly critical to supercritical such that less barotropic tidal energy is converted to baroclinic and a larger fraction of the baroclinic energy is radiated into the open ocean

Analysis of surfactant-associated bacteria in the sea surface microlayer using deoxyribonucleic acid sequencing and synthetic aperture radar

The sea surface microlayer (SML) is the upper 1 mm of the ocean, where Earth’s biogeochemical processes occur between the ocean and atmosphere. It is physicochemically distinct from the water below and highly variable in space and time due to changing physical conditions. Some microorganisms influence the composition of the SML by producing surfactants for biological functions that accumulate on the surface, decrease surface tension, and create slicks. Slicks can be visible to the eye and in synthetic aperture radar (SAR) satellite imagery. This study focuses on surfactant-associated bacteria in the near-surface layer and their role in slick formation where oil is present

Cryo-EM structure of a tetrameric photosystem I from Chroococcidiopsis TS-821, a thermophilic, unicellular, non-heterocyst-forming cyanobacterium

Photosystem I (PSI) is one of two photosystems involved in oxygenic photosynthesis. PSI of cyanobacteria exists in monomeric, trimeric, and tetrameric forms, in contrast to the strictly monomeric form of PSI in plants and algae. The tetrameric organization raises questions about its structural, physiological, and evolutionary significance. Here we report the ∼3.72 Å resolution cryo-electron microscopy structure of tetrameric PSI from the thermophilic, unicellular cyanobacterium Chroococcidiopsis sp. TS-821. The structure resolves 44 subunits and 448 cofactor molecules. We conclude that the tetramer is arranged via two different interfaces resulting from a dimer-of-dimers organization. The localization of chlorophyll molecules permits an excitation energy pathway within and between adjacent monomers. Bioinformatics analysis reveals conserved regions in the PsaL subunit that correlate with the oligomeric state. Tetrameric PSI may function as a key evolutionary step between the trimeric and monomeric forms of PSI organization in photosynthetic organisms

Variational assimilation of satellite observations in a coastal ocean model off Oregon

Satellite along-track sea surface height (SSH) and multisatellite sea surface temperature (SST) maps are assimilated in a coastal ocean circulation model off Oregon. The study period is June–October 2005, featuring intensive separation of the coastal upwelling jets in the eddy-dominated coastal transition zone (CTZ). The data assimilation (DA) system combines the nonlinear Regional Ocean Modeling System (ROMS) and the Advanced Variational Regional Ocean Representer Analyzer (AVRORA) tangent linear and adjoint codes developed by our group. The variational representer DA method is implemented in a series of 6 day time windows, with initial conditions corrected at the beginning of each window. To avoid the problem of matching the model and observed SSH mean levels, the observed SSH slope has been assimilated. Location, timing, and intensity of jets and eddies in the CTZ are constrained, to improve accuracy of nonlinear model analyses and forecasts. In the case assimilating SSH alone, the geometry of the SST front is improved. SSH assimilation results in the cross-shore transport more uniformly distributed along the coast than in the free run model. An outer front is identified in the DA analyses at a distance of 200 km from the coast. A strong subsurface horizontal temperature gradient across this front influences the depth of the thermocline in an area between the front and the continental slope. The DA correction term is comparable in magnitude to dominant terms in the volume-integrated heat equation. The time-averaged DA correction term in the volume-integrated heat balance is closer to 0 in the combined SSH-SST assimilation case, than in the case assimilating SSH alone.This is the publisher's final pdf. The published article is copyrighted by American Geophysical Union and can be found at: http://www.agu.org/journals/jc/index.shtm

Validation of a Single-Nucleotide Polymorphism-Based Non-Invasive Prenatal Test in Twin Gestations : Determination of Zygosity, Individual Fetal Sex, and Fetal Aneuploidy

We analyzed maternal plasma cell-free DNA samples from twin pregnancies in a prospective blinded study to validate a single-nucleotide polymorphism (SNP)-based non-invasive prenatal test (NIPT) for zygosity, fetal sex, and aneuploidy. Zygosity was evaluated by looking for either one or two fetal genome complements, fetal sex was evaluated by evaluating Y-chromosome loci, and aneuploidy was assessed through SNP ratios. Zygosity was correctly predicted in 100% of cases (93/93; 95% confidence interval (CI) 96.1%-100%). Individual fetal sex for both twins was also called with 100% accuracy (102/102; 95% weighted CI 95.2%-100%). All cases with copy number truth were also correctly identified. The dizygotic aneuploidy sensitivity was 100% (10/10; 95% CI 69.2%-100%), and overall specificity was 100% (96/96; 95% weighted CI, 94.8%-100%). The mean fetal fraction (FF) of monozygotic twins (n = 43) was 13.0% (standard deviation (SD), 4.5%); for dizygotic twins (n = 79), the mean lower FF was 6.5% (SD, 3.1%) and the mean higher FF was 8.1% (SD, 3.5%). We conclude SNP-based NIPT for zygosity is of value when chorionicity is uncertain or anomalies are identified. Zygosity, fetal sex, and aneuploidy are complementary evaluations that can be carried out on the same specimen as early as 9 weeks' gestation

Habitable Zones in the Universe

Habitability varies dramatically with location and time in the universe. This was recognized centuries ago, but it was only in the last few decades that astronomers began to systematize the study of habitability. The introduction of the concept of the habitable zone was key to progress in this area. The habitable zone concept was first applied to the space around a star, now called the Circumstellar Habitable Zone. Recently, other, vastly broader, habitable zones have been proposed. We review the historical development of the concept of habitable zones and the present state of the research. We also suggest ways to make progress on each of the habitable zones and to unify them into a single concept encompassing the entire universe.Comment: 71 pages, 3 figures, 1 table; to be published in Origins of Life and Evolution of Biospheres; table slightly revise

Viral Paratransgenesis in the Malaria Vector Anopheles gambiae

Paratransgenesis, the genetic manipulation of insect symbiotic microorganisms, is being considered as a potential method to control vector-borne diseases such as malaria. The feasibility of paratransgenic malaria control has been hampered by the lack of candidate symbiotic microorganisms for the major vector Anopheles gambiae. In other systems, densonucleosis viruses (DNVs) are attractive agents for viral paratransgenesis because they infect important vector insects, can be genetically manipulated and are transmitted to subsequent generations. However, An. gambiae has been shown to be refractory to DNV dissemination. We discovered, cloned and characterized the first known DNV (AgDNV) capable of infection and dissemination in An. gambiae. We developed a flexible AgDNV-based expression vector to express any gene of interest in An. gambiae using a two-plasmid helper-transducer system. To demonstrate proof-of-concept of the viral paratransgenesis strategy, we used this system to transduce expression of an exogenous gene (enhanced green fluorescent protein; EGFP) in An. gambiae mosquitoes. Wild-type and EGFP-transducing AgDNV virions were highly infectious to An. gambiae larvae, disseminated to and expressed EGFP in epidemiologically relevant adult tissues such as midgut, fat body and ovaries and were transmitted to subsequent mosquito generations. These proof-of-principle data suggest that AgDNV could be used as part of a paratransgenic malaria control strategy by transduction of anti-Plasmodium peptides or insect-specific toxins in Anopheles mosquitoes. AgDNV will also be extremely valuable as an effective and easy-to-use laboratory tool for transient gene expression or RNAi in An. gambiae