How the storage effect and the number of temporal niches affect biodiversity in stochastic and seasonal environments

Temporal environmental variations affect diversity in communities of competing populations. In particular, the covariance between competition and environment is known to facilitate invasions of rare species via the storage effect. Here we present a quantitative study of the effects of temporal variations in two-species and in diverse communities. Four scenarios are compared: environmental variations may be either periodic (seasonal) or stochastic, and the dynamics may support the storage effect (global competition) or not (local competition). In two-species communities, coexistence is quantified via the mean time to absorption, and we show that stochastic variations yield shorter persistence time because they allow for rare sequences of bad years. In diverse communities, where the steady-state reflects a colonization-extinction equilibrium, the actual number of temporal niches is shown to play a crucial role. When this number is large, the same trends hold: storage effect and periodic variations increase both species richness and the evenness of the community. Surprisingly, when the number of temporal niches is small global competition acts to decrease species richness and evenness, as it focuses the competition to specific periods, thus increasing the effective fitness differences.     

The Polarization of Light in a Tropical Rain Forest1

The light environment within forests presents complex patterns of brightness and spectral distribution of light. The polarized light field is no less complex. Using an imaging polarized light analyzer, we examined the natural fields of linearly polarized light in the tropical rain forest of Guatopo National Park, Venezuela. We found that the celestial polarization pattern remains visible underneath the forest canopy, although cloud and fog coverage may diffuse the light and reduce the polarization signal. We characterized several distinct light environments, each having a characteristic polarized light field. Furthermore, objects throughout the forest reflect light that is polarized in a predictable fashion depending upon the material, structure, and orientation of the reflecting surface. As a consequence of these patterns in the distribution of polarized light, some functions of polarization vision, such as navigation, must be limited to the spaces exposed to several extended portions of the sky, while others, such as remote sensing of surface orientation, object detection, and breaking of camouflage would be useful throughout the forest. The polarization of light adds another dimension to the complexity of the rain forest photic environment.     

The interplay between vaccination and social distancing strategies affects COVID19 population-level outcomes

Social distancing is an effective population-level mitigation strategy to prevent COVID19 propagation but it does not reduce the number of susceptible individuals and bears severe social consequences—a dire situation that can be overcome with the recently developed vaccines. Although a combination of these interventions should provide greater benefits than their isolated deployment, a mechanistic understanding of the interplay between them is missing. To tackle this challenge we developed an age-structured deterministic model in which vaccines are deployed during the pandemic to individuals who do not show symptoms. The model allows for flexible and dynamic prioritization strategies with shifts between target groups. We find a strong interaction between social distancing and vaccination in their effect on the proportion of hospitalizations. In particular, prioritizing vaccines to elderly (60+) before adults (20-59) is more effective when social distancing is applied to adults or uniformly. In addition, the temporal reproductive number R_t is only affected by vaccines when deployed at sufficiently high rates and in tandem with social distancing. Finally, the same reduction in hospitalization can be achieved via different combination of strategies, giving decision makers flexibility in choosing public health policies. Our study provides insights into the factors that affect vaccination success and provides methodology to test different intervention strategies in a way that will align with ethical guidelines.     

Long-term clinical experience with fresh osteochondral allografts for articular knee defects in high demand patients

Fresh osteochondral allografts are used to repair osteoarticular defects of the knee. For post-traumatic defects recent advances in other techniques for cartilage repair and resurfacing have reduced the role of allograft tissue transplantation to defects larger than 3 cm in diameter and 1 cm in depth. A fresh osteochondral allograft that has been harvested from a donor within 24 h from death and preserved in 4°C for up to 4 days shows 100% viability of the cartilage. The avascular bone remains structurally intact and mechanically strong until it is replaced by host bone or until it is weakened or absorbed. The indications for fresh osteochondral allografts for reconstructive surgery of the articular surface of the knee do not justify the use of immunosuppressive drugs and we therefore believe that surgical vascularization of the grafts should not be carried out. This clinical approach can provide a reconstructive solution for younger higher demand patients where implants are not desirable and arthrodesis is not acceptable. A clinical follow-up study as early as 1975 showed successful early outcomes. More recently, survival analysis found 95% survival at 5 years, 71% at 10 years, and 66% at 20 years. It was learned that older patients, bipolar transplants, improper loading of the graft, and grafts for osteoarthritis and steroid-induced avascular necrosis do not lead to good long-term outcomes. We would like to describe here some of our long-term clinical experience concerning this surgery. This revised version was published online in July 2006 with corrections to the Cover Date.     

Association of the chromosome replication initiator DnaA with the Escherichia coli inner membrane in vivo: quantity and mode of binding

DnaA initiates chromosome replication in most known bacteria and its activity is controlled so that this event occurs only once every cell division cycle. ATP in the active ATP-DnaA is hydrolyzed after initiation and the resulting ADP is replaced with ATP on the verge of the next initiation. Two putative recycling mechanisms depend on the binding of DnaA either to the membrane or to specific chromosomal sites, promoting nucleotide dissociation. While there is no doubt that DnaA interacts with artificial membranes in vitro, it is still controversial as to whether it binds the cytoplasmic membrane in vivo. In this work we looked for DnaA-membrane interaction in E. coli cells by employing cell fractionation with both native and fluorescent DnaA hybrids. We show that about 10% of cellular DnaA is reproducibly membrane-associated. This small fraction might be physiologically significant and represent the free DnaA available for initiation, rather than the vast majority bound to the datA reservoir. Using the combination of mCherry with a variety of DnaA fragments, we demonstrate that the membrane binding function is delocalized on the surface of the protein's domain III, rather than confined to a particular sequence. We propose a new binding-bending mechanism to explain the membrane-induced nucleotide release from DnaA. This mechanism would be fundamental to the initiation of replication.     

Coherence,conservation and patch‐occupancy analysis

Spatial coherence (synchrony) among subpopulations poses a danger to the metacommunity, as it increases the risk of regional extinction. When this effect is significant, the use of inference techniques based on the stochastic patch occupancy model (SPOM) may be inadequate, since SPOMs assume that each habitat patch is either occupied or empty, thereby neglecting the intra‐patch dynamics. Here we suggest a general classification of the dynamics that allows the identification, in a model‐independent manner, of the regimes where coherence effects are strong. We also present a new technique, based on patch occupancy (presence/absence) data, for identifying the role of spatial coherence in the stabilization of a metapopulation. If the chance of a local extinction grows with the connectivity, this implies that spatial synchronization is too strong and that regional‐scale extinction becomes possible. When this scenario occurs, a decrease in the movement of individuals (habitat fragmentation, reduced dispersal rates) has a positive effect on the sustainability of the spatially distributed population. The results of individual based simulations of a spatially structured population are analyzed with SPOM and the regime where the two‐state approximation fails is identified.