Species-specific Affinity Research Articles

Broad-scale gradients of resource utilization by phyllostomid bats in Atlantic Forest: patterns of dietary overlap, turnover and the efficacy of ecomorphological approaches.

Identifying mechanisms that promote coexistence at the local level is enigmatic for many organisms. Numerous studies have indirectly demonstrated that biotic interactions may not cause deterministic patterns reflective of the coexistence of interacting bat species. Nonetheless, demonstration of the partitioning of resources by phyllostomid bats by directly examining diet matrices may illuminate a mechanism of coexistence. I examined the dietary overlap of phyllostomid bats across 23 sites in the Atlantic Forest of South America. I also examined components of beta diversity (turnover and nestedness) of resources among species as well as the degree to which morphology can act as a surrogate for dietary similarity in each community. Bats exhibited high overlap. Nonetheless, dietary beta diversity was more related to turnover than nestedness of items suggesting substantive species-specific affinities. Niche breath and dietary overlap were positively related tothe number of species and the number of resources consumed in communities. Accordingly, changes in richness across Atlantic Forest may be facilitated by increases in resources available at the community level. There were positive, yet weak relationships between morphological and dietary distance. The relationship between morphology and diet was invariant relative to geography, species richness, number of dietary resources, average diet breadth and average dietary overlap indicating that in the Atlantic Forest morphology is a consistent surrogate of dietary relationships of species. Atlantic Forest is one of the most anthropogenically modified tropical forests in the world. This in combination with distinct climatic seasonality likely causes higher dietary overlap, weaker ecomorphological relationships and persistence of only the most general bat species.

Distribution and Origin of Major, Trace and Rare Earth Elements in Wild Edible Mushrooms: Urban vs. Forest Areas.

This paper investigates the composition of major, trace, and rare earth elements in 15 different species of wild edible mushrooms and the possible effect of urban pollution on elemental uptake. The collected mushrooms include different species from the green areas of the city, exposed to urban pollution, and from the forests, with limited anthropogenic influence. Through a comprehensive approach that included the analysis of 46 elements, an attempt was made to expand knowledge about element uptake by mushroom fruiting bodies. The results showed a wide variability in the composition of mushrooms, suggesting a number of factors influencing their element uptake capacity. The data obtained do not indicate significant exposure to anthropogenic influences, regardless of sampling location. While major elements’ levels appear to be influenced more by species-specific affinities, this is not true for trace elements, whose levels presumably reflect the geochemical characteristics of the sampling site. However, the risk assessment showed that consumption of excessive amounts of the mushrooms studied, both from urban areas and from forests, may have adverse health effects.

An interspecies barrier to tetraploid complementation and chimera formation

To study development of the conceptus in xenogeneic environments, we assessed interspecies chimera formation as well as tetraploid complementation between mouse and rat. Overall contribution of donor PSC-derived cells was lower in interspecies chimeras than in intraspecies chimeras, and high donor chimerism was associated with anomalies or embryonic death. Organ to organ variation in donor chimerism was greater in interspecies chimeras than in intraspecies chimeras, suggesting species-specific affinity differences among interacting molecules necessary for organogenesis. In interspecies tetraploid complementation, embryo development was near normal until the stage of placental formation, after which no embryos survived.

Bio-concentration potential and associations of heavy metals in Amanita muscaria (L.) Lam. from northern regions of Poland

Fruiting bodies of Amanita muscaria and topsoil beneath from six background areas in northern regions of Poland were investigated for the concentration levels of Ag, Al, Ba, Ca, Cd, Co, Cu, Fe, Hg, K, Mg, Mn, Na, Rb, Sr, and Zn. In addition, the bioconcentration factors (BCF values) were studied for each of these metallic elements. Similar to studies from other basidiomycetes, A. muscaria showed species-specific affinities to some elements, resulting in their bioconcentration in mycelium and fruiting bodies. This mushroom growing in soils with different levels of the geogenic metallic elements (Ag, Al, Ba, Ca, Co, Cu, Fe, Hg, K, Mg, Mn, Na, Rb, Sr, and Zn) showed signs of homeostatic accumulation in fruiting bodies of several of these elements, while Cd appeared to be accumulated at a rate dependent of the concentration level in the soil substrate. This species is an efficient bio-concentrator of K, Mg, Cd, Cu, Hg, Rb, and Zn and hence also contributes to the natural cycling of these metallic elements in forest ecosystems.

Ciproxifan, a histamine H3 receptor antagonist, reversibly inhibits monoamine oxidase A and B

Ciproxifan is a well-investigated histamine H3 receptor (H3R) inverse agonist/antagonist, showing an exclusively high species-specific affinity at rodent compared to human H3R. It is well studied as reference compound for H3R in rodent models for neurological diseases connected with neurotransmitter dysregulation, e.g. attention deficit hyperactivity disorder or Alzheimer’s disease. In a screening for potential monoamine oxidase A and B inhibition ciproxifan showed efficacy on both enzyme isoforms. Further characterization of ciproxifan revealed IC50 values in a micromolar concentration range for human and rat monoamine oxidases with slight preference for monoamine oxidase B in both species. The inhibition by ciproxifan was reversible for both human isoforms. Regarding inhibitory potency of ciproxifan on rat brain MAO, these findings should be considered, when using high doses in rat models for neurological diseases. As the H3R and monoamine oxidases are all capable of affecting neurotransmitter modulation in brain, we consider dual targeting ligands as interesting approach for treatment of neurological disorders. Since ciproxifan shows only moderate activity at human targets, further investigations in animals are not of primary interest. On the other hand, it may serve as starting point for the development of dual targeting ligands.

Enhanced DNA binding affinity of RecA protein from Deinococcus radiodurans.

Deinococcus radiodurans (Dr) has a significantly more robust DNA repair response than Escherichia coli (Ec), which helps it survive extremely high doses of ionizing radiation and prolonged periods of desiccation. DrRecA protein plays an essential part in this DNA repair capability. In this study we directly compare the binding of DrRecA and EcRecA to the same set of short, defined single (ss) and double stranded (ds) DNA oligomers. In the absence of cofactors (ATPγS or ADP), DrRecA binds to dsDNA oligomers more than 20 fold tighter than EcRecA, and binds ssDNA up to 9 fold tighter. Binding to dsDNA oligomers in the absence of cofactor presumably predominantly monitors DNA end binding, and thus suggests a significantly higher affinity of DrRecA for ds breaks. Upon addition of ATPγS, this species-specific affinity difference is nearly abolished, as ATPγS significantly decreases the affinity of DrRecA for DNA. Other findings include that: (1) both proteins exhibit a dependence of binding affinity on the length of the ssDNA oligomer, but not the dsDNA oligomer; (2) the salt dependence of binding is modest for both species of RecA, and (3) in the absence of DNA, DrRecA produces significantly shorter and/or fewer free-filaments in solution than does EcRecA. The results suggest intrinsic biothermodynamic properties of DrRecA contribute directly to the more robust DNA repair capabilities of D. radiodurans.

RELAXIN enhances differentiation and matrix mineralization through Relaxin/insulin-like family peptide receptor 2 (Rxfp2) in MC3T3-E1 cells in vitro

RELAXIN (RLN) is a polypeptide hormone of the insulin-like hormone family; it facilitates birth by softening and widening the pubic symphysis and cervix in many mammals, including humans. The role of RLN in bone metabolism was recently suggested by its ability to induce osteoclastogenesis and activate osteoclast function. RLN binds to RELAXIN/INSULIN-LIKE FAMILY PEPTIDE 1 (RXFP1) and 2 (RXFP2), with varying species-specific affinities. Young men with mutated RXFP2 are at high risk for osteoporosis, as RXFP2 influences osteoblast metabolism by binding to INSULIN-LIKE PEPTIDE 3 (INSL3). However, there have been no reports on RLN function in osteoblast differentiation and mineralization or on the functionally dominant receptors for RLN in osteoblasts. We previously described Rxfp1 and 2 expression patterns in developing mouse oral components, including the maxillary and mandibular bones, Meckel's cartilage, tongue, and tooth primordia. We hypothesized that Rln/Rxfp signaling is a key mediator of skeletal development and metabolism. Here, we present the gene expression patterns of Rxfp1 and 2 in developing mouse calvarial frontal bones as determined by in situ hybridization. In addition, RLN enhanced osteoblastic differentiation and caused abnormal mineralization and extracellular matrix metabolism through Rxfp2, which was predominant over Rxfp1 in MC3T3-E1 mouse calvarial osteoblasts. Our data suggest a novel role for Rln in craniofacial skeletal development and metabolism through Rxfp2.

Response of Four <i>Russula</i> Species under Copper Sulphate and Lead Acetate Treatments

Mushrooms have a species-specific affinity for heavy metals in soil. Therefore, mushrooms may act as an effective bioaccumulator of metals, thus can be used in mycoremediation technologies to remove and recover heavy metals from soil. The response of four Russula species to copper sulfate and lead acetate treatments concerning the absorption, accumulation and translocation of Fe, Cu, Zn, Mn and Pb was studied. Differences in metal concentrations were recorded between caps and stipes of the fruiting body and varied widely between the tested species. This confirms the species-dependent features of heavy metal absorption in mushrooms. Another factor that showed an influence on the bioavailability of metals in mushrooms was the metal content of soil. Similarities between the absorption and accumulation of copper and zinc were observed for R. vesca and R. atropurpurea. The treatments influenced the bioabsorption of heavy metals by the mushrooms and the metal mobility in the fruiting body. After lead acetate treatment, R. vesca, R. atropurpurea and R. integra had an increased bioaccumulation capacity compared to the control. Hyperaccumulating species, such as R. nigricans for lead soil pollution, would lead to the best results for mycoremediation as they are capable of accumulating higher concentration of heavy metals in comparison to other mushroom species.

Comparison of epifaunal assemblages betweenCymodocea nodosaandCaulerpa proliferameadows in Gran Canaria (eastern Atlantic)

Epifaunal invertebrates are sensitive to changes in the identity of the dominant host plant, so assessing differences in the structure of epifaunal assemblages is particularly pertinent in areas where seagrasses have been replaced by alternative vegetation (e.g. green seaweeds). In this study, we aimed to compare the diversity, abundance and structure of epifaunal assemblages, particularly amphipods, between meadows dominated by the seagrassCymodocea nodosaand the green rhizophytic algaeCaulerpa proliferaon shallow soft bottoms of Gran Canaria Island, determining whether patterns were temporally consistent between two times. The epifaunal assemblage structure (abundance and composition) consistently differed between both plants, those assemblages associated withC. prolifera-dominated beds being more diverse and abundant relative toC. nodosameadows. Amphipods constituted ~70% of total crustaceans for the overall study, including 37 species belonging to 16 families. The amphipod abundance was ~3 times larger inC. prolifera-dominated beds than inC. nodosameadows. We detected species-specific affinities; for example,Microdeutopus stationis, Dexamine spinosa, Aora spinicornis, Ischyrocerus inexpectatusandApherusa bispinosawere more abundant inC. prolifera-dominated beds; while the caprellidMantacaprella macaronensisdominated inC. nodosameadows. However, some species, such asPseudoprotella phasmaandAmpithoe ramondi,were found in both habitats with varying abundances between times.

Negative Plant–Soil Feedback and Positive Species Interaction in a Herbaceous Plant Community

Increasing evidence shows that facilitative interaction and negative plant–soil feedback are driving factors of plant population dynamics and community processes. We studied the intensity and the relative impact of negative feedback on clonal growth and seed germination of Scirpus holoschoenus, a ‘ring’ forming sedge dominant in grazed grassland, and the consequences for species coexistence. The structure of aboveground tussocks was described. A Lithium tracer assessed belowground distribution of functional roots. Seed rain and seedling emergence were compared for different positions in relation to Scirpus tussocks. Soil bioassays were used to compare growth on soil taken from inside and outside Scirpus tussocks of four coexisting species (Mentha acquatica, Pulicaria dysenterica, Scirpus holoschoenus and Dittrichia viscosa). We also compared plant performance of dominant plant species inside and outside Scirpus tussocks in the field. The ‘ring’ shaped tussocks of S. holoschoenus were generated by centrifugal rhizome development. Roots were functional and abundant under the tillers and extending outside the tussocks. The large roots mats that were present in the inner tussock zone were almost all dead. Seedling emergence and growth both showed a strong negative feedback of Scirpus in the inner tussock zone. Scirpus clonal development strongly reduced grass biomass. In the degenerated tussock zone, Pulicaria and Mentha mortality was lower, and biomass of individual plants and seed production were higher. This positive indirect interaction could be related to species-specific affinity to soil conditions generated by Scirpus, and interspecific competitive release in the degenerated tussock zone. We conclude that Scirpus negative feedback affects its seedling emergence and growth contributing to the development of the degenerated inner tussock zone. Moreover, this enhances species coexistence through facilitative interaction because the colonization of the inner tussock zone is highly species-specific.

Inhibition of in vivo fertilization by active immunization of male hamsters against a 26-kDa sperm glycoprotein.

We have identified a 26-kDa (P26h) epididymal hamster sperm glycoprotein with a species-specific affinity for zona pellucida glycoprotein. Two immunological procedures have been used to document the biological function of this sperm component; active immunization of males against P26h and inhibition of sperm-zona pellucida binding in vitro by anti-P26h antibodies. The immunized male hamsters produced circulating antibodies specific to P26h. Indirect immunofluorescence studies showed that these antibodies bind to the surface of the sperm covering the acrosome. These males were mated with superovulated females, and although spermatozoa were recovered from the genital tract, none of the 194 oocytes recovered were fertilized. In contrast, control males immunized with hamster albumin fertilized 97.4% of the oocytes. Unlike control spermatozoa, those recovered from the cauda epididymidis of males immunized with P26h were characterized by the presence of antibodies at the surface of the acrosome. To establish whether the inhibition of in vivo fertilization by active immunization was occurring at the level of sperm-zona pellucida interaction, a polyclonal antiserum against P26h was raised, and the IgG fraction was added to an in vitro sperm-zona pellucida assay. Compared to the preimmune serum, the IgG inhibited the binding of spermatozoa in a dose-dependent manner. The Fab fragments generated from these IgGs were almost as efficient in inhibiting the binding. These results are discussed with regard to a possible function of P26h in hamster gamete interaction.

Fluctuation–dissipation relations for chemical systems far from equilibrium

A new fluctuation–dissipation relation is suggested for constant step, one intermediate chemical processes far from equilibrium. It establishes a relationship between the net reaction rate t̃(x), the probability diffusion coefficient D(x) in the composition space, and the species-specific affinity A(x): t̃(x)=2D(x)tanh[−A(x)/2kT], where x is the concentration of the active intermediate, k is Boltzmann’s constant, and T is the absolute temperature. The theory is valid for nonlinear fluctuations of arbitrary size. For macroscopic systems the fluctuation–dissipation relation may be viewed as a force-flux relationship. We distinguish four fluctuation–dissipation regimes which correspond to the decrease of the absolute value of the species-specific affinity. The passage from high ‖A(x)‖ to small ‖A(x)‖ corresponds to a crossover from a linear dependence of the species-specific dissipation rate φ̇(x) on ‖A(x‖)‖, φ̇(x)∼−‖A(x)‖, to a square one: φ̇(x)∼−A2(x). A main feature of the fluctuation–dissipation relation is its symmetry with respect to the contributions of the forward and backward chemical processes to fluctuation and relaxation. Two new physical interpretations of the probability diffusion coefficient are given: one corresponds to a measure of the strength of fluctuations at a steady state, and the other to a measure of the instability of a given fluctuation state. The dispersion of the number q of reaction events in a given time interval is given by a generalized Einstein relation: 〈Δq2〉=2VD(x)t, where V is the volume of the system. The diffusion coefficient D(x) is proportional to the reciprocal value of the mean age 〈τ(x)〉 of a fluctuation state characterized by the concentration x: D(x)=1/[2V〈τ(x)〉]. These interpretations are not related to the use of a Fokker–Planck approximation of the chemical Master Equation.

Stationary solutions of the master equation for single and multi-intermediate autocatalytic chemical systems

In this work, we test a hypothesized form for the stationary solution Ps(X,Y) of the stochastic master equation for a reacting chemical system with two reactive intermediates X and Y, and multiple steady states. Thermodynamic analyses and the exact results for nonautocatalytic or equilibrating systems suggest an approximation of the form Pas(X,Y)=𝒩 exp(−φ/kT), where the function φ is a line integral of a differential ‘‘excess’’ work Fφ, which depends on species-specific affinities. The differential Fφ is inexact. In a preceding paper, we have given an analytic argument for the use of the deterministic kinetic trajectory, connecting (X,Y) to the steady state (Xs,Ys) as the path of integration for Fφ. Here, we show that use of the deterministic trajectories leads to a potential φdet which is continuous across the separatrix between the domains of attraction of the two stable steady states in the model studied. We compare the approximate form of Ps(X,Y) thus generated with numerical solutions of the time-dependent master equation in the limit of attainment of a stationary distribution. Because the time required for convergence to the stationary distribution scales as eN with the particle number N in cases with two stable steady states, the numerical work is limited to systems with 𝒪(10–100) X and Y particles. System size affects the accuracy of the approximation. To isolate system-size effects, we compare numerical solutions and the corresponding approximations to Ps(X) for two single-intermediate master equations, since the approximation becomes exact in the limit of large particle number for such equations. Based on these comparisons, for the systems with two intermediates, the agreement between the approximation and the numerical solutions is reasonable. The agreement improves as the number of particles increases in those test cases where it has thus far been possible to vary the system size over an order of magnitude. The results obtained by integrating along deterministic trajectories are better than those from straight-line or line-segment paths. The numerical work on small, single-variable systems with two stable steady states leads to two new observations: (i) the relative heights of the steady state peaks in the exact stationary distribution may invert as the system size increases and (ii) an approximation used commonly for particle counting may give results inconsistent with the exact stationary distribution when the particle number is small, while an alternative approximation improves the agreement.

Thermodynamic and stochastic theory for nonequilibrium systems with multiple reactive intermediates: The concept and role of excess work

We continue our development of a global thermodynamic and stochastic theory of open chemical systems far from equilibrium with an analysis of a broad class of isothermal, multicomponent reaction mechanisms with multiple steady states, studied under the assumption of local equilibrium. We generalize species-specific affinities of reaction intermediates, obtained in prior work for nonautocatalytic reaction mechanisms, to autocatalytic kinetics and define with these affinities an excess free energy differential Fφ. The quantity Fφ is the difference between the work required to reverse a spontaneous concentration change and the work available when the same concentration change is imposed on a system in a reference steady state. The integral of Fφ is in general not a state function; in contrast, the function φdet obtained by integrating Fφ along deterministic kinetic trajectories is a state function, as well as an identifiable term in the time-integrated dissipation. Unlike the total integrated dissipation, φdet remains finite during the infinite duration of the system’s relaxation to a steady state and hence φdet can be used to characterize that process. The variational relation δφ≥0 is shown to be a necessary and sufficient thermodynamic criterion for a stable steady state in terms of the excess work of displacement of the intermediates and φdet is a Liapunov function in the domain of attraction of such steady states. Based on these results and earlier work with nonautocatalytic and equilibrating systems, we hypothesize that the stationary distribution of the master equation may be obtained in the form Ps=𝒩 exp(−φdet/kT) and provide an analytical argument for this form for macroscopic systems. This generalizes the Einstein fluctuation formula to multivariable systems with multiple steady states, far from equilibrium. In the following article, the utility of the approximation to Ps for systems with single or multiple intermediates, and single or multiple steady states is shown by comparison with numerical solutions of the master equation.

Thermodynamics far from equilibrium: Reactions with multiple stationary states

We present a thermodynamic analysis of global validity for effectively one-variable, irreversible chemical systems with multiple steady states. A hypothetical reaction chamber is held at constant temperature and volume and is connected by selectively permeable membranes to reservoirs of reactant(s) and product(s), each at constant selected pressures. An appropriate free energy function, which yields criteria of evolution to equilibrium for the composite system of reaction chamber and reservoirs, is a hybrid of Gibbs and Helmholtz free energies. The one variable in the reaction chamber is the pressure of a chemical intermediate which varies in time according to a given reaction mechanism. With the hybrid free energy, the kinetics for a given mechanism, and a concept of instantaneous indistinguishability of systems with different mechanisms, we establish a thermodynamic driving force, or species-specific affinity, for the intermediate. The species-specific affinity vanishes at steady states, and upon its differentiation we obtain necessary and sufficient conditions for the stability of steady states and for critical points. The integral of the species-specific affinity globally provides valid Liapunov functions for the evolution of the intermediate. These results are independent of the number of steady states of the system, and they hold both near to and far from equilibrium. For a large class of mechanisms with a single intermediate, the integral of the species-specific affinity appears in the irreversible part of the time-dependent transition probability of the single-variable Master equation and in its stationary solution. Hence for these mechanisms we obtain a direct interpretation of the stochastic results in terms of thermodynamic quantities. The time rate of change in the pressure of the intermediate multiplied by its species-specific affinity yields a species-specific term in the dissipation. The total system dissipation (or entropy production) is not in general a minimum at a nonequilibrium steady state, but the species-specific term is minimized at every such state. The expression of the stationary solution of the master equation in terms of the species-specific affinity provides a generalization of the Einstein relation for the probability of equilibrium fluctuations to far-from-equilibrium conditions. The functional form of the species-specific term in the dissipation parallels a form that appears in Boltzmann’s H theorem for the momentum relaxation of a dilute gas.

Isolation, characterization, and mechanism of action of rat beta 1H.

beta 1Hrat was purified to homogeneity from fresh rat plasma by precipitation with 28.6% ammonium sulfate followed by sequential chromatography on DEAE-Sephacel, Biorex-70, and gel filtration on Sephacryl-S300. The final material was homogeneous on SDS-PAGE analysis and had an apparent m.w. of 150,000. Reduction with dithiothreitol did not affect its m.w., suggesting that the molecule is composed of one polypeptide chain. The recovery of beta 1H was approximately 10%. A monospecific antibody against beta 1Hrat was obtained from immunized rabbits, which recognized beta 1Hrat as a protein with beta-electrophoretic mobility upon immunoelectrophoresis of fresh rat plasma. The concentration of beta 1H in plasma of normal 4-mo-old Wistar rats was 243.5 +/- 36.3 micrograms/ml (mean +/- S.D.). beta 1Hrat in this study was detected by its capacity to inhibit formation of the P-stabilized cell-bound amplification C3/C5 convertase composed of cell-bound C3bhu and Bbhu. Purified beta 1Hrat produced a dose-related, first-order loss of convertase function and release of 126I-Bbhu from the P-stabilized C3bhuBbhu convertase, indicating a mechanism of action by decay-dissociation of Bbhu from the complex C3bhuBbhuP. beta 1Hrat was at least four times less effective than beta 1Hhu in release of 125I-Bbhu from the homologous convertase composed of C3bhu and Bbhu. On the other hand beta 1H was twice as effective in releasing 125I-Bbrat from the convertase composed of C3bratBbratP when compared to beta 1Hhu. These differences are presumably dependent upon the species-specific affinity of beta 1H from humans or rats for C3bhu or C3brat, respectively.

Egg surface glycoprotein receptor for sea urchin sperm bindin.

Bindin is an insoluble protein coating the sperm acrosome process and mediating the adhesion of sperm to sea urchin eggs. Milligrams of bindin have been isolated. Here we report the identification, isolation, and partial characterization of a high molecular weight, trypsin-sensitive glycoprotein fraction from the sea urchin egg surface having species-specific affinity for bindin. This glycoprotein may be the egg surface receptor for bindin. The bindin receptor was released from 125-I-labeled eggs by parthenogenetic activation of eggs with ionophore A23187 in the presence of soybean trypsin inhibitor. The receptor has an isoelectric point of 4.02 and a molecular weight in sea water greater than or equal to 5 X 10(6), suggesting that it is an aggregate. It contains 34% neutral sugars, which are galactose and mannose.