Multiprotein DNA looping

DNA looping plays a fundamental role in a wide variety of biological processes, providing the backbone for long range interactions on DNA. Here we develop the first model for DNA looping by an arbitrarily large number of proteins and solve it analytically in the case of identical binding. We uncover a switch-like transition between looped and unlooped phases and identify the key parameters that control this transition. Our results establish the basis for the quantitative understanding of fundamental cellular processes like DNA recombination, gene silencing, and telomere maintenance.Comment: 11 pages, 4 figure

A mechanism for biologically-induced iodine emissions from sea-ice

International audienceOnly recently, ground- and satellite-based measurements have reported high concentrations of IO in coastal Antarctica. The sources of such a large iodine burden in the Antarctic atmosphere remain unknown. We propose a novel mechanism for iodine release from sea-ice surfaces. The release is triggered by the biological production of iodide (I-) and hypoiodous acid (HOI) from marine algae, contained within and underneath sea-ice, and their diffusion through sea-ice brine channels to accumulate in the quasi-liquid layer on the surface of sea-ice. A multiphase chemical model of polar atmospheric chemistry has been developed to investigate the biology-ice-atmosphere coupling in the polar environment. Model simulations were conducted to interpret recent observations of elevated IO in the coastal Antarctic springtime. The results show that the levels of inorganic iodine (i.e. I2, IBr, ICl) released from sea-ice through this mechanism account for the observed IO concentrations in the Antarctic springtime environment. The model results also indicate that iodine may trigger the catalytic release of bromine from sea-ice through phase equilibration of IBr. Considering the extent of sea-ice around the Antarctic continent, we suggest that the resulting high levels of iodine may have widespread impact on catalytic ozone destruction and aerosol formation in the Antarctic lower troposphere

Multiphase modeling of nitrate photochemistry in the quasi-liquid layer (QLL): implications for NOx release from the Arctic and coastal Antarctic snowpack

We utilize a multiphase model, CON-AIR (<B>Con</B>densed Phase to <B>Air</B> Transfer Model), to show that the photochemistry of nitrate (NO₃^&minus;) in and on ice and snow surfaces, specifically the quasi-liquid layer (QLL), can account for NO_x volume fluxes, concentrations, and [NO]/[NO₂] (γ=[NO]/[NO₂]) measured just above the Arctic and coastal Antarctic snowpack. Maximum gas phase NO_x volume fluxes, concentrations and γ simulated for spring and summer range from 5.0&times;10⁴ to 6.4&times;10⁵ molecules cm^&minus;3 s^&minus;1, 5.7&times;10⁸ to 4.8&times;10⁹ molecules cm^&minus;3, and ~0.8 to 2.2, respectively, which are comparable to gas phase NO_x volume fluxes, concentrations and γ measured in the field. The model incorporates the appropriate actinic solar spectrum, thereby properly weighting the different rates of photolysis of NO₃^&minus; and NO₂^&minus;. This is important since the immediate precursor for NO, for example, NO₂^&minus;, absorbs at wavelengths longer than nitrate itself. Finally, one-dimensional model simulations indicate that both gas phase boundary layer NO and NO₂ exhibit a negative concentration gradient as a function of height although [NO]/[NO₂] are approximately constant. This gradient is primarily attributed to gas phase reactions of NO_x with halogens oxides (i.e. as BrO and IO), HO_x, and hydrocarbons, such as CH₃O₂

Sipuncula de la región magallánica comparada con zonas adyacentes de la Antártida

The Magellan sipunculan fauna includes 4 families, 7 genera and 16 species. A comparison between this fauna and that from adjacent regions of Antarctica has been made. A total of 8 species and 3 genera are shared by the compared areas. Univariate analyses show no significant statistical differences among the investigated faunas, whereas a multivariate analysis corroborates that the effects of the Antarctic Convergence are stronger at the level of genera than species. Only 3 genera were able to cross over this zoogeographical boundary. However, these 3 genera succeeded in the new biotopes of Antarctica, since a total of 16 species have been recorded, compared with the 8 species only found in the Magellan region.La fauna magallánica de sipuncúlidos presenta 4 familias, 7 géneros y 16 especies. Se lleva a cabo una comparación entre esta fauna y la procedente de zonas adyacentes de la Antártida. Un total de 8 especies y 3 géneros están presentes en ambas zonas. Los resultados del análisis univariante indican la ausencia de diferencias estadísticas significativas entre las faunas investigadas, mientras que el análisis multivariante revela que los efectos de la Convergencia Antártica son más importantes a nivel de género que de especie. Sin embargo, estos géneros tuvieron cierto éxito en la colonización progresiva de los nuevos biotopos antárticos, dado que se han encontrado un total de 16 especies frente a las 8 exclusivas del área magallánica

Conservation Laws in Smooth Particle Hydrodynamics: the DEVA Code

We describe DEVA, a multistep AP3M-like-SPH code particularly designed to study galaxy formation and evolution in connection with the global cosmological model. This code uses a formulation of SPH equations which ensures both energy and entropy conservation by including the so-called \bn h terms. Particular attention has also been paid to angular momentum conservation and to the accuracy of our code. We find that, in order to avoid unphysical solutions, our code requires that cooling processes must be implemented in a non-multistep way. We detail various cosmological simulations which have been performed to test our code and also to study the influence of the \bn h terms. Our results indicate that such correction terms have a non-negligible effect on some cosmological simulations, especially on high density regions associated either to shock fronts or central cores of collapsed objects. Moreover, they suggest that codes paying a particular attention to the implementation of conservation laws of physics at the scales of interest, can attain good accuracy levels in conservation laws with limited computational resources.Comment: 36 pages, 10 figures. Accepted for publication in The Astrophysical Journa

Drought affects the performance of native oak seedlings more strongly than competition with invasive crested wattle seedlings

Two of the most important processes threatening vulnerable plant species are competitive displacement by invasive alien species and water stress due to global warming. Quercus lusitanica, an oak shrub species with remarkable conservation interest, could be threatened by the expansion of the invasive alien tree Paraserianthes lophantha. However, it is unclear how competition would interact with predicted reductions in water availability due to global climate change. We set up a full factorial experiment to examine the direct interspecific competition between P. lophantha and Q. lusitanica seedlings under control and water-limited conditions. • We measured seed biomass, germination, seedling emergence, leaf relative growth rate, biomass, root/shoot ratio, predawn shoot water potential and mortality to assess the individual and combined effects of water stress and interspecific competition on both species. • Our results indicate that, at seedling stage, both species experience competitive effects and responses. However, water stress exhibited a stronger overall effect than competition. Although both species responded strongly to water stress, the invasive P. lophantha exhibited significantly less drought stress than the native Q. lusitanica based on predawn shoot water potential measurements. • The findings of this study suggest that the competition with invasive P. lophantha in the short term must not be dismissed, but that the long-term conservation of the native shrub Q. lusitanica could be compromised by increased drought as a result of global change. Our work sheds light on the combined effects of biological invasions and climate change that can negatively affect vulnerable plant species