二维不定常嗅觉模型及其精确解

在考虑了鼻腔结构的基础上,把嗅觉反应的主要机理分成四个连续的主要过程,建立了二维不定常的嗅觉模型,利用分离变量法得到了该模型的精确解,并给出了两个无量纲参数影响气味分子在粘膜层内分布的计算结果,精确解则揭示了各生理参数之间的内在联系。理论和数值结果表明：吸气速度和嗅粘膜表面的粘液是影响嗅觉反应的两个重要因素。这些结果对进一步研究嗅觉反应机理具有一定的参考价值     

Hydration energy landscape of the active site cavity in cytochrome P450cam

Hydration of protein cavities influences protein stability, dynamics, and function. Protein active sites usually contain water molecules that, upon ligand binding, are either displaced into bulk solvent or retained to mediate protein–ligand interactions. The contribution of water molecules to ligand binding must be accounted for to compute accurate values of binding affinities. This requires estimation of the extent of hydration of the binding site. However, it is often difficult to identify the water molecules involved in the binding process when ligands bind on the surface of a protein. Cytochrome P450cam is, therefore, an ideal model system because its substrate binds in a buried active site, displacing partially disordered solvent, and the protein is well characterized experimentally. We calculated the free energy differences for having five to eight water molecules in the active site cavity of the unliganded enzyme from molecular dynamics simulations by thermodynamic integration employing a three-stage perturbation scheme. The computed free energy differences between the hydration states are small (within 12 kJ mol⁻¹) but distinct. Consistent with the crystallographic determination and studies employing hydrostatic pressure, we calculated that, although ten water molecules could in principle occupy the volume of the active site, occupation by five to six water molecules is thermodynamically most favorable. Proteins 32:381–396, 1998. © 1998 Wiley-Liss, Inc.     

Characteristics of snags and forest structure in southern mistbelt forests of the Amatole region,South Africa

Standing dead trees (or snags) are an important component of forest ecosystems, especially for tree cavity‐nesting vertebrate species, but their prevalence in South African forests remains under studied. Consequently, we investigated forest structure, and the presence and abundance of snags in six southern mistbelt forests in the Eastern Cape, South Africa. These forests have had varying levels of timber extraction over the past 150 years or more. We found snags were relatively rare in all six forests (<4.3% of trees sampled). Mean diameter at breast height (dbh) of snags ranged from 52 to 82 cm across the forests, with smaller snags in Kologha Forest and larger snags in Tyume Forest. A bimodal distribution of snag successional stages was found, with frequencies peaking at early and late stages, and few in the intermediate stages. Tree species diversity in the forests was relatively low (twelve–nineteen species across forests; only 28 species in total). There was no significant difference in dbh of trees between forests, with most occurring in the 20–29‐cm dbh size class. Future studies are required to identify trees that most likely support suitable cavities for tree cavity‐nesting bird species, and to determine cavity‐nester assemblage requirements in southern African forests.     

Cluster Roots: A Curiosity in Context

Cluster roots are an adaptation for nutrient acquisition from nutrient-poor soils. They develop on root systems of a range of species belonging to a number of different families (e.g., Proteaceae, Casuarinaceae, Fabaceae and Myricaceae) and are also found on root systems of some crop species (e.g., albus, Macadamia integrifoliaandCucurbita pepo). Their morphology is variable but typically, large numbers of determinate branch roots develop over very short distances of main root axes. Root clusters are ephemeral, and continually replaced by extension of the main root axes. Carboxylates are released from cluster roots at very fast rates for only a few days during a brief developmental window termed an ‘exudative burst’. Most of the studies of cluster-root metabolism have been carried out using the crop plant L. albus, but results on native plants have provided important additional information on carbon metabolism and exudate composition. Cluster-root forming species are generally non-mycorrhizal, and rely upon their specialised roots for the acquisition of phosphorus and other scarcely available nutrients. Phosphorus is a key plant nutrient for altering cluster-root formation, but their formation is also influenced by N and Fe. The initiation and growth of cluster roots is enhanced when plants are grown at a very low phosphate supply (viz. ≤1 μM P), and cluster-root suppression occurs at relatively higher P supplies. An important feature of some Proteaceae is storage of phosphorus in stem tissues which is associated with the seasonality of cluster-root development and P uptake (winter) and shoot growth (summer), and also maintains low leaf [P]. Some species of Proteaceae develop symptoms of P toxicity at relatively low external P supply. Our findings with Hakea prostrata (Proteaceae) indicate that P-toxicity symptoms result after the capacity of tissues to store P is exceeded. P accumulation in H. prostrata is due to its strongly decreased capacity to down-regulate P uptake when the external P supply is supra-optimal. The present review investigates cluster-root functioning in (1) L.albus (white lupin), the model crop plant for cluster-root studies, and (2) native Proteaceae that have evolved in phosphate-impoverished environments.     

Facilitative Root Interactions in Intercrops

Facilitation takes place when plants ameliorate the environment of their neighbours, and increase their growth and survival. Facilitation occurs in natural ecosystems as well as in agroecosystems. We discuss examples of facilitative root interactions in intercropped agroecosystems; including nitrogen transfer between legumes and non-leguminous plants, exploitation of the soil via mycorrhizal fungi and soil-plant processes which alter the mobilisation of plant growth resources such as through exudation of amino acids, extra-cellular enzymes, acidification, competition-induced modification of root architecture, exudation of growth stimulating substances, and biofumigation. Facilitative root interactions are most likely to be of importance in nutrient poor soils and in low-input agroecosystems due to critical interspecific competition for plant growth factors. However, studies from more intensified cropping systems using chemical and mechanical inputs also show that facilitative interactions definitely can be of significance. It is concluded that a better understanding of the mechanisms behind facilitative interactions may allow us to benefit more from these phenomena in agriculture and environmental management.     

Growth Medium and Phosphorus Supply Affect Cluster Root Formation and Citrate Exudation by Lupinus albus Grown in a Sand/Solution Split-Root System

We examined cluster root formation and root exudation by white lupin (Lupinus albus L. cv. Kiev Mutant) in response to growth medium and phosphorus supply in a sand/solution split-root system. The split-root system consisted of a nutrient solution compartment and a siliceous sand compartment. Phosphorus was applied at 1 (low-P plants) or 50 (high-P plants) μM as KH₂PO₄ to the solution compartment and at 10, 50 or 250 mg P kg⁻¹ as hydroxyapatite (Ca-P) to the sand compartment. In contrast to the high-P plants, P concentration and P uptake in the low-P plants increased with increasing P supply to the sand compartment. The NaHCO₃-extractable P was lower in the rhizosphere of the low-P plants than the high-P ones. The proton extrusion rate by the solution-grown roots of the low-P plants was higher than that of the high-P plants at the early growth stage. For the low-P plants, the proportion of dry root biomass allocated to cluster roots was higher in the solution compartment than that in the sand compartment. The citrate exudation increased in the sand compartment and decreased in the solution compartment with time, showing a lack of synchronization in citrate exudation by two root halves grown in different media. The cluster root proportion and citrate exudation in both compartments decreased with increasing shoot P concentration. An additional experiment with no P added to either root compartment showed that the proportion of cluster roots was about 9% lower in the sand than solution compartments. The results suggest that cluster root formation and citrate exudation can be significantly affected by the root growth medium in addition to being regulated by shoot P status. More P can be exploited from sparingly available Ca-P by the low-P plants than the high-P ones due to greater citrate exudation under P deficiency.     

潜在洞巢资源差异对次级洞巢鸟及繁殖鸟类群落的影响

为了解次生林中潜在洞巢资源(包括各种啄木鸟的啄洞和人工巢箱)的多寡对次级洞巢鸟集团及繁殖鸟类群落结构的影响, 2007年11月至2008年7月, 我们在吉林省吉林市大岗林场选择洞巢密度不同的样地, 对其次级洞巢鸟及鸟类群落结构进行了比较研究。根据洞巢资源密度我们将9块样地分为3组, 即巢箱区(啄洞密度最低, 悬挂人工巢箱使其潜在洞巢资源总密度大幅提高)、低密度区(啄洞密度较低, 无巢箱)和高密度区(啄洞密度较高, 无巢箱), 调查了3组样地内鸟类的组成和密度、潜在洞巢资源的利用情况等。3组样地中均调查到4种初级洞巢鸟, 其种类组成略有不同; 4种次级洞巢鸟在3组样地广泛分布, 分别为白眉姬鹟(Ficedula zanthopygia)、大山雀(Parus major)、沼泽山雀(P. palustris)和普通鳾(Sitta europaea)。巢箱区和高密度区的次级洞巢鸟总密度显著高于低密度区。巢箱区同高密度区一样, 大山雀和白眉姬鹟的密度显著高于低密度区, 这是由于大山雀和白眉姬鹟是人工巢箱的主要利用鸟种, 而沼泽山雀和普通鳾的密度在三组样地间差异不显著。初级洞巢鸟总密度与啄洞密度、次级洞巢鸟总密度与潜在洞巢资源总密度都呈显著正相关关系。潜在洞巢资源丰富的样地中鸟类群落多样性指数显著高于潜在洞巢资源贫乏样地中的鸟类群落多样性指数, 人为增加洞巢资源可以改变鸟类群落组成并显著提高群落的多样性指数。三组样地中鸟类群落的均匀性、丰富度指数和种间相遇率没有显著差异, 群落相似性指数也相近。高密度区和低密度区鸟类群落集团结构相似。次级洞巢鸟密度的增加短时期内未对群落内其他主要鸟种的密度产生显著影响。研究结果显示, 初级洞巢鸟的密度决定了啄洞的丰富程度, 而洞巢资源的差异会对次级洞巢鸟集团的分布模式产生影响, 进而影响整个繁殖鸟类群落的结构。     

Halogenated Benzenes Bound within a Non-polar Cavity in T4 Lysozyme Provide Examples of I?S and I?Se Halogen-bonding

We showed earlier that the mutation of Leu99 to alanine in bacteriophage T4 lysozyme creates an internal cavity of volume ∼ 150 Å³ that binds benzene and a variety of other ligands. As such, this cavity provides an excellent target to study protein-ligand interaction. Here, we use low-temperature crystallography and related techniques to analyze the binding of halogen-incorporated benzenes typified by C₆F₅X, where X = H, F, Cl, Br or I, and C₆H₅X, where X = H or I was also studied. Because of the increased electron density of fluorine relative to hydrogen, the geometry of binding of the fluoro compounds can often be determined more precisely than their hydrogen-containing analogs. All of the ligands bind in essentially the same plane but the center of the phenyl ring can translate by up to 1.2 Å. In no case does the ligand rotate freely within the cavity. The walls of the cavity consist predominantly of hydrocarbon atoms, and in several cases it appears that van der Waals interactions define the geometry of binding. In comparing the smallest with the largest ligand, the cavity volume increases from 181 Å³ to 245 Å³. This shows that the protein is flexible and adapts to the size and shape of the ligand. There is a remarkably close contact of 3.0 Å between the iodine atom on C₆F₅I and the sulfur or selenium atom of Met or SeMet102. This interaction is 1.0 Å less than the sum of the van der Waals radii and is a clear example of a so-called halogen bond. Notwithstanding this close approach, the increase in binding energy for the halogen bond relative to a van der Waals contact is estimated to be only about 0.5-0.7 kcal/mol.     

The influence of nest site selection on the population dynamics of Africanized honey bees in an urban landscape

Urban landscapes provide habitat for many species, including domesticated and feral honey bees, Apis mellifera L. (Hymenoptera: Apidae). With recent losses of managed honey bee colonies, there is increasing interest in feral honey bee colonies and their potential contribution to pollination services in agricultural, natural, and urban settings. However, in some regions the feral honey bee population consists primarily of Africanized honey bees. Africanized honey bees (AHB) are hybrids between European honey bees and the African honey bee, Apis mellifera scutellataLepeletier, and have generated economic, ecological, and human health concerns because of their aggressive behavior. In this study, we used two long‐term datasets (7–10 years) detailing the spatial and temporal distribution of AHB colonies in Tucson, AZ, USA, where feral colonies occupy a variety of cavities including water meter boxes. A stage‐structured matrix model was used to elucidate the implications of nest site selection and the effects of colony terminations on the structure and dynamics of the AHB population. Our results suggest that Tucson's AHB population is driven by a relatively small number of ‘source’ colonies that escape termination (ca. 0.165 colonies per km² or 125 colonies in total), although immigrating swarms and absconding colonies from the surrounding area may have also contributed to the stability of the Tucson AHB population. Furthermore, the structure of the population has likely been impacted by the number and spatial distribution of water meter boxes across the city. The study provides an example of how urban wildlife populations are driven by interactions among landscape structure, human management, and behavioral traits conferred by an invasive genotype.     

延腹小蜂属榕小蜂对榕果果内空腔大小差异的行为和形态适应

大多数榕小蜂的雄蜂终生都在密闭的榕果中生活,榕果间果内空腔的大小存在很大的差异,这种差异可能限制对小蜂的活动。已有研究表明榕果的大小会影响果内榕小蜂雄蜂的打斗行为,那么这种差异是否会影响雄蜂的果内爬行行为? 雄蜂是否会产生适应性的形态特征？针对这些问题,在2008年6月到2009年10月期间,我们在野外采集榕果,并带回实验室中, 对榕果内生活的延腹小蜂属Philotrypesis 5种雄蜂的果内爬行行为和足的形态特征进行了研究。结果表明,根据Philotrypesis spp.雄蜂后足的跗节形态特征的不同,其后足可分成2种形态型--Ⅰ型：后足跗节基部两节的突出部分排列紧密, 后足中跗节不发达; Ⅱ型：后足跗节基部两节的突出部分排列疏松,二者之间有较宽的分隔,后足中跗节发达。GLM分析结果表明各种榕树上生活的Philotrypesis雄蜂前足腿节长宽比存在极显著差异（F_{8, 81}=94.86, P<0.001）。在大果中生活的Philotrypesis雄蜂都具有较细长的前足腿节,在小果中生活的Philotrypesis雄蜂除了M7#c-ben外,都具有较粗壮的前足腿节。当雄蜂在榕果内寻偶时,主要依靠粗壮的前足或灵活的后足在果内爬行。结果提示, 榕果空腔大小可能限制了Philotrypesis雄蜂果内爬行行为, 进而影响了雄蜂足形态的适应性进化。