Consensual predictions of potential distributional areas for invasive species: a case study of Argentine ants in the Iberian Peninsula

Invasive species are known to influence the structure and function of invaded ecological communities, and preventive measures appear to be the most efficient means of controlling these effects. However, management of biological invasions requires use of adequate tools to understand and predict invasion patterns in recently introduced areas. The present study: (1) estimates the potential geographic distribution and ecological requirements of the Argentine ant (Linepithema humile Mayr), one of the most conspicuous invasive species throughout the world, in the Iberian Peninsula using ecological niche modeling, and (2) provides new insights into the process of selection of consensual areas among predictions from several modeling methodologies. Ecological niche models were developed using 5 modeling techniques: generalized linear models (GLM), generalized additive models (GAM), generalized boosted models (GBM), Genetic Algorithm for Rule-Set Prediction (GARP), and Maximum Entropy (Maxent). Models for the eastern and western portions of the Iberian Peninsula were built using subsets of occurrence and environmental data to investigate the potential for ecological niche differences between the invading populations. Our results indicate geographic differences between predictions of different approaches, and the utility of ensemble predictions in identifying areas of uncertainty regarding the species’ invasive potential. More generally, our models predict coastal areas and major river corridors as highly suitable for Argentine ants, and indicate that western and eastern Iberian Peninsula populations occupy similar environmental conditions.

Inhibitory regulation of EGF receptor degradation by sorting nexin 5

Endosomal trafficking of EGF receptor (EGFR) upon stimulation is a highly regulated process during receptor-mediated signaling. Recently, the sorting nexin (SNX) family has emerged as an important regulator in the membrane trafficking of EGFR. Here, we report the identification of a novel interaction between two members of the family, SNX1 and SNX5, which is mediated by the newly defined BAR domain of both SNXs. We have also shown that the PX domain of SNX5 binds specifically to PtdIns other than to PtdIns(3)P. Furthermore, the BAR domain but not the PX domain of SNX5 is sufficient for its subcellular membrane association. Functionally, overexpression of SNX5 inhibits the degradation of EGFR. This process appears to be independent of its interaction with SNX1. However, overexpression of SNX1 is able to attenuate the effect of SNX5 on EGFR degradation, suggesting the two proteins may play antagonistic roles in regulating endosomal trafficking of the receptor.     

SEC23-SEC31 the interface plays critical role for export of procollagen from the endoplasmic reticulum

COPII proteins are essential for exporting most cargo molecules from the endoplasmic reticulum. The membrane-facing surface of the COPII proteins (especially SEC23-SEC24) interacts directly or indirectly with the cargo molecules destined for exit. As we characterized the SEC23A mutations at the SEC31 binding site identified from patients with cranio-lenticulo-sutural dysplasia, we discovered that the SEC23-SEC31 interface can also influence cargo selection. Remarkably, M702V SEC23A does not compromise COPII assembly, vesicle size, and packaging of cargo molecules into COPII vesicles that we have tested but induces accumulation of procollagen in the endoplasmic reticulum when expressed in normal fibroblasts. We observed that M702V SEC23A activates SAR1B GTPase more than wild-type SEC23A when SEC13-SEC31 is present, indicating that M702V SEC23A causes premature dissociation of COPII from the membrane. Our results indicate that a longer stay of COPII proteins on the membrane is required to cargo procollagen than other molecules and suggest that the SEC23-SEC31 interface plays a critical role in capturing various cargo molecules.     

Identification of amino acids important for substrate specificity in sucrose transporters using gene shuffling

Plant sucrose transporters (SUTs) are H(+)-coupled uptake transporters. Type I and II (SUTs) are phylogenetically related but have different substrate specificities. Type I SUTs transport sucrose, maltose, and a wide range of natural and synthetic α- and β-glucosides. Type II SUTs are more selective for sucrose and maltose. Here, we investigated the structural basis for this difference in substrate specificity. We used a novel gene shuffling method called synthetic template shuffling to introduce 62 differentially conserved amino acid residues from type I SUTs into OsSUT1, a type II SUT from rice. The OsSUT1 variants were tested for their ability to transport the fluorescent coumarin β-glucoside esculin when expressed in yeast. Fluorescent yeast cells were selected using fluorescence-activated cell sorting (FACS). Substitution of five amino acids present in type I SUTs in OsSUT1 was found to be sufficient to confer esculin uptake activity. The changes clustered in two areas of the OsSUT1 protein: in the first loop and the top of TMS2 (T80L and A86K) and in TMS5 (S220A, S221A, and T224Y). The substrate specificity of this OsSUT1 variant was almost identical to that of type I SUTs. Corresponding changes in the sugarcane type II transporter ShSUT1 also changed substrate specificity, indicating that these residues contribute to substrate specificity in type II SUTs in general.     

Structure of the novel C-terminal domain of vacuolar protein sorting 30/autophagy-related protein 6 and its specific role in autophagy

Vacuolar protein sorting 30 (Vps30)/autophagy-related protein 6 (Atg6) is a common component of two distinct phosphatidylinositol 3-kinase complexes. In complex I, Atg14 links Vps30 to Vps34 lipid kinase and exerts its specific role in autophagy, whereas in complex II, Vps38 links Vps30 to Vps34 and plays a crucial role in vacuolar protein sorting. However, the molecular role of Vps30 in each pathway remains unclear. Here, we report the crystal structure of the carboxyl-terminal domain of Vps30. The structure is a novel globular fold comprised of three β-sheet-α-helix repeats. Truncation analyses showed that the domain is dispensable for the construction of both complexes, but is specifically required for autophagy through the targeting of complex I to the pre-autophagosomal structure. Thus, the domain is named the β-α repeated, autophagy-specific (BARA) domain. On the other hand, the N-terminal region of Vps30 was shown to be specifically required for vacuolar protein sorting. These structural and functional investigations of Vps30 domains, which are also conserved in the mammalian ortholog, Beclin 1, will form the basis for studying the molecular functions of this protein family in various biological processes.     

Adaptor autoregulation promotes coordinated binding within clathrin coats

Membrane traffic is an essential process that allows protein and lipid exchange between the endocytic, lysosomal, and secretory compartments. Clathrin-mediated traffic between the trans-Golgi network and endosomes mediates responses to the environment through the sorting of biosynthetic and endocytic protein cargo. Traffic through this pathway is initiated by the controlled assembly of a clathrin-adaptor protein coat on the cytosolic surface of the originating organelle. In this process, clathrin is recruited by different adaptor proteins that act as a bridge between clathrin and the transmembrane cargo proteins to be transported. Interactions between adaptors and clathrin and between different types of adaptors lead to the formation of a densely packed protein network within the coat. A key unresolved issue is how the highly complex adaptor-clathrin interaction and adaptor-adaptor interaction landscape lead to the correct spatiotemporal assembly of the clathrin coat. Here we report the discovery of a new autoregulatory motif within the clathrin adaptor Gga2 that drives synergistic binding of Gga2 to clathrin and the adaptor Ent5. This autoregulation influences the temporal and/or spatial location of the Gga2-Ent5 interaction. We propose that this synergistic binding provides built-in regulation to ensure the correct assembly of clathrin coats.     

Exosomes: Extracellular organelles important in intercellular communication

In addition to intracellular organelles, eukaryotic cells also contain extracellular organelles that are released, or shed, into the microenvironment. These membranous extracellular organelles include exosomes, shedding microvesicles (SMVs) and apoptotic blebs (ABs), many of which exhibit pleiotropic biological functions. Because extracellular organelle terminology is often confounding, with many preparations reported in the literature being mixtures of extracellular vesicles, there is a growing need to clarify nomenclature and to improve purification strategies in order to discriminate the biochemical and functional activities of these moieties. Exosomes are formed by the inward budding of multivesicular bodies (MVBs) and are released from the cell into the microenvironment following the fusion of MVBs with the plasma membrane (PM). In this review we focus on various strategies for purifying exosomes and discuss their biophysical and biochemical properties. An update on proteomic analysis of exosomes from various cell types and body fluids is provided and host-cell specific proteomic signatures are also discussed. Because the ectodomain of ~ 42% of exosomal integral membrane proteins are also found in the secretome, these vesicles provide a potential source of serum-based membrane protein biomarkers that are reflective of the host cell. ExoCarta, an exosomal protein and RNA database (http://exocarta.ludwig.edu.au), is described.     

Bio-Inspired Binary Bees Algorithm for a Two-Level Distribution Optimisation Problem

<正> Two uncoupleable distributions, assigning missions to robots and allocating robots to home stations, accompany the use ofmobile service robots in hospitals.In the given problem, two workload-related objectives and five groups of constraints areproposed.A bio-mimicked Binary Bees Algorithm (BBA) is introduced to solve this multiobjective multiconstraint combinatorialoptimisation problem, in which constraint handling technique (Multiobjective Transformation, MOT), multiobjectiveevaluation method (nondominance selection), global search strategy (stochastic search in the variable space), local searchstrategy (Hamming neighbourhood exploitation), and post-processing means (feasibility selection) are the main issues.TheBBA is then demonstrated with a case study, presenting the execution process of the algorithm, and also explaining the change ofelite number in evolutionary process.Its optimisation result provides a group of feasible nondominated two-level distributionschemes.     

T-LAK Cell-originated Protein Kinase (TOPK) Phosphorylation of Prx1 at Ser-32 Prevents UVB-induced Apoptosis in RPMI7951 Melanoma Cells through the Regulation of Prx1 Peroxidase Activity

Protein kinases are potential targets for the prevention and control of UV-induced skin cancer. T-cell-originated protein kinase (TOPK) is highly expressed in skin cancer cells, but its specific function is still unknown. We investigated the role of TOPK in UVB-induced apoptosis in RPMI7951 human melanoma cells. Liquid chromatography-tandem mass spectrometry analysis was used to identify proteins that bind with TOPK. Immunofluorescence, Western blot, and flow cytometry were used to assess the effect of UVB on TOPK, peroxiredoxin 1 (Prx1), and apoptosis in RPMI7951 cells. TOPK binds with Prx1 and its phosphorylation of Prx1 at Ser-32 is important for regulation of H₂O₂-mediated signal transduction. Analysis of the CD spectra of Prx1 and mutant Prx1 (S32A) proteins showed that the secondary structure of Prx1 was significantly altered by phosphorylation of Prx1 at Ser-32. UVB irradiation induced phosphorylation of TOPK in RPMI7951 human melanoma cells and phosphorylated TOPK co-localized with Prx1 in the nucleus. UVB induced the peroxidase activity of Prx1 in vitro and ex vivo. Following treatment with UVB, H₂O₂ levels and apoptosis were increased in RPMI7951 cells stably expressing TOPK siRNA or stably mutant Prx1 (S32A). Phosphorylation of Prx1 (Ser-32) by TOPK prevents UVB-induced apoptosis in RPMI7951 melanoma cells through regulation of Prx1 peroxidase activity and blockade of intracellular H₂O₂ accumulation.     

生物量精确估算模型与参数辨识方法及应用

从生物量模型的构建与参数辨识方法的改进对生物量进行精确估算。用Chebyshev多项式系的组合构建了p维连续函数空间的一组乘积型基,进而建立了生物量估算统一模型,它具有如下特点:(1)可以克服常用生物量估算模型的经验性、不稳定性、不通用性及对生物量影响因素适应性差的特点,(2)它适合于影响生物量的任何因素,故适应范围非常广且很稳定,(3)可根据实际需要及估算精度确定影响生物量的因素及其阶数大小,(4)模型对生物量的估算相当于在区间[-1,1]上进行的数值插值,变量阶数越高,所插入的点就越多,估算结果越符合实际,整个估算的插值过程与树木的树干解析与树木生长原理是相一致的。对所建模型的参数辨识方法做了探讨,经典最小二乘算法是生物量估算的最常用参数辨识方法,由于它本身固有的一些缺陷使常用最小二乘的估算精度与使用范围受到很大的限制,现代多元统计分析的偏最小二乘算法可以克服常用最小二乘的缺陷,但在提取成分时仍具有不足,针对偏最小二乘的缺陷本文对它做了改进,改进算法即能克服偏最小二乘的不足还能使估算精度大大提高。用2个案例对3种生物量估算方法做了对比分析,结果表明生物量估算统一模型与偏最小二乘改进算法精度最高,其生物量估计误差在零附近排成一条直线。