Influences of temporal independence of data on modelling species distributions

Modelling species distributions has been widely used to understand present and future potential distributions of species, and can provide adaptation and mitigation information as references for conservation and management under climate change. However, various methods of data splitting to develop and validate functions of the models do not get enough attention, which may mislead the interpretation of predicted results. We used the Taiwanese endemic birds to test the influences of temporal independence of datasets on model performance and prediction. Training and testing data were considered to be independent if they were collected during different survey periods (1993–2004 and 2009–2010). The results indicated no significant differences of six model performance measures (AUC, kappa, TSS, accuracy, sensitivity, and specificity) among the combinations of training and testing datasets. Both species- and grid cell-based assessments differed significantly between predictions by the annual and pooled training data. We also found an average of 85.8% similarity for species presences and absences in different survey periods. The remaining dissimilarity was mostly caused by species observed in the late survey period but not in the early one. The method of data splitting, yielding training and testing data, is critical for resulting model species distributions. Even if similar model performance exists, different methods can lead to different species distributional maps. More attention needs to be given to this issue, especially when amplifying these models to project species distributions in a changing world.     

Evolutionarily stable seasonal timing for insects with competition for renewable resource

Summary I study the evolutionarily stable seasonal patterns of hatching and pupation for herbivorous insects that engage in exploitative competition for a renewable resource. A longer larval feeding period enhances female fecundity, but also causes a higher mortality by predation and parasitism. Previously, it was shown that the evolutionarily stable population exhibits asynchronous starting and ending of the larval feeding period in a model in which larval growth rate decreases with the total larval biomass in the population due presumably to interference competition. Here I study the case in which resource availability changes not only with environmental seasonality but with the depletion by the feeding of larvae. I find that if the impact of the herbivory is strong, both hatching and pupation should occur asynchronously in the evolutionarily stable population. And if the favourable season for the host plant is short the ESS population may include synchronous timing of pupation. If the timing of hatching and pupation occurs asynchronously, in the first day of each interval some fraction of the population hatch or pupate, respectively and the rest do so gradually over the interval. In addition, if the environmental variable changes as a symmetric function of time, the length of the period in which hatching occurs tends to be much shorter than the period in which pupation occurs.     

The Tumor Suppressor pVHL Down-regulates Never-in-Mitosis A-related Kinase 8 via Hypoxia-inducible Factors to Maintain Cilia in Human Renal Cancer Cells

NEK8 (never in mitosis gene A (NIMA)-related kinase 8) is involved in cytoskeleton, cilia, and DNA damage response/repair. Abnormal expression and/or dysfunction of NEK8 are related to cancer development and progression. However, the mechanisms that regulate NEK8 are not well declared. We demonstrated here that pVHL may be involved in regulating NEK8. We found that CAK-I cells with wild-type vhl expressed a lower level of NEK8 than the cells loss of vhl, such as 786-O, 769-P, and A-498 cells. Moreover, pVHL overexpression down-regulated the NEK8 protein in 786-O cells, whereas pVHL knockdown up-regulated NEK8 in CAK-I cells. In addition, we found that the positive hypoxia response elements (HREs) are located in the promoter of the nek8 sequence and hypoxia could induce nek8 expression in different cell types. Consistent with this, down-regulation of hypoxia-inducible factors α (HIF-1α or HIF-2α) by isoform-specific siRNA reduced the ability of hypoxia inducing nek8 expression. In vivo, NEK8 and HIF-1α expression were increased in kidneys of rats subjected to an experimental hypoxia model of ischemia and reperfusion. Furthermore, NEK8 siRNA transfection significantly blocked pVHL-knockdown-induced cilia disassembling, through impairing the pVHL-knockdown-up-regulated NEK8 expression. These results support that nek8 may be a novel hypoxia-inducible gene. In conclusion, our findings show that nek8 may be a new HIF target gene and pVHL can down-regulate NEK8 via HIFs to maintain the primary cilia structure in human renal cancer cells.     

Biology and host preference of Selitrichodes neseri: A potential biological control agent of the Eucalyptus gall wasp,Leptocybe invasa

Selitrichodes neseri (Hymenoptera: Eulophidae) is a parasitoid of the invasive gall-forming wasp Leptocybe invasa (Hymenoptera: Eulophidae), which has caused serious damage to Eucalyptus plantations in many parts of the world. S. neseri is a recently discovered parasitoid considered to be a potentially important biological control agent of L. invasa. The aim of this study was to provide the first basic data on the biology of S. neseri, which is essential for its application in biological control. S. neseri was shown to be a biparental ectoparasitoid. Observation from dissected galls indicated that the parasitoid developed on late larvae, pupae and callow adults, although development did occur in a range of gall ages. Observed nominal parasitism in captivity ranged from 9.7% to 71.8%. Adult S. neseri specimens, fed with honey-water and galled Eucalyptus leaves, survived an average of 26 days at 26 °C. The average developmental time from oviposition to emergence was 19.3 days ± 0.2 days. There was no pre-oviposition period. A single female produced a maximum of thirty-nine offspring, with a maximum of ten per day. Dissection of the ovaries showed that twelve ovarioles were present. The sex ratio of S. neseri observed in this study was 1:3.43 males:females. Galls of native insects most closely related to L. invasa and to galls of similar morphology to L. invasa-induced galls, were not suitable for S. neseri oviposition. S. neseri showed considerable potential as a biological control agent of L. invasa due to its relatively short developmental time, long adult life span when supplemented with carbohydrates, ability to utilize a range of gall ages and the fact that it has a high level of host specificity.     

An integrated network analysis reveals that nitric oxide reductase prevents metabolic cycling of nitric oxide by Pseudomonas aeruginosa

Nitric oxide (NO) is a chemical weapon within the arsenal of immune cells, but is also generated endogenously by different bacteria. Pseudomonas aeruginosa are pathogens that contain an NO-generating nitrite (NO₂⁻) reductase (NirS), and NO has been shown to influence their virulence. Interestingly, P. aeruginosa also contain NO dioxygenase (Fhp) and nitrate (NO₃⁻) reductases, which together with NirS provide the potential for NO to be metabolically cycled (NO→NO₃⁻→NO₂⁻→NO). Deeper understanding of NO metabolism in P. aeruginosa will increase knowledge of its pathogenesis, and computational models have proven to be useful tools for the quantitative dissection of NO biochemical networks. Here we developed such a model for P. aeruginosa and confirmed its predictive accuracy with measurements of NO, O₂, NO₂⁻, and NO₃⁻ in mutant cultures devoid of Fhp or NorCB (NO reductase) activity. Using the model, we assessed whether NO was metabolically cycled in aerobic P. aeruginosa cultures. Calculated fluxes indicated a bottleneck at NO₃⁻, which was relieved upon O₂ depletion. As cell growth depleted dissolved O₂ levels, NO₃⁻ was converted to NO₂⁻ at near-stoichiometric levels, whereas NO₂⁻ consumption did not coincide with NO or NO₃⁻ accumulation. Assimilatory NO₂⁻ reductase (NirBD) or NorCB activity could have prevented NO cycling, and experiments with ΔnirB, ΔnirS, and ΔnorC showed that NorCB was responsible for loss of flux from the cycle. Collectively, this work provides a computational tool to analyze NO metabolism in P. aeruginosa, and establishes that P. aeruginosa use NorCB to prevent metabolic cycling of NO.     

Satiation and the functional response: a test of a new model

Abstract. 1. A model of the functional response to prey density is derived to include the reduction in time available for search, T_s , resulting from predator satiation.
2. For larger prey items predator satiation occurs at each prey capture and T_s is reduced by the attack time and digestive pause of a series of attack cycles. For small prey items predator foraging is continuous at low densities with T_s reduced solely by attack time. At higher densities predator satiation occurs after the capture of several small prey items and T_s is reduced by the attack time and digestive pause of a series of foraging cycles.
3. A comparison of the predicted asymptotic level of prey capture using experimentally estimated parameter values, with the maximum consumption of aphids by larval and adult coccinellids provides a test of the satiation model.
4. The limitation of prey capture by predator satiation is discussed with reference to handling time and the success of coccinellids in biological control.     

Zeitaufwand für das Ernten und Verstecken von Kiefernsamen bei Dünnschn?bligen Tannenh?hern (Nucifraga caryocatactes macrorhynchos) im Fernen Osten Russlands

Zusammenfassung In einem Vorkommen des Dünnschnäbligen Tannenhähers an der Küste des Ochotskischen Meeres im Fernen Osten Sibiriens wurde das Ernten und Verstecken von Samen aus den Zapfen der Zwergzirbelkiefer (Pinus pumila) untersucht. Der Inhalt von durchschnittlich 2,8 Zapfen, das sind etwa 80 Samen, wurde in der gefüllten Kehltasche transportiert und auf eine Anzahl unter niedriger Zwergstrauchvegetation gelegener Bodenverstecke verteilt. Die Verstecke wurden in annähernd linearer Anordnung ohne Bevorzugung einer bestimmten Himmelsrichtung angelegt. Die Versteckserien enthielten im Median 79, maximal mehr als 120 Samen, das Einzelversteck durchschnittlich 19,6 Samen. Das Ernten und Leeren eines Zapfens geschah im Schnitt innerhalb von 47 s. Für das Verstecken einer Füllung des Kehlsacks benötigten die Vögel ca. 170 s. Für das gesamte Beschaffen und Verstecken eines einzelnen Kiefernsamens errechnet sich ein durchschnittlicher Zeitbedarf von 3,26 s. Nach 20 Tagen war der Zapfenvorrat in der lokalen Kiefernpopulation erschöpft. Jeder Häher hat nach den Hochrechnungen bis zu 100.000 Samen vergraben.

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Harvesting and caching capacities of Thin-billed Nutcrackers in the Russian Far East

Summary At the Ochotskian sea coast Thin-billed Eurasian Nutcrackers (Nucifraga caryocatactes macrorhynchos) harvested seeds of ripe cones of the brush pinePinus pumila in late summer. The mean number of seeds carried in their sublingual pouch was 80, which respresents the harvestable contents of 2.8 cones. These were distributed in an average of 5 caches, exclusively in the soil under low tundra vegetation. Caches were organized in nearly straight lines. Series contained a mean of 82.7 seeds, single caches a mean of 19.6 seeds. Plucking one cone and harvesting its seeds took 47 seconds on average. The caching of a complete pouchful took on average 123.4 seconds. The time invested for harvesting and caching one single seed was calculated at 3.26 seconds. Within three weeks in July, an average individual bird was calculated to have cached a total of up to 100,000 seeds.

     

Phylogenetic Position of Amblyospora Hazard & Oldacre (Microspora: Amblyosporidae) Based on Small Subunit rRNA Data and Its Implication for the Evolution of the Microsporidia

ABSTRACT. Sequences of the small subunit rRNA genes of Amblyospora californica and an Amblyospora sp. from Culex salinarius were determined. These sequences were compared phylogenetically with 16 other microsporidia. The results suggest Amblyospora forms a sister taxon to the rest of the microsporidia examined. The basal position of Amblyospora is discussed with respect to the evolution of microsporidian life cycles. These sequences represent the longest microsporidian small subunit rRNA genes sequenced to date, 1,359 and 1,358 bp, respectively. Structural features and GC content (49% for both) are comparable to those of other microsporidia which have been sequenced.     

Detection of cellular responses to toxicants by dielectrophoresis

The dielectrophoretic (DEP) crossover method has been applied to the detection of cell responses to toxicants. Time and dose responses of the human cultured leukemia (HL-60) line were measured for paraquat, styrene oxide (SO), N-nitroso-N-methylurea (NMU) and puromycin. These toxicants were chosen because of their different predominant mechanisms of action, namely membrane free radical attack, simultaneous membrane and nucleic acid attack, nucleic acid alkylation, and protein synthesis inhibition, respectively. For all treatments, the specific membrane capacitance (C_mem) of the cells decreased while the specific membrane conductance (G_mem) increased in dose- and time-dependent manners. The DEP responses correlated sensitively with alterations in cell surface morphology, especially folds, microvilli, and blebs, observed by scanning electron microscopy. The DEP method was more sensitive to agents that had a direct action on the membrane than to agents for which membrane alterations were secondary. The responses to paraquat and SO, which directly damaged the cell membrane, could be detected 15 min after exposure, while those for puromycin and NMU, which acted on intracellular targets, could be detected after 30 min. The detection times and dose sensitivity results showed that the DEP method is much faster and more sensitive than conventional cell and higher organism viability testing techniques. The feasibility of producing small instruments for toxicity detection and screening based on cellular dielectric responses is discussed.     

Dictyosome vesicle production and plasma membrane turnover in auxin-stimulated outer epidermal cells of coleoptile segments fromAvena sativa (L.)

Summary Dark grown coleoptile segments were floated on solutions of IAA alone and of IAA and the secretion inhibitors cytochalasin and monensin. The secretion inhibitors prevented normal elongation of the tissue segments, the monensin inhibition being virtually complete while cytochalasin gave a 40% reduction over the first six hours with little further further elongation in the following 18 hours. Vesicle production was assessed in outer epidermal cells after 6 hours of IAA-stimulated elongation using the vesicle accumulation method following a cytochalasin-block of vesicle transport. The results were compared with the area of plasma membrane required to enable cell elongation to proceed at the observed rate. The area of vesicle membrane delivered to the cell surface exceeded this requirement to such an extent that at least 65% of the delivered membrane must be recycled back into the cytoplasm. Expressed in terms of the whole cell, the plasma membrane turnover rate was found to be once every 200 minutes. It is concluded that limitation of elongation by secretion inhibitors is more likely to reflect a requirement for the vesicle contents than the vesicle membrane. These results are compared with those obtained from other secretory systems using a similar approach.Abbreviations IAA indole acetic acid - DMSO dimethyl sulphoxide - D dictyosome - ER endoplasmic reticulum - V vesicle