Trees on networks: resolving statistical patterns of phylogenetic similarities among interacting proteins

Background  

Phylogenies capture the evolutionary ancestry linking extant species. Correlations and similarities among a set of species are mediated by and need to be understood in terms of the phylogenic tree. In a similar way it has been argued that biological networks also induce correlations among sets of interacting genes or their protein products.     

南瓜雌蕊与自花及远缘花粉的相互作用

南瓜柱头表面经去垢剂、蛋白酶及Con A处理后花粉不能萌发或花粉管生长受阻,Con A能专一地与柱头表面结合。柱头块加入培养液可促进花粉萌发。不同的远缘花粉授粉后在雌蕊不同部位受阻。在成熟南瓜雌蕊提取液中检测到血凝活性,凝集素可能参与雌蕊对远缘花粉的抑制。     

Nicotinic acetylcholine receptor channels are influenced by the physical state of their membrane environment.

We investigated the effect of the physical state of the cell membrane on the activity of the nicotinic acetylcholine receptor (AChR) in various clonal cell lines transfected with the cDNAs of embryonic or adult AChR by measuring single-channel properties and some membrane physicochemical properties as a function of temperature. Unitary conductance and channel closing rate, alpha, had Q(10) values of 1.2 and 2.2, respectively. Using Eyring's transition state theory, it was calculated that both embryonic and adult-type AChR had relatively low thermal sensitivity of ionic conductance and activation energy (E(a) of 3.0-5.0 kcal-mol(-1) at 20 degrees C), indicating that once the AChR channel opens, ion movement is dominated by diffusional processes. Channel closure exhibited higher energy requirements, with E(a) values of about 13 kcal-mol(-1). This process appears to be more endothermic (higher delta H(a) values) than ion permeation, and it is plausible that the energy acquired by the system can be used in the maintenance of its degree of order, as revealed by the delta S(a) 0 calculated for channel closure. The influence of the membrane environment on AChR function is reinforced by the observation that the conductance of the same, embryonic-type AChR protein, expressed in qualitatively different cellular lipid environments, appeared to have different energetic requirements. A correlation between the electrophysiological and thermodynamic parameters of the AChR and physicochemical properties of the membrane bilayer in which the protein is embedded could be established using measurements of the so-called generalized polarization (GP) of the lipophilic probe laurdan. Both embryonic and adult AChR exhibited a higher GP and a higher sensitivity to temperature-dependent changes in GP when heterologously expressed in stable form in Chinese hamster ovary (CHO)-derived cells than did the native embryonic AChR in BC3H-1 cells, indicating that these two properties are determined by the host membrane and are not inherent properties of the AChR type. In addition, the differences in the macroscopic physical states of the lipids and membrane-associated solvent (water) dipolar relaxation between BC3H-1 and CHO-derived cells indicated by the spectroscopic properties of laurdan suggest that both lipid and associated water may influence the microscopic activity of individual AChR molecules embedded in the lipid bilayer. Finally, the different dependence of AChR channel conductance and mean open time as a function of GP observed between the different AChR subtypes in clonal cell lines suggests the importance of specific lipid-protein interactions in addition to bulk membrane properties.     

Nod2 Activates NF-kB in CD4+ T Cells but Its Expression Is Dispensable for T Cell-Induced Colitis

Although the etiology of Crohn''s disease (CD) remains elusive this disease is characterized by T cell activation that leads to chronic inflammation and mucosal damage. A potential role for maladaptation between the intestinal microbiota and the mucosal immune response is suggested by the fact that mutations in the pattern recognition receptor Nod2 are associated with higher risks for developing CD. Although Nod2 deletion in CD4⁺ T cells has been shown to impair the induction of colitis in the murine T cell transfer model, the analysis of T cell intrinsic Nod2 function in T cell differentiation and T cell-mediated immunity is inconsistent between several studies. In addition, the role of T cell intrinsic Nod2 in regulatory T cell (Treg) development and function during colitis remain to be analyzed. In this study, we show that Nod2 expression is higher in activated/memory CD4⁺ T cells and its expression was inducible after T cell receptor (TCR) ligation. Nod2 stimulation with muramyl dipeptide (MDP) led to a nuclear accumulation of c-Rel NF-kB subunit. Although functionally active in CD4⁺ T cells, the deletion of Nod2 did not impair the induction and the prevention of colitis in the T cell transfer model. Moreover, Nod2 deletion did not affect the development of Foxp3⁺ Treg cells in the spleen of recipient mice and Nod2 deficient CD4 T cells expressing the OVA specific transgenic TCR were able to differentiate in Foxp3⁺ Treg cells after OVA feeding. In vitro, CD25⁺ Nod2 deficient T cells suppressed T cell proliferation as well as wild type counter parts and T cell stimulation with MDP did not affect the proliferation and the cytokine secretion of T cells. In conclusion, our data indicate that Nod2 is functional in murine CD4⁺ T cells but its expression is dispensable for the T cell regulation of colitis.     

A systematic review of the literature examining the diagnostic efficacy of measurement of fractionated plasma free metanephrines in the biochemical diagnosis of pheochromocytoma

BACKGROUND: Fractionated plasma metanephrine measurements are commonly used in biochemical testing in search of pheochromocytoma. METHODS: We aimed to critically appraise the diagnostic efficacy of fractionated plasma free metanephrine measurements in detecting pheochromocytoma. Nine electronic databases, meeting abstracts, and the Science Citation Index were searched and supplemented with previously unpublished data. Methodologic and reporting quality was independently assessed by two endocrinologists using a checklist developed by the Standards for Reporting of Diagnostic Studies Accuracy Group and data were independently abstracted. RESULTS: Limitations in methodologic quality were noted in all studies. In all subjects (including those with genetic predisposition): the sensitivities for detection of pheochromocytoma were 96%-100% (95% CI ranged from 82% to 100%), whereas the specificities were 85%-100% (95% CI ranged from 78% to 100%). Statistical heterogeneity was noted upon pooling positive likelihood ratios when those with predisposition to disease were included (p < 0.001). However, upon pooling the positive or negative likelihood ratios for patients with sporadic pheochromocytoma (n = 191) or those at risk for sporadic pheochromocytoma (n = 718), no statistical heterogeneity was noted (p = 0.4). For sporadic subjects, the pooled positive likelihood ratio was 5.77 (95% CI = 4.90, 6.81) and the pooled negative likelihood ratio was 0.02 (95% CI = 0.01, 0.07). CONCLUSION: Negative plasma fractionated free metanephrine measurements are effective in ruling out pheochromocytoma. However, a positive test result only moderately increases suspicion of disease, particularly when screening for sporadic pheochromocytoma.