Selectivity and promiscuity in the interaction network mediated by protein recognition modules

A substantial fraction of protein interactions in the cell is mediated by families of protein modules binding to relatively short linear peptides. Many of these interactions have a high dissociation constant and are therefore suitable for supporting the formation of dynamic complexes that are assembled and disassembled during signal transduction. Extensive work in the past decade has shown that, although member domains within a family have some degree of intrinsic peptide recognition specificity, the derived interaction networks display substantial promiscuity. We review here recent advances in the methods for deriving the portion of the protein network mediated by these domain families and discuss how specific biological outputs could emerge in vivo despite the observed promiscuity in peptide recognition in vitro.     

RhoA signaling modulates cyclin D1 expression in human lung fibroblasts; implications for idiopathic pulmonary fibrosis

Background

To elucidate further the pathogenesis of sporadic, idiopathic pulmonary arterial hypertension (IPAH) and identify potential therapeutic avenues, differential gene expression in IPAH was examined by suppression subtractive hybridisation (SSH).

Methods

Peripheral lung samples were obtained immediately after removal from patients undergoing lung transplant for IPAH without familial disease, and control tissues consisted of similarly sampled pieces of donor lungs not utilised during transplantation. Pools of lung mRNA from IPAH cases containing plexiform lesions and normal donor lungs were used to generate the tester and driver cDNA libraries, respectively. A subtracted IPAH cDNA library was made by SSH. Clones isolated from this subtracted library were examined for up regulated expression in IPAH using dot blot arrays of positive colony PCR products using both pooled cDNA libraries as probes. Clones verified as being upregulated were sequenced. For two genes the increase in expression was verified by northern blotting and data analysed using Student's unpaired two-tailed t-test.

Results

We present preliminary findings concerning candidate genes upregulated in IPAH. Twenty-seven upregulated genes were identified out of 192 clones examined. Upregulation in individual cases of IPAH was shown by northern blot for tissue inhibitor of metalloproteinase-3 and decorin (P < 0.01) compared with the housekeeping gene glyceraldehydes-3-phosphate dehydrogenase.

Conclusion

Four of the up regulated genes, magic roundabout, hevin, thrombomodulin and sucrose non-fermenting protein-related kinase-1 are expressed specifically by endothelial cells and one, muscleblind-1, by muscle cells, suggesting that they may be associated with plexiform lesions and hypertrophic arterial wall remodelling, respectively.     

Fishers' knowledge and seahorse conservation in Brazil

From a conservationist perspective, seahorses are threatened fishes. Concomitantly, from a socioeconomic perspective, they represent a source of income to many fishing communities in developing countries. An integration between these two views requires, among other things, the recognition that seahorse fishers have knowledge and abilities that can assist the implementation of conservation strategies and of management plans for seahorses and their habitats. This paper documents the knowledge held by Brazilian fishers on the biology and ecology of the longsnout seahorse Hippocampus reidi. Its aims were to explore collaborative approaches to seahorse conservation and management in Brazil; to assess fishers' perception of seahorse biology and ecology, in the context evaluating potential management options; to increase fishers' involvement with seahorse conservation in Brazil. Data were obtained through questionnaires and interviews made during field surveys conducted in fishing villages located in the States of Piauí, Ceará, Paraíba, Maranhão, Pernambuco and Pará. We consider the following aspects as positive for the conservation of seahorses and their habitats in Brazil: fishers were willing to dialogue with researchers; although captures and/or trade of brooding seahorses occurred, most interviewees recognized the importance of reproduction to the maintenance of seahorses in the wild (and therefore of their source of income), and expressed concern over population declines; fishers associated the presence of a ventral pouch with reproduction in seahorses (regardless of them knowing which sex bears the pouch), and this may facilitate the construction of collaborative management options designed to eliminate captures of brooding specimens; fishers recognized microhabitats of importance to the maintenance of seahorse wild populations; fishers who kept seahorses in captivity tended to recognize the condtions as poor, and as being a cause of seahorse mortality.     

The impact of eriophyoids on crops: recent issues on Aculus schlechtendali, Calepitrimerus vitis and Aculops lycopersici

The nature of the damage caused by eriophyoid mites and the assessment of yield losses still require detailed studies if appropriate control and risk mitigation strategies are to be planned. The economic importance of eriophyoid mites is increasing worldwide and a lot of species have reached a permanent pest status in certain crops, while others represent a quarantine threat for several countries. Due to their relevant role in Europe and elsewhere, three eriophyoid mites that have been frequently reported in recent research, are here considered as case studies: two of them (the apple rust mite, Aculus schlechtendali, and the grape rust mite, Calepitrimerus vitis) colonise temperate fruits, while one (the tomato russet mite, Aculops lycopersici) affects vegetables. The damage assessment related to the apple rust mite has been evaluated on different apple varieties with implications for pest control. Some factors affecting the spread and economic importance of the grape rust mite have been identified. The complexity and difficulty in controlling the tomato russet mite by chemicals enhances the interest in biological control agents. Considerations on interactions between eriophyoids and host plants (e.g. resistance, varietal susceptibility), on pest management regimes (e.g. impact of fungicides, resistance to acaricides, perspectives on biological control) are presented.     

Effect of long-term feeding history on functional and numerical response of Neoseiulus californicus (Acari: Phytoseiidae)

The functional and numerical responses of the predatory mite Neoseiulus californicus to eggs and protonymphs of Tetranychus urticae were studied on excised strawberry leaflet discs under laboratory conditions (25 ± 1°C, 75–85% RH and 16L : 8D). Four strains of the phytoseiid were compared: three originated from a long-term mass-rearing with different food (T. urticae, Dermatophagoides farinae and Quercus spp. pollen) and under controlled conditions, while the fourth was directly collected from a natural environment and therefore considered a wild strain. The different nutritional histories affected the responses of N. californicus on tetranychids. On the whole, the wild strain gave better performance. When egg prey was administered this strain and the one mass-reared on two-spotted spider mites showed similar functional as well as numerical responses; on the contrary, when protonymphs were furnished, the wild strain did not differ from that mass-reared on pollen. The strain previously fed on house dust mites gave the worst performance and also showed the lowest percentages of females in the progeny. The functional responses obtained were predominantly type II curves. In all cases considered, no stored energy was allocated for reproduction and, with the exception of the wild strain on eggs, the prey was exploited less efficiently as the consumption increased. In spite of the differences evidenced in this experiment all strains were characterized by high predation and oviposition rates. Thus the results obtained suggest no drawbacks in the use of mass-reared N. californicus as biocontrol agents. © Rapid Science Ltd. 1998