Leaf-produced floral signals

Florigen is the hypothetical leaf-produced signal that induces floral initiation at the shoot apex. The nature of florigen has remained elusive for more than 70 years. But recent progress toward understanding the regulatory network for flowering in Arabidopsis has led to the suggestion that FLOWERING LOCUS T (FT) or its product is the mobile flower-inducing signal that moves from an induced leaf through the phloem to the shoot apex. In the past year, physical and chemical evidence has shown that it is FT protein, and not FT mRNA, that moves from induced leaves to the apical meristem. These results have established that FT is the main, if not the only, component of the universal florigen.     

Multipulse controller signals

Although eye movement saccades are stereotyped, repeatable movements, the shape of the neural controller signal innervating the extraocular muscles is a matter of controversy. Different lines of evidence — single motoneuron recordings, electromyograms, and dynamics — lead to different conclusions. Although all agree that the controller is, in outline, a pulse-step of net activity, neither the pulse width nor shape of the trailing edge of the pulse is clear. We use a mathematical model of the eye and two extraocular muscles to link the dynamical data to the electrophysiological evidence. We conjecture a multipulse controller signal, based on the application of an optimality principle to our model. This multi-pulse controller signal raises new possibilities for resolution of the pulse shape ambiguities, and resolves the controversy over pulse width.     

CD30 signals integrate expression of cytotoxic effector molecules, lymphocyte trafficking signals, and signals for proliferation and apoptosis

Although CD30 has long been recognized as an important marker on many lymphomas of diverse origin and as activation molecule on B cells and T cells, its primary function has remained obscure. We now report that CD30 signals may serve to inhibit effector cell activity by integrating gene expression changes of several pathways important for cytotoxic NK and T cell effector function. In the large granular lymphoma line YT, CD30 signals down-regulate the expression of cytotoxic effector molecules, Fas ligand, perforin, granzyme B, and abrogate cytotoxicity. c-myc, a regulator of proliferation and an upstream regulator of Fas ligand expression, is completely suppressed by CD30. Furthermore, CD30 signals strongly induce CCR7, suggesting a role for CD30 signals in the homing of lymphocytes to lymph nodes. The up-regulation of Fas, death receptor 3, and TNF-related apoptosis-inducing ligand by CD30 indicates an increase in susceptibility to apoptotic signals whereas up-regulation of TNFR-associated factor 1 and cellular inhibitor of apoptosis 2 protect cells from certain types of apoptosis. Using gene microarrays, 750 gene products were induced and 90 gene products were suppressed >2-fold by CD30 signals. Signals emanating from CD30 use both TNFR-associated factor 2-dependent and -independent pathways. The integration of CD30 signals in a lymphoma line suggests that CD30 can down-modulate lymphocyte effector function and proliferation while directing the cells to lymph nodes and increasing their susceptibility to certain apoptotic signals. These studies may provide a molecular mechanism for the recently observed CD30-mediated suppression of CTL activity in vivo in a diabetes model.     

Adaptive orthogonalization of opponent-color signals

This paper concerns the processing of the outputs of the two opponent-color mechanisms in the human visual system. We present experimental evidence that opponent-color signals interact after joint modulation even though they are essentially independent under neutral steady adaptation and after exclusive modulation of each mechanism. In addition, prolonged modulation linearizes the response function of each mechanism. The changes in interaction serve to orthogonalize opponent signals with respect to the adapting modulation, and the changes in response functions serve to equalize the relative frequencies of different levels of response to the adapting modulation. Adaptive orthogonalization reduces sensitivity to the adapting color direction, improves sensitivity to the orthogonal direction, and predicts shifts in color appearance. Response equalization enhances effective contrast and explains the difference between the effects of adaptation to uniform versus temporally or spatially modulated stimuli.     

Pattern classification of phylogeny signals

In this paper we propose the minimum entropy clustering (MEC) method for clustering genes based on their phylogenetic signals. This entropy based method will cluster two genes together when their concatenation can decrease the entropy. An integral feature of MEC is that it chooses the number of clusters automatically, which is a major advantage over the other methods. Our simulation results show that this method is quite successful in clustering genes with a common phylogeny.     

Phloem transport of flowering signals

Seasonal variability in environmental parameters such as day length regulates many aspects of plant development. The transition from vegetative growth to flowering in Arabidopsis is regulated by seasonal changes in day length through a genetically defined molecular cascade known as the photoperiod pathway. Recent advances were made in understanding the tissues in which different components of the photoperiod pathway act to regulate floral induction. These studies highlighted the key role of the FT protein, which is produced in the leaves in response to inductive day lengths and traffics through the phloem to initiate flowering at the shoot apex. Unveiling the cellular and molecular details of this systemic signaling process will be required for a complete understanding of flowering regulation and other photoperiodic processes.     

Recognition of translational termination signals

Ribosomes can specifically shift at certain codons so that the mRNA is read in two different reading frames. To determine if frameshifting occurs at the level of termination, polymers of defined sequence containing AUG, a coding sequence and an in- or out-of-phase nonsense codon were used to bind a termination substrate or to program synthesis and release of dipeptides in a highly purified in vitro translation system. fMet-tRNA bound to ribosomes with AUGUAA, AUGUAAn, AUGUUU, AUGUUA or AUGUAn was not a substrate for release factor RF-1. In contrast, AUGU1UAA, AUGU3UAAn, AUGU4UAAn, AUGU5UAAn effected RF-1-dependent release of fMet from ribosomes. This suggests that nonsense codons can stimulate release whether they occur in- or out-of-phase. Addition of exogenous UAA and RF-1 stimulated release with all oligonucleotides tested. Propagation restricted the RF-1-dependent recognition of out-of-phase nonsense codons but did not restrict recognition of in-phase UAA in AUGU3UAAn. Release of dipeptides from ribosomes programmed with AUGU4UAAn occurred without EF-G and with a mutant lacking EF-G activity, suggesting that out-of-phase termination can occur prior to translocation outside the ribosomal A-site. We propose that the ribosome X RF complex is required to complete proteins, but is also able to frameshift at a nonsense codon resulting in occasional out-of-phase termination of protein synthesis.