Fission Yeast Mitotic Regulator DSK1 is an SR Protein-Specific Kinase

Intricate interplay may exist between pre-mRNA splicing and the cell division cycle, and fission yeast Dsk1 appears to play a role in such a connection. Previous genetic analyses have implicated Dsk1 in the regulation of chromosome segregation at the metaphase/anaphase transition. Yet, its protein sequence suggests that Dsk1 may function as a kinase specific for SR proteins, a family of pre-mRNA splicing factors containing arginine-serine repeats. Using an in vitro system with purified components, we showed that Dsk1 phosphorylated human and yeast SR proteins with high specificity. The Dsk1-phosphorylated SF2/ASF protein was recognized strongly by a monoclonal antibody (mAb104) known to bind the in vivo phosphoepitope shared by SR proteins, indicating that the phosphorylation sites resided in the RS domain. Moreover, the fission yeast U2AF65 homolog, Prp2/Mis11 protein, was phosphorylated more efficiently by Dsk1 than by a human SR protein-specific kinase, SRPK1. Thus, these in vitro results suggest that Dsk1 is a fission yeast SR protein-specific kinase, and Prp2/Mis11 is likely an in vivo target for Dsk1. Together with previous genetic data, the studies support the notion that Dsk1 may play a role in coordinating pre-mRNA splicing and the cell division cycle

Soil Carbon within the Mangrove Landscape in Rufiji River Delta, Tanzania

Mangroves are among the most carbon-rich terrestrial ecosystems, primarily attributable to the soil pool. There are substantial differences in soil carbon (C) and nitrogen (N) due to the disparities in geomorphic settings and ecological drivers, but this insight is drawn primarily from observational studies. An objective inventory of carbon stocks in mangroves of the Rufiji River Delta, Tanzania was conducted. Seventy-five soil cores were collected within a 12,164 ha inventory area, comprising the northern portion of the delta. Cores were collected from intact and dwarf mangroves, agricultural fields, and mudflats. The spatial mean soil organic carbon (SOC) density in mangroves was 16.35 ± 6.25 mg C cm−3. Mean SOC density in non-vegetated mudflats was 12.16 ± 4.57 mg C cm−3, demonstrating that mangroves develop on soils with a substantial soil C stock. However, long-established mangroves had had a higher C density (17.27 ± 5.87 mg C cm−3). Using a δ13C mixing model, the source of soil organic matter in mudflats was primarily marine, while long-established mangroves was predominantly mangrove. There were small differences in SOC among long-established mangrove sites in different geomorphic settings. The proportion of marine-sourced SOC increased with soil depth in mangroves. The SOC and nitrogen of agricultural sites resemble those of mudflats, suggesting those sites are developed from relatively young forests. The SOC and nitrogen density in dwarf mangrove sites were lower than others, perhaps reflecting past disturbances

Biochemical and Genetic Conservation of Fission Yeast DSK1 and Human SRPK1

Arginine/serine-rich (RS) domain-containing proteins and their phosphorylation by specific protein kinases constitute control circuits to regulate pre-mRNA splicing and coordinate splicing with transcription in mammalian cells. We present here the finding that similar SR networks exist in Schizosaccharomyces pombe. We previously showed that Dsk1 protein, originally described as a mitotic regulator, displays high activity in phosphorylating S. pombe Prp2 protein (spU2AF59), a homologue of human U2AF65. We now demonstrate that Dsk1 also phosphorylates two recently identified fission yeast proteins with RS repeats, Srp1 and Srp2, in vitro. The phosphorylated proteins bear the same phosphoepitope found in mammalian SR proteins. Consistent with its substrate specificity, Dsk1 forms kinase-competent complexes with those proteins. Furthermore, dsk1+ gene determines the phenotype of prp2+ overexpression, providing in vivo evidence that Prp2 is a target for Dsk1. The dsk1-null mutant strain became severely sick with the additional deletion of a related kinase gene. Significantly, human SR protein-specific kinase 1 (SRPK1) complements the growth defect of the double-deletion mutant. In conjunction with the resemblance of dsk1+ and SRPK1 in sequence homology, biochemical properties, and overexpression phenotypes, the complementation result indicates that SRPK1 is a functional homologue of Dsk1. Collectively, our studies illustrate the conserved SR networks in S. pombe consisting of RS domain-containing proteins and SR protein-specific kinases and thus establish the importance of the networks in eucaryotic organisms

Non-Markovian epidemic spreading on temporal networks

Many empirical studies have revealed that the occurrences of contacts associated with human activities are non-Markovian temporal processes with a heavy tailed inter-event time distribution. Besides, there has been increasing empirical evidence that the infection and recovery rates are time-dependent. However, we lack a comprehensive framework to analyze and understand non-Markovian contact and spreading processes on temporal networks. In this paper, we propose a general formalism to study non-Markovian dynamics on non-Markovian temporal networks. We find that, under certain conditions, non-Markovian dynamics on temporal networks are equivalent to Markovian dynamics on static networks. Interestingly, this result is independent of the underlying network topology

Erosion-deposition patterns and depo-center movements in branching channels at the near-estuary reach of the Yangtze River

Channel evolution and depo-center migrations in braided reaches are significantly influenced by variations in runoff. This study examines the effect of runoff variations on the erosion-deposition patterns and depocenter movements within branching channels of the near-estuary reach of the Yangtze River. We assume that variations in annual mean duration days of runoff discharges, ebb partition ratios in branching channels, and the erosional/depositional rates of entire channels and sub-reaches are representative of variations in runoff intensity, flow dynamics in branching channels, and morphological features in the channels. Our results show that the north region of Fujiangsha Waterway, the Liuhaisha branch of Rugaosha Waterway, the west branch of Tongzhousha Waterway, and the west branch of Langshansha Waterway experience deposition or reduced erosion under low runoff intensity, and erosion or reduced deposition under high runoff intensity, with the depocenters moving upstream and downstream, respectively. Other waterway branches undergo opposite trends in erosion-deposition patterns and depo-center movements as the runoff changes. These morphological changes may be associated with trends in ebb partition ratio as the runoff discharge rises and falls. By flattening the intra-annual distribution of runoff discharge, dam construction in the Yangtze Basin has altered the ebb partition ratios in waterway branches, affecting their erosion-deposition patterns and depo-center movements. Present trends are likely to continue into the future due to the succession of large cascade dams under construction along the upper Yangtze and ongoing climate change

Dynamic Budget Throttling in Repeated Second-Price Auctions

Throttling is one of the most popular budget control methods in today's online advertising markets. When a budget-constrained advertiser employs throttling, she can choose whether or not to participate in an auction after the advertising platform recommends a bid. This paper focuses on the dynamic budget throttling process in repeated second-price auctions from a theoretical view. An essential feature of the underlying problem is that the advertiser does not know the distribution of the highest competing bid upon entering the market. To model the difficulty of eliminating such uncertainty, we consider two different information structures. The advertiser could obtain the highest competing bid in each round with full-information feedback. Meanwhile, with partial information feedback, the advertiser could only have access to the highest competing bid in the auctions she participates in. We propose the OGD-CB algorithm, which involves simultaneous distribution learning and revenue optimization. In both settings, we demonstrate that this algorithm guarantees an $O(\sqrt{T\log T})$ regret with probability $1 - O(1/T)$ relative to the fluid adaptive throttling benchmark. By proving a lower bound of $\Omega(\sqrt{T})$ on the minimal regret for even the hindsight optimum, we establish the near optimality of our algorithm. Finally, we compare the fluid optimum of throttling to that of pacing, another widely adopted budget control method. The numerical relationship of these benchmarks sheds new light on the understanding of different online algorithms for revenue maximization under budget constraints.Comment: 29 pages, 1 tabl

Study on the rare radiative decay Bc→Ds∗γB_c \to D_s^*\gamma in the standard model and multiscale walking technicolor model

Applying the perturbative QCD ( PQCD ) method, we study the decay $B_c\rightarrow D_s^*\gamma$ in the standard model and multiscale walking technicolor model. In the SM, we find that the contribution of weak annihilation is more important than that of the electromagnetic penguin. The presence of Pseudo-Goldstone-Bosons in the MWTCM leads to a large enhancement in the rate of $B_c\rightarrow D_s^*\gamma$, but this model is in conflict with the branching ratio of $Z\rightarrow b\overline b$ ( $R_b$ ) and the CLEO data on the branching ratio BR ( $b\rightarrow s\gamma$ ). If topcolor is further introduced, the calculated results in the topcolor assisted MWTCM can be suppressed and be in agreement with the CLEO data for a certain range of the parameters.Comment: 16 pages, Latex, no macros, 1 figure(in Latex), hard copy is available upon request. to appear in Phys. Rev.

Interactions between two fission yeast serine/arginine-rich proteins and their modulation by phosphorylation.

The unexpected low number of genes in the human genome has triggered increasing attention to alternative pre-mRNA splicing, and serine/arginine-rich (SR) proteins have been correlated with the complex alternative splicing that is a characteristic of metazoans. SR proteins interact with RNA and splicing protein factors, and they also undergo reversible phosphorylation, thereby regulating constitutive and alternative splicing in mammals and Drosophila. However, it is not clear whether the features of SR proteins and alternative splicing are present in simple and genetically tractable organisms, such as yeasts. In the present study, we show that the SR-like proteins Srp1 and Srp2, found in the fission yeast Schizosaccharomyces pombe, interact with each other and the interaction is modulated by protein phosphorylation. By using Srp1 as bait in a yeast two-hybrid analysis, we specifically isolated Srp2 from a random screen. This Srp interaction was confirmed by a glutathione-S-transferase pull-down assay. We also found that the Srp1-Srp2 complex was phosphorylated at a reduced efficiency by a fission yeast SR-specific kinase, Dis1-suppression kinase (Dsk1). Conversely, Dsk1-mediated phosphorylation inhibited the formation of the Srp complex. These findings offer the first example in fission yeast for interactions between SR-related proteins and the modulation of the interactions by specific protein phosphorylation, suggesting that a mammalian-like SR protein function may exist in fission yeast