Cellulose synthase promoter and method for modifiying cellulose and lignin biosynthesis in plants

This invention relates to an isolated cellulose synthase promoter, methods for genetically altering cellulose and lignin biosynthesis, and to methods for improving strength properties of juvenile wood and fiber in trees. The invention further relates to methods for identifying regulatory elements in a cellulose synthase promoter and to methods for augmenting expression of polynucleotides operably linked to a cellulose synthase promoter.https://digitalcommons.mtu.edu/patents/1037/thumbnail.jp

Folding and unfolding phylogenetic trees and networks

Phylogenetic networks are rooted, labelled directed acyclic graphs which are commonly used to represent reticulate evolution. There is a close relationship between phylogenetic networks and multi-labelled trees (MUL-trees). Indeed, any phylogenetic network $N$ can be "unfolded" to obtain a MUL-tree $U(N)$ and, conversely, a MUL-tree $T$ can in certain circumstances be "folded" to obtain a phylogenetic network $F(T)$ that exhibits $T$. In this paper, we study properties of the operations $U$ and $F$ in more detail. In particular, we introduce the class of stable networks, phylogenetic networks $N$ for which $F(U(N))$ is isomorphic to $N$, characterise such networks, and show that they are related to the well-known class of tree-sibling networks.We also explore how the concept of displaying a tree in a network $N$ can be related to displaying the tree in the MUL-tree $U(N)$. To do this, we develop a phylogenetic analogue of graph fibrations. This allows us to view $U(N)$ as the analogue of the universal cover of a digraph, and to establish a close connection between displaying trees in $U(N)$ and reconcilingphylogenetic trees with networks

A Review on the Special Radiotherapy Techniques of Colorectal Cancer

Colorectal cancer is one of the commonest cancers worldwide. Radiotherapy has been established as an indispensable component of treatment. Although conventional radiotherapy provides good local control, radiotherapy treatment side-effects, local recurrence and distant metastasis remain to be the concerns. With the recent technological advancements, various special radiotherapy treatment options have been offered. This review article discusses the recently-developed special radiotherapy treatment modalities for various conditions of colorectal cancer ranging from early stage, locally advanced stage, recurrent, and metastatic diseases. The discussion focuses on the areas of feasibility, local control, and survival benefits of the treatment modalities. This review also provides accounts of the future direction in radiotherapy of colorectal cancer with emphasis on the coming era of personalized radiotherapy

Consequences of climate change on food-energy-water systems in arid regions without agricultural adaptation, analyzed using FEWCalc and DSSAT

Effects of a changing climate on agricultural system productivity are poorly understood, and likely to be met with as yet undefined agricultural adaptations by farmers and associated business and governmental entities. The continued vitality of agricultural systems depends on economic conditions that support farmers’ livelihoods. Exploring the long-term effects of adaptations requires modeling agricultural and economic conditions to engage stakeholders upon whom the burden of any adaptation will rest. Here, we use a new freeware model FEWCalc (Food-Energy-Water Calculator) to project farm incomes based on climate, crop selection, irrigation practices, water availability, and economic adaptation of adding renewable energy production. Thus, FEWCalc addresses United Nations Global Sustainability Goals No Hunger and Affordable and Clean Energy. Here, future climate scenario impacts on crop production and farm incomes are simulated when current agricultural practices continue so that no agricultural adaptations are enabled. The model Decision Support System for Agrotechnology Transfer (DSSAT) with added arid-region dynamics is used to simulate agricultural dynamics. Demonstrations at a site in the midwest USA with 2008–2017 historical data and two 2018–2098 RCP climate scenarios provide an initial quantification of increased agricultural challenges under climate change, such as reduced crop yields and increased financial losses. Results show how this finding is largely driven by increasing temperatures and changed distribution of precipitation throughout the year. Without effective technological advances and operational and policy changes, the simulations show how rural areas could increasingly depend economically on local renewable energy, while agricultural production from arid regions declines by 50% or more

The Power of Uniform Sampling for Coresets

Motivated by practical generalizations of the classic $k$-median and $k$-means objectives, such as clustering with size constraints, fair clustering, and Wasserstein barycenter, we introduce a meta-theorem for designing coresets for constrained-clustering problems. The meta-theorem reduces the task of coreset construction to one on a bounded number of ring instances with a much-relaxed additive error. This reduction enables us to construct coresets using uniform sampling, in contrast to the widely-used importance sampling, and consequently we can easily handle constrained objectives. Notably and perhaps surprisingly, this simpler sampling scheme can yield coresets whose size is independent of $n$, the number of input points. Our technique yields smaller coresets, and sometimes the first coresets, for a large number of constrained clustering problems, including capacitated clustering, fair clustering, Euclidean Wasserstein barycenter, clustering in minor-excluded graph, and polygon clustering under Fr\'{e}chet and Hausdorff distance. Finally, our technique yields also smaller coresets for $1$-median in low-dimensional Euclidean spaces, specifically of size $\tilde{O}(\varepsilon^{-1.5})$ in $\mathbb{R}^2$ and $\tilde{O}(\varepsilon^{-1.6})$ in $\mathbb{R}^3$

The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus.

Filamentous fungi, such as Neurospora crassa, are very efficient in deconstructing plant biomass by the secretion of an arsenal of plant cell wall-degrading enzymes, by remodeling metabolism to accommodate production of secreted enzymes, and by enabling transport and intracellular utilization of plant biomass components. Although a number of enzymes and transcriptional regulators involved in plant biomass utilization have been identified, how filamentous fungi sense and integrate nutritional information encoded in the plant cell wall into a regulatory hierarchy for optimal utilization of complex carbon sources is not understood. Here, we performed transcriptional profiling of N. crassa on 40 different carbon sources, including plant biomass, to provide data on how fungi sense simple to complex carbohydrates. From these data, we identified regulatory factors in N. crassa and characterized one (PDR-2) associated with pectin utilization and one with pectin/hemicellulose utilization (ARA-1). Using in vitro DNA affinity purification sequencing (DAP-seq), we identified direct targets of transcription factors involved in regulating genes encoding plant cell wall-degrading enzymes. In particular, our data clarified the role of the transcription factor VIB-1 in the regulation of genes encoding plant cell wall-degrading enzymes and nutrient scavenging and revealed a major role of the carbon catabolite repressor CRE-1 in regulating the expression of major facilitator transporter genes. These data contribute to a more complete understanding of cross talk between transcription factors and their target genes, which are involved in regulating nutrient sensing and plant biomass utilization on a global level

Full-Polarization Observations of OH Masers in Massive Star-Forming Regions: I. Data

We present full-polarization VLBA maps of the ground-state, main-line, 2 Pi 3/2, J = 3/2 OH masers in 18 Galactic massive star-forming regions. This is the first large polarization survey of interstellar hydroxyl masers at VLBI resolution. A total of 184 Zeeman pairs are identified, and the corresponding magnetic field strengths are indicated. We also present spectra of the NH3 emission or absorption in these star-forming regions. Analysis of these data will be presented in a companion paper.Comment: 111 pages, including 42 figures and 21 tables, to appear in ApJ

Grid-enabled high throughput in-silico screening against influenza A neuraminidase

PCSV, présenté par H.-C. Lee, à paraître dans les proceedingsEncouraged by the success of first EGEE biomedical data challenge against malaria[1], the second data challenge was kicked off in April, 2006, fighting against avian flu. In the paper, we demonstrated how to adopt a world-wide deployed Grid infrastructure to efficiently produce a large scale virtual screening to speed up the drug design process. The 6-weeks activity of molecular docking on the Grid has covered over 100 years of computing power required for discovering new drug for avian flu. Around 600 Gigabytes of output has also been produced and archived on the Grid for further biological analysis and test