Revealing the clonal composition of a single tumor is essential for identifying cell subpopulations with metastatic potential in primary tumors or with resistance to therapies in metastatic tumors. Sequencing technologies provide only an overview of the aggregate of numerous cells. Computational approaches to de-mix a collective signal composed of the aberrations of a mixed cell population of a...

We study the question of efficiency improvement or deterioration for a semantic-preserving program transformation technique based on macro tree transducer composition. By annotating functional programs to reflect the internal property “computation time” explicitly in the computed output, and by manipulating such annotations, we formally prove syntactic conditions under which the composed progra...

Forests are important ecosystems that provide many ecosystem services. To humans, they an resource for food, firewood and timber (Jang et al., 2019). represent rich natural pharmacies containing species with known or potential medicinal nutritional value (Karjalainen 2009). In addition, harbour enormous number of different organisms, from microbes to large mammals (Barlow 2018). This is particu...

Tropical forests generally occur on highly weathered soils that, in combination with the immobility of phosphorus (P), often result in soils lacking orthophosphate, the form of P most easily metabolized by plants and microbes. In these soils, mineralization of organic P can be the major source for orthophosphate. Both plants and microbes encode for phosphatases capable of mineralizing a range o...

The high diversity of tree species has traditionally been considered an important controller of belowground processes in tropical rainforests. However, soil water availability and resources are also primary regulators of soil bacteria in many ecosystems. Separating the effects of these biotic and abiotic factors in the tropics is challenging because of their high spatial and temporal heterogene...

Lateral gene transfer (LGT, also known as horizontal gene transfer), an atypical mechanism of transferring genes between species, has almost become the default explanation for genes that display an unexpected composition or phylogeny. Numerous methods of detecting LGT events all rely on two fundamental strategies: primary structure composition or gene tree/species tree comparisons. Discouraging...

Achatinella mustelina is a critically endangered tree snail that subsists entirely by grazing microbes from leaf surfaces of native trees. Little is known about the fundamental aspects of these microbe assemblages: not taxonomic composition, how this varies with host plant or location, nor whether snails selectively consume microbes. To address these questions, we collected 102 snail faecal sam...

Globally, most restoration efforts focus on re-creating the physical structure (flora or physical features) of a target ecosystem with the assumption that other ecosystem components will follow. Here we investigate that assumption by documenting biogeographical patterns in an important invertebrate taxon, the parasitoid wasp family Ichneumonidae, in a recently reforested Hawaiian landscape. Spe...

Poaching is rapidly extirpating African forest elephants (Loxodonta cyclotis) from most of their historical range, leaving vast areas of elephant-free tropical forest. Elephants are ecological engineers that create and maintain forest habitat; thus, their loss will have large consequences for the composition and structure of Afrotropical forests. Through a comprehensive literature review, we ev...