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A longstanding goal of biology is to identify the key genes and species that critically impact evolution, ecology, and health. Network analysis has revealed keystone species that regulate ecosystems and master regulators that regulate…

Quantitative Methods · Quantitative Biology 2022-09-14 Holger Eble , Michael Joswig , Lisa Lamberti , Will Ludington

Modern maize breeding relies upon selection in inbreeding populations to improve the performance of cross-population hybrids. The United States Department of Agriculture - Agricultural Research Service reciprocal recurrent selection…

Populations and Evolution · Quantitative Biology 2015-06-29 Justin P. Gerke , Jode W. Edwards , Katherine E. Guill , Jeffrey Ross-Ibarra , Michael D. McMullen

Black Sigatoka disease (BSD), also known as black leaf streak disease, is an airborne fungal infection caused by \textit{Pseudocercospora fijiensis} that severely impacts global banana and plantain production. Its persistence and resistance…

Populations and Evolution · Quantitative Biology 2026-04-30 Bernard Asamoah Afful , Luis F. Gordillo

Genomic and proteomic methods yield networks of biological regulatory interactions but do not provide direct insight into how those interactions are organized into functional modules, or how information flows from one module to another. In…

Molecular Networks · Quantitative Biology 2015-06-11 Yihan Lin , Ying Li , Sean Crosson , Aaron R. Dinner , Norbert F. Scherer

RNA's diversity of structures and functions impacts all life forms since primordia. We use calorimetric force spectroscopy to investigate RNA folding landscapes in previously unexplored low-temperature conditions. We find that Watson-Crick…

Biomolecules · Quantitative Biology 2024-04-30 Paolo Rissone , Aurelien Severino , Isabel Pastor , Felix Ritort

Climate change, increase in world population and the war in Ukraine have led nations such as the UK to put a larger focus on food security, while simultaneously trying to halt declines in biodiversity and reduce risks to human health posed…

Robotics · Computer Science 2023-03-10 Ionut Moraru , Tsvetan Zhivkov , Shaun Coutts , Dom Li , Elizabeth I. Sklar

Human activity is leading to changes in the mean and variability of climatic parameters in most locations around the world. The changing mean has received considerable attention from scientists and climate policy makers. However, recent…

Populations and Evolution · Quantitative Biology 2023-06-16 Hassan Alkhayuon , Jessa Marley , Sebastian Wieczorek , Rebecca C. Tyson

The purpose of this paper is to present a model of a phenomenon of plant stem morphogenesis observed by Cesar Gomez-Campo in 1970. We consider a simplified model of auxin dynamics in plant stems, showing that, after creation of the original…

Quantitative Methods · Quantitative Biology 2021-12-13 Larry Harper , Greg Huey

Atomic substitution provides a controlled route to engineer lattice dynamics in low-symmetry two-dimensional materials. Here, by combining polarization-resolved Raman spectroscopy and first-principles calculations, we investigate the…

We report on the observation of a change in the bend angle of an RNA kissing complex upon Rop binding using single-molecular-pair FRET. The angular relationship between the dyes, rather than the distance between them, is shown to be…

Biological Physics · Physics 2017-08-23 Sheema Rahmanseresht , Peker Milas , Ben D. Gamari , Lori S. Goldner

Gene duplication is believed to play a major role in the evolution of genomic complexity. The presence of a duplicate removes the constraint of natural selection upon the gene, leading to its likely loss of function or, occasionally, the…

Molecular Networks · Quantitative Biology 2015-05-06 Srinandan Dasmahapatra

In this perspective article, a clinically inspired phenotype-driven experimental approach is put forward to address the challenge of the adaptive response of solid cancers to small-molecule targeted therapies. A list of conditions is…

Tissues and Organs · Quantitative Biology 2023-06-22 Rastine Merat

Current models of animal evolution focus on selection of individuals, ignoring the much faster selection of symbiotic bacteria. Here we take host-symbiont interactions into account by introducing a Population Genetics-like model of…

Populations and Evolution · Quantitative Biology 2016-12-28 Dino Osmanovic , David A Kessler , Yitzhak Rabin , Yoav Soen

Bacterial chemotaxis systems are as diverse as the environments that bacteria inhabit, but how much environmental variation can cells tolerate with a single system? Diversification of a single chemotaxis system could serve as an…

Populations and Evolution · Quantitative Biology 2015-11-30 Nicholas W Frankel , William Pontius , Yann S Dufour , Junjiajia Long , Luis Hernandez- Nunez , Thierry Emonet

The first in situ quantitative synchrotron X-ray diffraction (XRD) study of plastic strain-induced phase transformation (PT) has been performed on $\alpha-\omega$ PT in ultra-pure, strongly plastically predeformed Zr as an example, under…

Materials Science · Physics 2020-02-12 K. K. Pandey , Valery I. Levitas

Plants are dynamic systems that are integral to our existence and survival. Plants face environment changes and adapt over time to their surrounding conditions. We argue that plant responses to an environmental stimulus are a good example…

Machine Learning · Computer Science 2021-10-19 Yasmeen Hitti , Ionelia Buzatu , Manuel Del Verme , Mark Lefsrud , Florian Golemo , Audrey Durand

The study of how photosynthetic organisms convert light offers insight not only into nature's evolutionary process, but may also give clues as to how best to design and manipulate artificial photosynthetic systems -- and also how far we can…

Soft Condensed Matter · Physics 2011-07-07 Felipe Caycedo-Soler , Ferney J. Rodriguez , Luis Quiroga , Guannan Zhao , Neil F. Johnson

We seek models for the genotype evolution of agricultural animals, animals involved in primary production processes. Classical models for genotype evolution have tended to be very simple in order that analytic methods may be employed in…

Quantitative Methods · Quantitative Biology 2017-12-15 Vladimir Obolonkin , Anatoly Zherelo , George Krylov , Murray Jorgensen , Richard Spelman

The application of nonthermal plasma in agriculture has emerged as a sustainable and eco-friendly method to enhance seed vigor, germination, and crop productivity. This study investigates the effects of atmospheric pressure plasma treatment…

Plasma Physics · Physics 2026-01-22 Punit Kumar , Abhishek Kumar Singh , Priti Saxena

Rubisco, probably the most abundant protein in the biosphere, performs an essential part in the process of carbon fixation through photosynthesis thus facilitating life on earth. Despite the significant effect that Rubisco has on the…

Biomolecules · Quantitative Biology 2010-07-27 Yonatan Savir , Elad Noor , Ron Milo , Tsvi Tlusty