Scicode: A research coding benchmark curated by scientists

M Tian, L Gao, SD Zhang, X Chen, C Fan… - arXiv preprint arXiv …, 2024 - arxiv.org
Since language models (LMs) now outperform average humans on many challenging tasks,
it has become increasingly difficult to develop challenging, high-quality, and realistic …

Genetic basis for the biodegradation of a polyether-polyurethane-acrylic copolymer by a landfill microbial community inferred by metagenomic deconvolution analysis

A Sánchez-Reyes, I Gaytán, J Pulido-García… - Science of The Total …, 2023 - Elsevier
Plastic accumulation in the world amounts to approximately 8300 million tons.
Polyurethanes (PU) account for 7.7% of total plastics production worldwide, and their …

Chemodiversity controls microbial assimilation of soil organic carbon: A theoretical model

JR Weverka, HV Moeller, JP Schimel - Soil Biology and Biochemistry, 2023 - Elsevier
Modeling soil organic carbon is crucial for predicting ecosystem feedbacks to global change.
Soil C models typically divide organic C into pools with different turnover rates, even though …

Fine-scale diversity of microbial communities due to satellite niches in boom and bust environments

Y Fridman, Z Wang, S Maslov… - PLoS computational …, 2022 - journals.plos.org
Recent observations have revealed that closely related strains of the same microbial
species can stably coexist in natural and laboratory settings subject to boom and bust …

Controlling microbial co-culture based on substrate pulsing can lead to stability through differential fitness advantages

JA Martinez, M Delvenne, L Henrion… - PLOS Computational …, 2022 - journals.plos.org
Microbial consortia are an exciting alternative for increasing the performances of
bioprocesses for the production of complex metabolic products. However, the functional …

The architecture of metabolic networks constrains the evolution of microbial resource hierarchies

S Takano, JCC Vila, R Miyazaki… - … Biology and Evolution, 2023 - academic.oup.com
Microbial strategies for resource use are an essential determinant of their fitness in complex
habitats. When facing environments with multiple nutrients, microbes often use them …

Diauxic lags explain unexpected coexistence in multi‐resource environments

B Bloxham, H Lee, J Gore - Molecular Systems Biology, 2022 - embopress.org
How the coexistence of species is affected by the presence of multiple resources is a major
question in microbial ecology. We experimentally demonstrate that differences in diauxic …

[HTML][HTML] Sustainable diversity of phage-bacteria systems

N Mitarai, A Marantos, K Sneppen - Current Opinion in Systems Biology, 2023 - Elsevier
Bacteriophages are central to microbial ecosystems for balancing bacterial populations and
promoting evolution by applying strong selection pressure. Here, we review some of the …

Biodiversity is enhanced by sequential resource utilization and environmental fluctuations via emergent temporal niches

B Bloxham, H Lee, J Gore - PLOS Computational Biology, 2024 - journals.plos.org
How natural communities maintain their remarkable biodiversity and which species survive
in complex communities are central questions in ecology. Resource competition models …

[图书][B] Cognition-based evolution: Natural cellular engineering and the intelligent cell

WB Miller - 2023 - taylorfrancis.com
Cognition-Based Evolution is the first comprehensive alternative to 20th-century
Neodarwinism, proposing a radical 21st-century evolutionary framework with a novel point …