Life and death in the soil microbiome: how ecological processes influence biogeochemistry

NW Sokol, E Slessarev, GL Marschmann… - Nature Reviews …, 2022 - nature.com
Soil microorganisms shape global element cycles in life and death. Living soil
microorganisms are a major engine of terrestrial biogeochemistry, driving the turnover of soil …

Microbial production of advanced biofuels

J Keasling, H Garcia Martin, TS Lee… - Nature Reviews …, 2021 - nature.com
Concerns over climate change have necessitated a rethinking of our transportation
infrastructure. One possible alternative to carbon-polluting fossil fuels is biofuels produced …

Sourcing thermotolerant poly (ethylene terephthalate) hydrolase scaffolds from natural diversity

E Erickson, JE Gado, L Avilán, F Bratti… - Nature …, 2022 - nature.com
Enzymatic deconstruction of poly (ethylene terephthalate)(PET) is under intense
investigation, given the ability of hydrolase enzymes to depolymerize PET to its constituent …

A review of earth artificial intelligence

Z Sun, L Sandoval, R Crystal-Ornelas… - Computers & …, 2022 - Elsevier
In recent years, Earth system sciences are urgently calling for innovation on improving
accuracy, enhancing model intelligence level, scaling up operation, and reducing costs in …

Machine learning-enabled retrobiosynthesis of molecules

T Yu, AG Boob, MJ Volk, X Liu, H Cui, H Zhao - Nature Catalysis, 2023 - nature.com
Retrobiosynthesis provides an effective and sustainable approach to producing functional
molecules. The past few decades have witnessed a rapid expansion of biosynthetic …

BacDive in 2022: the knowledge base for standardized bacterial and archaeal data

LC Reimer, J Sardà Carbasse, J Koblitz… - Nucleic Acids …, 2022 - academic.oup.com
Abstract The bacterial metadatabase Bac Dive (https://bacdive. dsmz. de) has developed
into a leading database for standardized prokaryotic data on strain level. With its current …

Machine learning in bioprocess development: from promise to practice

LM Helleckes, J Hemmerich, W Wiechert… - Trends in …, 2023 - cell.com
Fostered by novel analytical techniques, digitalization, and automation, modern bioprocess
development provides large amounts of heterogeneous experimental data, containing …

Mesophilic and thermophilic viruses are associated with nutrient cycling during hyperthermophilic composting

H Liao, C Liu, C Ai, T Gao, QE Yang, Z Yu… - The ISME …, 2023 - academic.oup.com
While decomposition of organic matter by bacteria plays a major role in nutrient cycling in
terrestrial ecosystems, the significance of viruses remains poorly understood. Here we …

A general temperature-guided language model to design proteins of enhanced stability and activity

F Jiang, M Li, J Dong, Y Yu, X Sun, B Wu, J Huang… - Science …, 2024 - science.org
Designing protein mutants with both high stability and activity is a critical yet challenging
task in protein engineering. Here, we introduce PRIME, a deep learning model, which can …

Machine learning applications in systems metabolic engineering

GB Kim, WJ Kim, HU Kim, SY Lee - Current opinion in biotechnology, 2020 - Elsevier
Highlights•Application of machine learning in biotechnology is becoming essential.•Machine
learning is increasingly applied to advance systems metabolic engineering.•Machine …