Coronaviruses (CoV) emerge suddenly from animal reservoirs to cause novel diseases in new hosts. Discovered in 2012, the Middle East respiratory syndrome coronavirus (MERS-CoV) is endemic in camels in the Middle East and is continually causing local outbreaks and epidemics. While all three newly...

The ability of high-density lipoprotein (HDL) to promote cellular cholesterol efflux is a more robust predictor of cardiovascular disease protection than HDL-cholesterol levels in plasma. Previously, we found that lipidated HDL containing both apolipoprotein A-I (APOA1) and A-II (APOA2) promotes...

Climate change is expected to increase the frequency of hotter and more intense droughts accompanied by aberrant precipitation events. Such extreme environmental shifts can trigger a complex cascade of microbial physiological responses that can impact the microbial community structure and functions...

Please cite as: Graham E.B., and K.S. Hofmockel. 2021. "Ecological stoichiometry as a foundation for omics-enabled biogeochemical models of soil organic matter decomposition." Biogeochemistry 157. doi:10.1007/s10533-021-00851-2 Coupled biogeochemical cycles drive ecosystem ecology by influencing...

Metagenomics is unearthing the previously hidden world of soil viruses. Many soil viral sequences in metagenomes contain putative auxiliary metabolic genes (AMGs) that are not associated with viral replication. Here, we establish that AMGs on soil viruses actually produce functional, active proteins...

Soil viruses are highly abundant and have important roles in the regulation of host dynamics and soil ecology. Climate change is resulting in unprecedented changes to soil ecosystems and the life forms that reside there, including viruses. In this Review, we explore our current understanding of soil...

ABSTRACT Climate change is causing an increase in drought in many soil ecosystems and a loss of soil organic carbon. Calcareous soils may partially mitigate these losses via carbon capture and storage. Here, we aimed to determine how irrigation-supplied soil moisture and perennial plants impact...

Introduction: Understanding how microorganisms within a soil community interact to support collective respiration and growth remains challenging. Here, we used a model substrate, chitin, and a synthetic Model Soil Consortium (MSC-2) to investigate how individual members of a microbial community...

Abstract Microbial response to changing environmental factors influences the fate of soil organic carbon, and drought has been shown to affect microbial metabolism and respiration. We hypothesized that the access of microbes to different carbon pools in response to dry–rewet events occurs...

The soil microbiome’s role in regulating biogeochemical processing is critical to the cycling and storage of soil organic carbon (C). The function of the microbiome under different land management uses has become a focal area of research due to the interest in managing soil C to mitigate climate...

ABSTRACT Fungal mineral weathering regulates the bioavailability of inorganic nutrients from mineral surfaces to organic matter and increase the bioavailable fraction of nutrients. Such weathering strategies are classified as biomechanical or biochemical. In the case of fungal uptake of mineral...

Biogeochemical models for predicting carbon dynamics increasingly include microbial processes, reflecting the importance of microorganisms in regulating the movement of carbon between soils and the atmosphere. Soil viruses can redirect carbon among various chemical pools, indicating a need for...

Primary publication pre-print. Cite as: arXiv:2410.09346 [q-bio.MN]

Citation: Mejia-Rodriguez D, Kim H, Sadler N, Li X, Bohutskyi P, Valiev M, Qian WJ, Cheung MS. PTM-Psi: A python package to facilitate the computational investigation of post-translational modification on protein structures and their impacts on dynamics and functions. Protein Sci. 2023 Dec;32(12)...