Assessment of bacterial viability: a comprehensive review on recent advances and challenges

SS Kumar, AR Ghosh - Microbiology, 2019 - microbiologyresearch.org
Assessing bacterial contamination in environmental samples is critical in determining threats
to public health. The classical methods are time-consuming and only recognize species that …

[HTML][HTML] Resolving metabolic interaction mechanisms in plant microbiomes

AR Pacheco, JA Vorholt - Current Opinion in Microbiology, 2023 - Elsevier
Metabolic interactions are fundamental to the assembly and functioning of microbiomes,
including those of plants. However, disentangling the molecular basis of these interactions …

Probing the active fraction of soil microbiomes using BONCAT-FACS

E Couradeau, J Sasse, D Goudeau, N Nath… - Nature …, 2019 - nature.com
The ability to link soil microbial diversity to soil processes requires technologies that
differentiate active microbes from extracellular DNA and dormant cells. Here, we use …

Resource partitioning and amino acid assimilation in a terrestrial geothermal spring

D Lai, BP Hedlund, RL Mau, JY Jiao, J Li… - The ISME …, 2023 - academic.oup.com
High-temperature geothermal springs host simplified microbial communities; however, the
activities of individual microorganisms and their roles in the carbon cycle in nature are not …

DNA-SIP identification of phenanthrene-degrading bacteria undergoing bioaugmentation and natural attenuation in petroleum-contaminated soil

J Liang, S Gao, Z Wu, HHM Rijnaarts, T Grotenhuis - Chemosphere, 2021 - Elsevier
DNA-stable isotope probing (SIP) with 13 C labeled phenanthrene (PHE) as substrate was
used to identify specific bacterial degraders during natural attenuation (NA) and …

Combined maize straw-biochar and oxalic acids induced a relay activity of abundant specific degraders for efficient phenanthrene degradation: Evidence based on …

X Li, S Yao, N Bolan, Z Wang, X Jiang, Y Song - Environmental Pollution, 2022 - Elsevier
Biochar-oxalic acid composite application (BCOA) have shown to be efficient in the
remediation of polycyclic aromatic hydrocarbon (PAH)-contaminated soil, but the functional …

Resource legacies of organic and conventional management differentiate soil microbial carbon use

MM Arcand, DJ Levy-Booth, BL Helgason - Frontiers in microbiology, 2017 - frontiersin.org
Long-term contrasts in agricultural management can shift soil resource availability with
potential consequences to microbial carbon (C) use efficiency (CUE) and the fate of C in …

Novel bacteria capable of degrading phenanthrene in activated sludge revealed by stable-isotope probing coupled with high-throughput sequencing

J Li, D Zhang, M Song, L Jiang, Y Wang, C Luo… - Biodegradation, 2017 - Springer
The indigenous microorganisms responsible for degrading phenanthrene (PHE) in activated
biosludge were identified using DNA-based stable isotope probing. Besides the well-known …

Functional genome-centric view of the CO-driven anaerobic microbiome

H Duan, P He, L Shao, F Lü - The ISME Journal, 2021 - academic.oup.com
CO is a promising substrate for producing biochemicals and biofuels through mixed
microbial cultures, where carboxydotrophs play a crucial role. The previous investigations of …

[HTML][HTML] Effect of glucose on the soil bacterial diversity and function in the rhizosphere of Cerasus sachalinensis

W Zhou, X Qin, D Lyu, S Qin - Horticultural Plant Journal, 2021 - Elsevier
Most cherry orchards in China have low organic carbon content, though carbon is very
important for plant growth. The changes in soil carbon and bacterial diversity were …