Results 11 to 20 of about 2,160,464 (190)

Flow-through stable isotope probing (Flow-SIP) minimizes cross-feeding in complex microbial communities [PDF]

The ISME Journal, 2020
Abstract Stable isotope probing (SIP) is a key tool for identifying the microorganisms catalyzing the turnover of specific substrates in the environment and to quantify their relative contributions to biogeochemical processes. However, SIP-based studies are subject to the uncertainties posed by cross-feeding, where microorganisms release
Maria Mooshammer, Katharina Kitzinger, Arno Schintlmeister, Soeren Ahmerkamp, Jeppe Lund Nielsen, Per Halkjær Nielsen, Michael Wagner   +6 more
openaire   +7 more sources

Stable isotope switching (SIS): a new stable isotope probing (SIP) approach to determine carbon flow in the soil food web and dynamics in organic matter pools [PDF]

Rapid Communications in Mass Spectrometry, 2012
RATIONALE Recent advances in stable isotope probing (SIP) have allowed direct linkage of microbial population structure and function. This paper details a new development of SIP, Stable Isotope Switching (SIS), which allows the simultaneous assessment of carbon (C) uptake, turnover and decay, and the elucidation
Maxfield, Peter J, Dildar, Nadia, Hornibrook, Edward R C, Stott, AW, Evershed, Richard P   +4 more
openaire   +6 more sources

HT-SIP: a semi-automated stable isotope probing pipeline identifies cross-kingdom interactions in the hyphosphere of arbuscular mycorrhizal fungi

Microbiome, 2022
Background Linking the identity of wild microbes with their ecophysiological traits and environmental functions is a key ambition for microbial ecologists.
Erin E. Nuccio, Steven J. Blazewicz, Marissa Lafler, Ashley N. Campbell, Anne Kakouridis, Jeffrey A. Kimbrel, Jessica Wollard, Dariia Vyshenska, Robert Riley, Andy Tomatsu, Rachel Hestrin, Rex R. Malmstrom, Mary Firestone, Jennifer Pett-Ridge   +13 more
doaj   +4 more sources

DNA Stable-Isotope Probing (DNA-SIP) [PDF]

Journal of Visualized Experiments, 2010
DNA stable-isotope probing (DNA-SIP) is a powerful technique for identifying active microorganisms that assimilate particular carbon substrates and nutrients into cellular biomass. As such, this cultivation-independent technique has been an important methodology for assigning metabolic function to the diverse communities inhabiting a wide range of ...
Eric A, Dunford, Josh D, Neufeld
openaire   +2 more sources

Bioelectrochemically enhanced degradation of bisphenol S: mechanistic insights from stable isotope-assisted investigations

iScience, 2021
Summary: Electroactive microbes is the driving force for the bioelectrochemical degradation of organic pollutants, but the underlying microbial interactions between electrogenesis and pollutant degradation have not been clearly identified.
Rui Hou, Lin Gan, Fengyi Guan, Yi Wang, Jibing Li, Shungui Zhou, Yong Yuan   +6 more
doaj   +1 more source

Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes

Microbiome, 2023
Background Stable isotope probing (SIP) approaches are a critical tool in microbiome research to determine associations between species and substrates, as well as the activity of species. The application of these approaches ranges from studying microbial
Manuel Kleiner, Angela Kouris, Marlene Violette, Grace D’Angelo, Yihua Liu, Abigail Korenek, Nikola Tolić, Timo Sachsenberg, Janine McCalder, Mary S. Lipton, Marc Strous   +10 more
doaj   +1 more source

High-Resolution Community Profiling of Active Bacteria and Eukaryotes in Replant-Diseased Blueberry Farm Soils From New Jersey, USA. [PDF]

Environ Microbiol
Long read bacterial and eukaryotic ribosomal operon sequencing combined with stable isotope probing (SIP) allowed the differentiation of microbiomes in low‐ and high‐yield blueberry farm soils. This report may ultimately be used to improve productivity and potentially detect the responsible pathogenic agent(s) or other deleterious microbes.
Mirzoyan S, Polashock JJ, Kerkhof LJ.
europepmc   +2 more sources

Application of stable isotope probing (DNA-SIP) in the identification of cellulolytic soil bacteria and fungi

, 2010
Cellulose is the most abundant organic polymer on the earth, and represents a huge source of energy for microorganisms. The ability to degrade cellulose is widespread among fungi and bacteria and can take place under aerobic and anaerobic conditions.
Haichar, Feth El Zahar, Achouak, Wafa
openaire   +2 more sources

DNA ‐stable isotope probing (DNA‐SIP) identifies marine sponge‐associated bacteria actively utilizing dissolved organic matter (DOM) [PDF]

Environmental Microbiology, 2021
Summary Sponges possess exceptionally diverse associated microbial communities and play a major role in (re)cycling of dissolved organic matter (DOM) in marine ecosystems. Linking sponge‐associated community structure with DOM utilization is essential to understand host–microbe interactions in the uptake ...
Campana, Sara, Busch, Kathrin, Hentschel, Ute, Muyzer, Gerard, de Goeij, Jasper M.   +4 more
openaire   +3 more sources

Simulating metagenomic stable isotope probing datasets with MetaSIPSim

BMC Bioinformatics, 2020
Background DNA-stable isotope probing (DNA-SIP) links microorganisms to their in-situ function in diverse environmental samples. Combining DNA-SIP and metagenomics (metagenomic-SIP) allows us to link genomes from complex communities to their specific ...
Samuel E. Barnett, Daniel H. Buckley
doaj   +1 more source