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Study of Oak Ridge soils using BONCAT-FACS-Seq reveals that a large fraction of the soil microbiome is active

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/ece3.1497openalex-snapshot

Toward accurate molecular identification of species in complex environmental samples: testing the performance of sequence filtering and clustering methods

inferredcites →https://doi.org/10.1002/mbo3.230openalex-snapshot

Characterizing the diversity of active bacteria in soil by comprehensive stable isotope probing of DNA and RNA with H218O

inferredcites →https://doi.org/10.1016/0038-0717(78)90100-1openalex-snapshot

Criteria for measurement of microbial growth and activity in soil

inferredcites →https://doi.org/10.1016/0378-1097(93)90600-7openalex-snapshot

Dormancy in non-sporulating bacteria

inferredcites →https://doi.org/10.1016/0378-1097(94)90038-8openalex-snapshot

Estimation of dormant Micrococcus luteus cells by penicillin lysis and by resuscitation in cell-free spent culture medium at high dilution

inferredcites →https://doi.org/10.1016/0966-842x(96)10035-4openalex-snapshot

Do bacteria need to communicate with each other for growth?

inferredcites →https://doi.org/10.1016/j.geoderma.2018.03.003openalex-snapshot

Quantifying biogeochemical heterogeneity in soil systems

inferredcites →https://doi.org/10.1016/j.rhisph.2017.04.016openalex-snapshot

Using stable isotopes to explore root-microbe-mineral interactions in soil

inferredcites →https://doi.org/10.1016/j.soilbio.2006.01.030openalex-snapshot

The temperature dependence of organic-matter decomposition—still a topic of debate

inferredcites →https://doi.org/10.1016/j.soilbio.2009.10.025openalex-snapshot

Biological crusts as a model system for examining the biodiversity–ecosystem function relationship in soils

inferredcites →https://doi.org/10.1016/j.soilbio.2013.08.024openalex-snapshot

Active microorganisms in soil: Critical review of estimation criteria and approaches

inferredcites →https://doi.org/10.1016/j.soilbio.2015.01.025openalex-snapshot

Microbial hotspots and hot moments in soil: Concept & review

inferredcites →https://doi.org/10.1016/s0168-6496(03)00027-8openalex-snapshot

Spatial distribution of bacterial communities and their relationships with the micro-architecture of soil

inferredcites →https://doi.org/10.1016/s0168-6496(98)00031-2openalex-snapshot

Biased 16S rDNA PCR amplification caused by interference from DNA flanking the template region

inferredcites →https://doi.org/10.1016/s1369-5274(02)00324-7openalex-snapshot

Microbial diversity and function in soil: from genes to ecosystems

inferredcites →https://doi.org/10.1038/4571083aopenalex-snapshot

Microbial awakenings

inferredcites →https://doi.org/10.1038/ismej.2011.119openalex-snapshot

Using network analysis to explore co-occurrence patterns in soil microbial communities

inferredcites →https://doi.org/10.1038/ismej.2017.59openalex-snapshot

Capturing the genetic makeup of the active microbiome in situ

inferredcites →https://doi.org/10.1038/nature13855openalex-snapshot

Belowground biodiversity and ecosystem functioning

inferredcites →https://doi.org/10.1038/nature25014openalex-snapshot

Atmospheric trace gases support primary production in Antarctic desert surface soil

inferredcites →https://doi.org/10.1038/nmeth.3869openalex-snapshot

DADA2: High-resolution sample inference from Illumina amplicon data

inferredcites →https://doi.org/10.1038/nmeth.f.303openalex-snapshot

QIIME allows analysis of high-throughput community sequencing data

inferredcites →https://doi.org/10.1038/nmicrobiol.2016.195openalex-snapshot

Chemosynthetic symbionts of marine invertebrate animals are capable of nitrogen fixation

inferredcites →https://doi.org/10.1038/nmicrobiol.2016.242openalex-snapshot

Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

inferredcites →https://doi.org/10.1038/nmicrobiol.2016.48openalex-snapshot

A new view of the tree of life

inferredcites →https://doi.org/10.1038/nmicrobiol.2017.105openalex-snapshot

The importance of anabolism in microbial control over soil carbon storage

inferredcites →https://doi.org/10.1038/nprot.2007.109openalex-snapshot

DNA stable-isotope probing

inferredcites →https://doi.org/10.1038/nrmicro.2017.87openalex-snapshot

Embracing the unknown: disentangling the complexities of the soil microbiome

inferredcites →https://doi.org/10.1038/s41564-017-0062-xopenalex-snapshot

Detecting macroecological patterns in bacterial communities across independent studies of global soils

inferredcites →https://doi.org/10.1038/s41564-017-0080-8openalex-snapshot

Ephrin receptor A2 is an epithelial cell receptor for Epstein–Barr virus entry

inferredcites →https://doi.org/10.1038/s41586-018-0358-xopenalex-snapshot

Globally rising soil heterotrophic respiration over recent decades

inferredcites →https://doi.org/10.1073/pnas.0507535103openalex-snapshot

The diversity and biogeography of soil bacterial communities

inferredcites →https://doi.org/10.1073/pnas.0601637103openalex-snapshot

Selective identification of newly synthesized proteins in mammalian cells using bioorthogonal noncanonical amino acid tagging (BONCAT)

inferredcites →https://doi.org/10.1073/pnas.0912765107openalex-snapshot

Dormancy contributes to the maintenance of microbial diversity

inferredcites →https://doi.org/10.1073/pnas.1204306109openalex-snapshot

Rainfall-induced carbon dioxide pulses result from sequential resuscitation of phylogenetically clustered microbial groups

inferredcites →https://doi.org/10.1073/pnas.1603757113openalex-snapshot

Visualizing in situ translational activity for identifying and sorting slow-growing archaeal−bacterial consortia

inferredcites →https://doi.org/10.1073/pnas.95.15.8916openalex-snapshot

A bacterial cytokine

inferredcites →https://doi.org/10.1104/pp.16.01762openalex-snapshot

Bioorthogonal Noncanonical Amino Acid Tagging (BONCAT) Enables Time-Resolved Analysis of Protein Synthesis in Native Plant Tissue

inferredcites →https://doi.org/10.1111/1462-2920.12413openalex-snapshot

Microbial ecology of chlorinated solvent biodegradation

inferredcites →https://doi.org/10.1111/1462-2920.12436openalex-snapshot

In situ visualization of newly synthesized proteins in environmental microbes using amino acid tagging and click chemistry

inferredcites →https://doi.org/10.1111/1574-6968.12244openalex-snapshot

Identification of active oxalotrophic bacteria by Bromodeoxyuridine DNA labeling in a microcosm soil experiments

inferredcites →https://doi.org/10.1111/1574-6976.12023openalex-snapshot

Micro-scale determinants of bacterial diversity in soil

inferredcites →https://doi.org/10.1111/gcb.12565openalex-snapshot

Predicting the responsiveness of soil biodiversity to deforestation: a cross‐biome study

inferredcites →https://doi.org/10.1111/geb.12070openalex-snapshot

Global drivers and patterns of microbial abundance in soil

inferredcites →https://doi.org/10.1126/science.aap9516openalex-snapshot

A global atlas of the dominant bacteria found in soil

inferredcites →https://doi.org/10.1128/aem.67.5.2354-2359.2001openalex-snapshot

DNA Extraction from Soils: Old Bias for New Microbial Diversity Analysis Methods

inferredcites →https://doi.org/10.1128/aem.69.10.6208-6215.2003openalex-snapshot

Use of Bromodeoxyuridine Immunocapture To Identify Active Bacteria Associated with Arbuscular Mycorrhizal Hyphae

inferredcites →https://doi.org/10.1128/mbio.01157-14openalex-snapshot

Multisubstrate Isotope Labeling and Metagenomic Analysis of Active Soil Bacterial Communities

inferredcites →https://doi.org/10.1371/journal.pcbi.0020092openalex-snapshot

Toward a Census of Bacteria in Soil

inferredcites →https://doi.org/10.1371/journal.pone.0087217openalex-snapshot

Spatial Ecology of Bacteria at the Microscale in Soil

inferredcites →https://doi.org/10.1890/05-1839openalex-snapshot

TOWARD AN ECOLOGICAL CLASSIFICATION OF SOIL BACTERIA

inferredcites →https://doi.org/10.3389/fmicb.2012.00096openalex-snapshot

Redox Transformations of Iron at Extremely Low pH: Fundamental and Applied Aspects

inferredcites →https://doi.org/10.3389/fmicb.2012.00348openalex-snapshot

Microbial control over carbon cycling in soil

inferredcites →https://doi.org/10.3389/fmicb.2018.01929openalex-snapshot

Emergent Properties of Microbial Activity in Heterogeneous Soil Microenvironments: Different Research Approaches Are Slowly Converging, Yet Major Challenges Remain

inferredcites →https://doi.org/10.3390/metabo5030431openalex-snapshot

Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases

inferredcites →https://doi.org/10.3391/mbi.2014.5.1.01openalex-snapshot

Tackling Invasive Alien Species in Europe: the top 20 issues

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1021/acs.est.0c03315openalex-snapshot

Gene-Centric Model Approaches for Accurate Prediction of Pesticide Biodegradation in Soils

inferred← citeshttps://doi.org/10.1038/s41467-020-16163-2openalex-snapshot

Bioorthogonal non-canonical amino acid tagging reveals translationally active subpopulations of the cystic fibrosis lung microbiota

inferred← citeshttps://doi.org/10.1101/392852openalex-snapshot

Randomized lasso associates freshwater lake-system specific bacterial taxa with heterotrophic production through flow cytometry

inferred← citeshttps://doi.org/10.2134/ael2019.08.0032openalex-snapshot

Innovative Technologies Can Improve Understanding of Microbial Nitrogen Dynamics in Agricultural Soils

inferred← citeshttps://doi.org/10.7287/peerj.6902v0.1/reviews/1openalex-snapshot

Peer Review #1 of "Optimizing de novo genome assembly from PCR-amplified metagenomes (v0.1)"

inferred← citeshttps://doi.org/10.7287/peerj.6902v0.1/reviews/2openalex-snapshot

Peer Review #2 of "Optimizing de novo genome assembly from PCR-amplified metagenomes (v0.1)"

inferred← citeshttps://doi.org/10.7287/peerj.6902v0.1/reviews/3openalex-snapshot

Peer Review #3 of "Optimizing de novo genome assembly from PCR-amplified metagenomes (v0.1)"

inferred← citeshttps://doi.org/10.7287/peerj.6902v0.2/reviews/2openalex-snapshot

Peer Review #2 of "Optimizing de novo genome assembly from PCR-amplified metagenomes (v0.2)"

inferred← citeshttps://doi.org/10.7717/peerj.6902openalex-snapshot

Optimizing de novo genome assembly from PCR-amplified metagenomes

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.