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Persistent legacy effects on soil microbiota facilitate plant adaptive responses to drought

https://doi.org/10.1101/2024.08.26.609769
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What this work says

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

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BEDTools: The Swiss‐Army Tool for Genome Feature Analysis
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ESTIMATING SOIL HYDRAULIC PROPERTIES FROM LIMITED DATA TO IMPROVE IRRIGATION MANAGEMENT IN AGRICULTURAL SOILS OF SANTIAGO ISLAND, CAPE VERDE
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Multivariate Analysis of Ecological Data with ade4
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Data Analysis
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Rooting depth and water use efficiency of tropical maize inbred lines, differing in drought tolerance
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Drought stress homogenizes maize growth responses to diverse natural soil microbiomes
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Microbiome data science
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The Hmisc and rms Packages
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Shifts in microbial communities and networks are correlated with the soil ionome in a kiwifruit orchard under different fertilization regimes
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Chemical weathering of soil minerals and the role of biological processes
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Aldehyde dehydrogenases in cellular responses to oxidative/electrophilicstress
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Bacterial lipids: Metabolism and membrane homeostasis
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Plant–soil feedback under drought: does history shape the future?
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Effects of rainfall on weathering rate, base cation provenance, and Sr isotope composition of Hawaiian soils
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Drought and host selection influence bacterial community dynamics in the grass root microbiome
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Xerotolerant bacteria: surviving through a dry spell
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Ecological memory of recurrent drought modifies soil processes via changes in soil microbial community
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Metallic micronutrients are associated with the structure and function of the soil microbiome
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metaFlye: scalable long-read metagenome assembly using repeat graphs
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Sensitive protein alignments at tree-of-life scale using DIAMOND
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Mapping the key residues of SufB and SufD essential for biosynthesis of iron-sulfur clusters
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Estimation of the soil hydraulic properties from field data by solving an inverse problem
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Effect of rain on the macroporosity at the soil surface
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Rapid responses of soil microorganisms improve plant fitness in novel environments
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Successive passaging of a plant-associated microbiome reveals robust habitat and host genotype-dependent selection
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Adaptive differentiation and rapid evolution of a soil bacterium along a climate gradient
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A new soil test for simultaneous extraction of macro‐ and micro‐nutrients in alkaline soils
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Overexpression of Nicotianamine Synthase (NAS) Gene Results in Enhanced Drought Tolerance in Perennial Ryegrass
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HISAT2 Parallelization Method Based on Spark Cluster
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RhizoVision Explorer: open-source software for root image analysis and measurement standardization
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The Sequence Alignment/Map format and SAMtools
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The variant call format and VCFtools
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SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
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featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
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NanoPack: visualizing and processing long-read sequencing data
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Minimap2: pairwise alignment for nucleotide sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btz715openalex-snapshot
Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification
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Twelve years of SAMtools and BCFtools
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Local inhibition of nitrogen fixation and nodule metabolism in drought-stressed soybean
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Reduced crown root number improves water acquisition under water deficit stress in maize ( Zea mays L.)
inferredcites →https://doi.org/10.1093/jxb/erx439openalex-snapshot
Root type matters: measurement of water uptake by seminal, crown, and lateral roots in maize
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eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale
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Ribosomal Database Project: data and tools for high throughput rRNA analysis
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MaizeGDB 2018: the maize multi-genome genetics and genomics database
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eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
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UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy
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Aquaporins Constitute a Large and Highly Divergent Protein Family in Maize
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Root cortical aerenchyma improves the drought tolerance of maize ( Zea mays L.)
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hierfstat , a package for r to compute and test hierarchical F ‐statistics
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The rice Os NAC 6 transcription factor orchestrates multiple molecular mechanisms involving root structural adaptions and nicotianamine biosynthesis for drought tolerance
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Improving plant drought tolerance and growth under water limitation through combinatorial engineering of signalling networks
inferredcites →https://doi.org/10.1111/tpj.15568openalex-snapshot
Sculpting the soil microbiota
inferredcites →https://doi.org/10.1126/science.aaa8764openalex-snapshot
Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa
inferredcites →https://doi.org/10.1126/science.abb7222openalex-snapshot
Experimental evolution makes microbes more cooperative with their local host genotype
inferredcites →https://doi.org/10.1126/science.abg5289openalex-snapshot
De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes
inferredcites →https://doi.org/10.1128/aem.00774-09openalex-snapshot
Inactivation of PadR, the Repressor of the Phenolic Acid Stress Response, by Molecular Interaction with Usp1, a Universal Stress Protein fromLactobacillus plantarum, inEscherichia coli
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Fatty Acids Regulate Stress Resistance and Virulence Factor Production for Listeria monocytogenes
inferredcites →https://doi.org/10.1146/annurev-ecolsys-110617-062614openalex-snapshot
Life in Dry Soils: Effects of Drought on Soil Microbial Communities and Processes
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Reactive Oxygen Species, Oxidative Damage, and Antioxidative Defense Mechanism in Plants under Stressful Conditions
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FragGeneScanRs: faster gene prediction for short reads
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Gene expression associated with white syndromes in a reef building coral, Acropora hyacinthus
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A pan-genomic approach to genome databases using maize as a model system
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
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Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT
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OrthoFinder: phylogenetic orthology inference for comparative genomics
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Improved metagenomic analysis with Kraken 2
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Second-generation PLINK: rising to the challenge of larger and richer datasets
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Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences
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Trehalose and α-glucan mediate distinct abiotic stress responses in Pseudomonas aeruginosa
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phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
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BayesGmed: An R-package for Bayesian causal mediation analysis
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Cutadapt removes adapter sequences from high-throughput sequencing reads
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Starting a MinION sequencing run using MinKNOW v1
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qgraph : Network Visualizations of Relationships in Psychometric Data
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Fitting Linear Mixed-Effects Models Using lme4
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MICROBIAL STRESS-RESPONSE PHYSIOLOGY AND ITS IMPLICATIONS FOR ECOSYSTEM FUNCTION
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Eastern Gamagrass and Other Tripsacum Species
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CMplot: Circle Manhattan Plot
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Minor revision to V4 region SSU rRNA 806R gene primer greatly increases detection of SAR11 bacterioplankton
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Drought Stress and Root-Associated Bacterial Communities
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MaizeMine: A Data Mining Warehouse for the Maize Genetics and Genomics Database
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General aspects of the climate in the Cabo verde archipelago
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Agricolae - Ten years of an open source statistical tool for experiments in breeding, agriculture and biology
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Bracken: estimating species abundance in metagenomics data
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Poppr : an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction

What points at this work

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

inferred← citeshttps://doi.org/10.1016/j.rhisph.2025.101120openalex-snapshot
Intraspecific plant-soil feedbacks alter root traits in a perennial grass
inferred← citeshttps://doi.org/10.1101/2025.04.12.648431openalex-snapshot
Plant host identity drives Andropogon gerardii rhizobiome assembly strategies under increasing abiotic stress
inferred← citeshttps://doi.org/10.1111/gcb.70678openalex-snapshot
Resilience and Adaptation in Desert Ecosystems: Unveiling Microbial Legacies and Plant Functional Trait Coordination Under Climate Change
inferred← citeshttps://doi.org/10.1128/spectrum.02832-25openalex-snapshot
Plant influence shapes Andropogon gerardii rhizobiome assembly strategies in response to decreasing precipitation
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