ArticleProceedings of the National Academy of Sciences of the United States of America2018
Two-way mixed-effects methods for joint association analysis using both host and pathogen genomes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
33 citing papers in PubMed, 71 citations in OpenAlex.
- The Genetics of Plant-Plant Interactions and Their Cascading Effects on Agroecosystems-from Model Plants to Applications.Plant & cell physiology · 2025Review
- Building microbial synthetic communities: get inspired by the design of synthetic plant communities.The New phytologist · 2025Article
- Using genome-wide associations and host-by-pathogen predictions to identify allelic interactions that control disease resistance.The plant genome · 2025Article
- Inference of Host-Pathogen Interaction Matrices from Genome-Wide Polymorphism Data.Molecular biology and evolution · 2024Article
- Toward Ecologically Relevant Genetics of Interactions Between Host Plants and Plant Growth-Promoting Bacteria.Advanced genetics (Hoboken, N.J.) · 2024Article
- Prediction of resistance, virulence, and host-by-pathogen interactions using dual-genome prediction models.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Intergenomic signatures of coevolution between Tasmanian devils and an infectious cancer.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Population Genomic Evidence for a Repeated Introduction and Rapid Expansion of the Fungal Maize Pathogen Setosphaeria turcica in Europe.Genome biology and evolution · 2023Article
- Uncovering the Genomic Basis of Infection Through Co-genomic Sequencing of Hosts and Parasites.Molecular biology and evolution · 2023Article
- Evolutionary implications of host genetic control for engineering beneficial microbiomes.Current opinion in systems biology · 2023Review
- The Genetic Architecture of Adaptation to Leaf and Root Bacterial Microbiota in Arabidopsis thaliana.Molecular biology and evolution · 2023Article
- Human and pathogen genotype-by-genotype interactions in the light of coevolution theory.PLoS genetics · 2023Review
- Draft genome sequences for ten strains ofAccess microbiology · 2023Article
- A Phylogeny-aware GWAS Framework to Correct for Heritable Pathogen Effects on Infectious Disease Traits.Molecular biology and evolution · 2022Article
- Negotiating mutualism: A locus for exploitation by rhizobia has a broad effect size distribution and context-dependent effects on legume hosts.Journal of evolutionary biology · 2022Article
- Article
- Investigating genetic diversity within the most abundant and prevalent non-pathogenic leaf-associated bacteria interacting withFrontiers in microbiology · 2022Article
- Xanthomonas arboricola pv. juglandis and pv. corylina: Brothers or distant relatives? Genetic clues, epidemiology, and insights for disease management.Molecular plant pathology · 2021Article
- Review
- Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 2 institutions in 2 countries.
Funding
Abstract
Infectious diseases are often affected by specific pairings of hosts and pathogens and therefore by both of their genomes. The integration of a pair of genomes into genome-wide association mapping can provide an exquisitely detailed view of the genetic landscape of complex traits. We present a statistical method, ATOMM (Analysis with a Two-Organism Mixed Model), that maps a trait of interest to a pair of genomes simultaneously; this method makes use of whole-genome sequence data for both host and pathogen organisms. ATOMM uses a two-way mixed-effect model to test for genetic associations and cross-species genetic interactions while accounting for sample structure including interactions between the genetic backgrounds of the two organisms. We demonstrate the applicability of ATOMM to a joint association study of quantitative disease resistance (QDR) in the
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.