ReviewBMC microbiology2009
The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium: community development of new Gene Ontology terms describing biological processes involved in microbe-host interactions.
Review in BMC microbiology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 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
30 citing papers in PubMed, 65 citations in OpenAlex.
- New and revised gene ontology biological process terms describe multiorganism interactions critical for understanding microbial pathogenesis and sequences of concern.Journal of biomedical semantics · 2025Article
- Unraveling plant-microbe interactions: can integrated omics approaches offer concrete answers?Journal of experimental botany · 2024Article
- The Gene Ontology knowledgebase in 2023.Genetics · 2023Review
- The genome and transcriptome ofFrontiers in cellular and infection microbiology · 2023Article
- Transcriptome Reveals Roles of Lignin-Modifying Enzymes and Abscisic Acid in the Symbiosis ofInternational journal of molecular sciences · 2021Article
- Deciphering the Omics of Plant-Microbe Interaction: Perspectives and New Insights.Current genomics · 2020Review
- Genome Sequencing and Analysis of the Hypocrellin-Producing FungusFrontiers in microbiology · 2020Article
- Genome Sequence of Lactobacillus futsaii Y97, a Potential Probiotic Strain Isolated from Futsai of Taiwan.Microbiology resource announcements · 2019Article
- Comprehensive analysis of full genome sequence andIMA fungus · 2019Article
- Whole Genome Sequence of an Edible and Potential Medicinal Fungus,G3 (Bethesda, Md.) · 2018Article
- Excess labile carbon promotes the expression of virulence factors in coral reef bacterioplankton.The ISME journal · 2018Article
- PHI-base: a new interface and further additions for the multi-species pathogen-host interactions database.Nucleic acids research · 2017Article
- Massive analysis of cDNA ends (MACE) reveals a co-segregating candidate gene for LpPg1 stem rust resistance in perennial ryegrass (Lolium perenne).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Location and foraging as basis for classification of biotic interactions.Theory in biosciences = Theorie in den Biowissenschaften · 2016Article
- Plant Microbe Interactions in Post Genomic Era: Perspectives and Applications.Frontiers in microbiology · 2016Review
- Analysis of the Transcriptome of the Infective Stage of the Beet Cyst Nematode, H. schachtii.PloS one · 2016Article
- Genetic resources for advanced biofuel production described with the Gene Ontology.Frontiers in microbiology · 2014Review
- Silicon era of carbon-based life: application of genomics and bioinformatics in crop stress research.International journal of molecular sciences · 2013Review
- Improved gene ontology annotation for biofilm formation, filamentous growth, and phenotypic switching in Candida albicans.Eukaryotic cell · 2013Article
- The UniProt-GO Annotation database in 2011.Nucleic acids research · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
All microbes that form beneficial, neutral, or pathogenic associations with hosts face similar challenges. They must physically adhere to and/or gain entry to host tissues; they must avoid, suppress, or tolerate host defenses; they must acquire nutrients from the host and successfully multiply. Microbes that associate with hosts come from many kingdoms of life and include bacteria, fungi, oomycetes, and nematodes. The increasing numbers of full genome sequences from these diverse microbes provide the opportunity to discover common mechanisms by which the microbes forge and maintain intimate associations with host organisms. However, cross-genome analyses have been hindered by lack of a universal vocabulary for describing biological processes involved in the interplay between microbes and their hosts. The Plant-Associated Microbe Gene Ontology (PAMGO) Consortium has been working for three years as an official interest group of the Gene Ontology (GO) Consortium to develop well-defined GO terms that describe many of the biological processes common to diverse plant- and animal-associated microbes. Creating these terms, over 700 at this time, has required a synthesis of diverse points of view from many research communities. The use of these terms in genome annotation will allow cross-genome searches for genes with common function (without demand for sequence similarity) and also improve the interpretation of data from high-throughput microarray and proteomic analyses. This article, and the more focused mini-reviews that make up this supplement to BMC Microbiology, describe the development and use of these terms.
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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.