ArticleThe Plant cell2015
Characteristics of Plant Essential Genes Allow for within- and between-Species Prediction of Lethal Mutant Phenotypes.
Article in The Plant cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers, 1 of them a synthesis that pooled it.
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Who cites it
65 citing papers in PubMed, 1 synthesis or guideline pooled it, 116 citations in OpenAlex.
- Meta-analysis of dispensable essential genes and their interactions with bypass suppressors.Life science alliance · 2024Pooled it
- A sequence-based classifier distinguishes phenotype-associated genes from other gene models in plants.Genome research · 2026Article
- EssTFNet: integration of adaptive time-frequency and DNA language models for interpretable human essential gene prediction.Briefings in bioinformatics · 2026Article
- Defining thebioRxiv : the preprint server for biology · 2026Article
- KitBase Expanded: An Integrated Genomic and Phenotypic Resource for 3,268 Fast-Neutron-Irradiated Rice Mutants.Database : the journal of biological databases and curation · 2026Article
- Calm in the midst of the storm: inferring gene expression stability in flowering plants.Frontiers in plant science · 2026Article
- Benchmarking ensemble and deep learning models for drought-responsive gene prioritisation in rice using multi-omics data.PloS one · 2026Article
- Targeted deletions of large syntenic regions inProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Long-read detection of transposable element mobilization in the soma of hypomethylated Arabidopsis thaliana individuals.Genome biology · 2025Article
- A Hot-Swappable Genetic Switch: Building an Inducible and Trackable Functional Assay for the Essential Gene MEDIATOR 21.ACS synthetic biology · 2025Article
- ELD1 mediates photoperiodic flowering via OsCCA1 alternative splicing and interacts with phytochrome signaling in rice.Nature communications · 2025Article
- Article
- Dosage sensitivity shapes balanced expression and gene longevity of homoeologs after whole-genome duplications in angiosperms.The Plant cell · 2024Article
- OsIPK1 frameshift mutations disturb phosphorus homeostasis and impair starch synthesis during grain filling in rice.Plant molecular biology · 2024Article
- H3K4me1 recruits DNA repair proteins in plants.The Plant cell · 2024Article
- Machine learning assists prediction of genes responsible for plant specialized metabolite biosynthesis by integrating multi-omics data.BMC genomics · 2024Article
- Evolutionary and synteny analysis of HIS1, BADH2, GBSS1, and GBSS2 in rice: insights for effective introgression breeding strategies.Scientific reports · 2024Article
- Recent advances in the characterization of essential genes and development of a database of essential genes.iMeta · 2024Review
- Identification and Expression Analysis of the Nucleotidyl Transferase Protein (NTP) Family in Soybean (International journal of molecular sciences · 2024Article
- Essential genes identification model based on sequence feature map and graph convolutional neural network.BMC genomics · 2024Article
5 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Essential genes represent critical cellular components whose disruption results in lethality. Characteristics shared among essential genes have been uncovered in fungal and metazoan model systems. However, features associated with plant essential genes are largely unknown and the full set of essential genes remains to be discovered in any plant species. Here, we show that essential genes in Arabidopsis thaliana have distinct features useful for constructing within- and cross-species prediction models. Essential genes in A. thaliana are often single copy or derived from older duplications, highly and broadly expressed, slow evolving, and highly connected within molecular networks compared with genes with nonlethal mutant phenotypes. These gene features allowed the application of machine learning methods that predicted known lethal genes as well as an additional 1970 likely essential genes without documented phenotypes. Prediction models from A. thaliana could also be applied to predict Oryza sativa and Saccharomyces cerevisiae essential genes. Importantly, successful predictions drew upon many features, while any single feature was not sufficient. Our findings show that essential genes can be distinguished from genes with nonlethal phenotypes using features that are similar across kingdoms and indicate the possibility for translational application of our approach to species without extensive functional genomic and phenomic resources.
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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.