ArticleGigaScience2024
Gapless genome assembly and epigenetic profiles reveal gene regulation of whole-genome triplication in lettuce.
Article in GigaScience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 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
8 citing papers in PubMed.
- LsMAPK6 Phosphorylates the LsCO Protein to Enhance Its Stability and Transcriptional Activity, Promoting Floral Transition Upon High Temperatures in Lettuce.Plant biotechnology journal · 2026Article
- Modern approaches and future prospects in lettuce breeding for controlled environment agriculture.Frontiers in plant science · 2026Review
- Unraveling the variation, phylogeny, and taxonomy of Lactuca spp. for germplasm management and breeding.Planta · 2025Review
- Lactuca super-pangenome provides insights into lettuce genome evolution and domestication.Nature communications · 2025Article
- Chromosome scale assembly unveils genomic structure and gene families of Calotropis procera.Molecular genetics and genomics : MGG · 2025Article
- ND-FISH with New Oligo Probes for Chromosome Identification ofPlants (Basel, Switzerland) · 2024Article
- Gapless genome assembly and epigenetic profiles reveal gene regulation of whole-genome triplication in lettuce.GigaScience · 2024Article
- The telomere-to-telomere (T2T) genome provides insights into the evolution of specialized centromere sequences in sandalwood.GigaScience · 2024Article
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.
Funding
Abstract
backgroundLettuce, an important member of the Asteraceae family, is a globally cultivated cash vegetable crop. With a highly complex genome (∼2.5 Gb; 2n = 18) rich in repeat sequences, current lettuce reference genomes exhibit thousands of gaps, impeding a comprehensive understanding of the lettuce genome.
findingsHere, we present a near-complete gapless reference genome for cutting lettuce with high transformability, using long-read PacBio HiFi and Nanopore sequencing data. In comparison to stem lettuce genome, we identify 127,681 structural variations (SVs, present in 0.41 Gb of sequence), reflecting the divergence of leafy and stem lettuce. Interestingly, these SVs are related to transposons and DNA methylation states. Furthermore, we identify 4,612 whole-genome triplication genes exhibiting high expression levels associated with low DNA methylation levels and high N6-methyladenosine RNA modifications. DNA methylation changes are also associated with activation of genes involved in callus formation.
conclusionsOur gapless lettuce genome assembly, an unprecedented achievement in the Asteraceae family, establishes a solid foundation for functional genomics, epigenomics, and crop breeding and sheds new light on understanding the complexity of gene regulation associated with the dynamics of DNA and RNA epigenetics in genome evolution.
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.