ArticleGigaScience2020
High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis.
Article in GigaScience, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Genome Evolution in Social Insects.Genome biology and evolution · 2026Review
- Gene Expression and Alternative Splicing Regulate Phenotypic Plasticity of a Social Wasp.Ecology and evolution · 2026Article
- Ancient but dynamic: structural expansion, massive gene duplication, and transposable element colonization in a supergene controlling ant social organization.Molecular biology and evolution · 2026Article
- Influences of pupal presence and worker number on the survival and development of pharaoh ant (Animal cells and systems · 2026Article
- Article
- Single-nucleus and spatial transcriptomics identify brain landscape of gene regulatory networks associated with behavioral maturation in honeybees.Nature communications · 2025Article
- The chromosome-level genome provides insights into the adaptive evolution of the visual system in Oratosquilla oratoria.BMC biology · 2025Article
- Chromosomal-level genome assembly of Hylurgus ligniperda: insights into host adaptation and environmental tolerance.BMC genomics · 2024Article
- An evolutionarily conserved pathway mediated by neuroparsin-A regulates reproductive plasticity in ants.PLoS biology · 2024Article
- Reference genome of the bicolored carpenter ant, Camponotus vicinus.The Journal of heredity · 2024Article
- Genome assembly and isoform analysis of a highly heterozygous New Zealand fisheries species, the tarakihi (Nemadactylus macropterus).G3 (Bethesda, Md.) · 2023Article
- Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses.Nucleic acids research · 2022Article
- High-quality chromosome-level genome assembly and full-length transcriptome analysis of the pharaoh ant Monomorium pharaonis.GigaScience · 2020Article
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10 authors.
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Abstract
backgroundAnts with complex societies have fascinated scientists for centuries. Comparative genomic and transcriptomic analyses across ant species and castes have revealed important insights into the molecular mechanisms underlying ant caste differentiation. However, most current ant genomes and transcriptomes are highly fragmented and incomplete, which hinders our understanding of the molecular basis for complex ant societies.
findingsBy hybridizing Illumina, Pacific Biosciences, and Hi-C sequencing technologies, we de novo assembled a chromosome-level genome for Monomorium pharaonis, with a scaffold N50 of 27.2 Mb. Our new assembly provides better resolution for the discovery of genome rearrangement events at the chromosome level. Analysis of full-length isoform sequencing (ISO-seq) suggested that ∼15 Gb of ISO-seq data were sufficient to cover most expressed genes, but the number of transcript isoforms steadily increased with sequencing data coverage. Our high-depth ISO-seq data greatly improved the quality of gene annotation and enabled the accurate detection of alternative splicing isoforms in different castes of M. pharaonis. Comparative transcriptome analysis across castes based on the ISO-seq data revealed an unprecedented number of transcript isoforms, including many caste-specific isoforms. We also identified a number of conserved long non-coding RNAs that evolved specifically in ant lineages and several that were conserved across insect lineages.
conclusionsWe produced a high-quality chromosome-level genome for M. pharaonis, which significantly improved previous short-read assemblies. Together with full-length transcriptomes for all castes, we generated a highly accurate annotation for this ant species. These long-read sequencing results provide a useful resource for future functional studies on the genetic mechanisms underlying the evolution of social behaviors and organization in ants.
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