ArticleGigaScience2021
A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus), a reptile model for physiological and evolutionary ecology.
Article in GigaScience, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Widespread male-female expression imbalance of X-linked genes across phrynosomatid lizards.Molecular biology and evolution · 2026Article
- Understanding Genomic Landscapes of Differentiation in Round-Tailed Horned Lizards (Phrynosoma modestum).Genome biology and evolution · 2026Article
- Climate-induced patterns of activity and nest conditions select for genes associated with growth and maturation in a widespread lizard species.Research square · 2026Article
- Highly contiguous reference genome assembly of the endangered Orcés' blue whiptail Holcosus orcesi.PloS one · 2026Article
- Comparison and Analysis of the Genomes of Three Strains ofMicroorganisms · 2025Article
- Iguanas rafted more than 8,000 km from North America to Fiji.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Contrasting recovery of metagenome‑assembled genomes and derived bacterial communities and functional profiles from lizard fecal and cloacal samples.Animal microbiome · 2025Article
- A near-complete genome assembly of the bearded dragon Pogona vitticeps provides insights into the origin of Pogona sex chromosomes.GigaScience · 2025Article
- Genomic signatures of adaptation in native lizards exposed to human-introduced fire ants.Nature communications · 2025Article
- Omics in mini-livestock: a genomic perspective on the future of sustainable food systems.Frontiers in genetics · 2025Review
- The male and female genomes of golden pompano (Trachinotus ovatus) provide insights into the sex chromosome evolution and rapid growth.Journal of advanced research · 2024Article
- Convergent genomic signatures associated with vertebrate viviparity.BMC biology · 2024Article
- Chromosome-Level Genome Assembly of the Blacktail Brush Lizard, Urosaurus nigricaudus, Reveals Dosage Compensation in an Endemic Lizard.Genome biology and evolution · 2023Article
- Assembly of the largest squamate reference genome to date: The western fence lizard, Sceloporus occidentalis.The Journal of heredity · 2023Article
- Evolution and expression of the duck TRIM gene repertoire.Frontiers in immunology · 2023Article
- Genome ofInternational journal of molecular sciences · 2022Article
- Population expansion, divergence, and persistence in Western Fence Lizards (Sceloporus occidentalis) at the northern extreme of their distributional range.Scientific reports · 2022Article
- A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus), a reptile model for physiological and evolutionary ecology.GigaScience · 2021Article
- Characterization of a pericentric inversion in plateau fence lizards (Sceloporus tristichus): evidence from chromosome-scale genomes.G3 (Bethesda, Md.) · 2021Article
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20 authors.
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Abstract
backgroundHigh-quality genomic resources facilitate investigations into behavioral ecology, morphological and physiological adaptations, and the evolution of genomic architecture. Lizards in the genus Sceloporus have a long history as important ecological, evolutionary, and physiological models, making them a valuable target for the development of genomic resources.
findingsWe present a high-quality chromosome-level reference genome assembly, SceUnd1.0 (using 10X Genomics Chromium, HiC, and Pacific Biosciences data), and tissue/developmental stage transcriptomes for the eastern fence lizard, Sceloporus undulatus. We performed synteny analysis with other snake and lizard assemblies to identify broad patterns of chromosome evolution including the fusion of micro- and macrochromosomes. We also used this new assembly to provide improved reference-based genome assemblies for 34 additional Sceloporus species. Finally, we used RNAseq and whole-genome resequencing data to compare 3 assemblies, each representing an increased level of cost and effort: Supernova Assembly with data from 10X Genomics Chromium, HiRise Assembly that added data from HiC, and PBJelly Assembly that added data from Pacific Biosciences sequencing. We found that the Supernova Assembly contained the full genome and was a suitable reference for RNAseq and single-nucleotide polymorphism calling, but the chromosome-level scaffolds provided by the addition of HiC data allowed synteny and whole-genome association mapping analyses. The subsequent addition of PacBio data doubled the contig N50 but provided negligible gains in scaffold length.
conclusionsThese new genomic resources provide valuable tools for advanced molecular analysis of an organism that has become a model in physiology and evolutionary ecology.
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