ArticleBMC genomics2013
Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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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.
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Who cites it
33 citing papers in PubMed.
- Understanding Genomic Landscapes of Differentiation in Round-Tailed Horned Lizards (Phrynosoma modestum).Genome biology and evolution · 2026Article
- Snakes (Colubridae: Erythrolamprus) With a Complex Toxic Diet Show Convergent yet Highly Heterogeneous Voltage-gated Sodium Channel Evolution.Genome biology and evolution · 2026Article
- The Interplay of Ontogeny and Phylogeny at the Transcriptome Level of the Tetrapod Heart.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025Article
- Comparative proteomic analysis of tail regeneration in the green anole lizard,Natural sciences (Weinheim, Germany) · 2024Article
- A high-quality genome for the slender anole (Anolis apletophallus): an emerging model for field studies of tropical ecology and evolution.G3 (Bethesda, Md.) · 2023Article
- Genome-wide analysis of RNA-chromatin interactions in lizards as a mean for functional lncRNA identification.BMC genomics · 2023Article
- The genetic basis of conspicuous coloration in the Guadeloupean anole: Evolution by sexual and ecological selection.Ecology and evolution · 2023Article
- Genome-wide parallelism underlies contemporary adaptation in urban lizards.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus), a reptile model for physiological and evolutionary ecology.GigaScience · 2021Article
- Chromosome-Level Assembly of the Common Lizard (Zootoca vivipara) Genome.Genome biology and evolution · 2020Article
- A brief review on the natural history, venomics and the medical importance of bushmaster (Toxicon: X · 2020Article
- Advances in understanding mechanisms of long-term sperm storage-the soft-shelled turtle model.Histology and histopathology · 2020Article
- Madagascar ground gecko genome analysis characterizes asymmetric fates of duplicated genes.BMC biology · 2018Article
- Comparative Genomics Reveals Accelerated Evolution in Conserved Pathways during the Diversification of Anole Lizards.Genome biology and evolution · 2018Article
- Identification and characterization of tyrosine kinases in anole lizard indicate the conserved tyrosine kinase repertoire in vertebrates.Molecular genetics and genomics : MGG · 2017Article
- Convergent origination of aGenome research · 2017Article
- Targeted Capture of Complete Coding Regions across Divergent Species.Genome biology and evolution · 2017Article
- The first transcriptome of Italian wall lizard, a new tool to infer about the Island Syndrome.PloS one · 2017Article
- Evolution of Dosage Compensation in Anolis carolinensis, a Reptile with XX/XY Chromosomal Sex Determination.Genome biology and evolution · 2017Article
- Global analysis of differential gene expression related to long-term sperm storage in oviduct of Chinese Soft-Shelled Turtle Pelodiscus sinensis.Scientific reports · 2016Article
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Authors and funding
10 authors.
Funding
Abstract
backgroundThe green anole lizard, Anolis carolinensis, is a key species for both laboratory and field-based studies of evolutionary genetics, development, neurobiology, physiology, behavior, and ecology. As the first non-avian reptilian genome sequenced, A. carolinesis is also a prime reptilian model for comparison with other vertebrate genomes. The public databases of Ensembl and NCBI have provided a first generation gene annotation of the anole genome that relies primarily on sequence conservation with related species. A second generation annotation based on tissue-specific transcriptomes would provide a valuable resource for molecular studies.
resultsHere we provide an annotation of the A. carolinensis genome based on de novo assembly of deep transcriptomes of 14 adult and embryonic tissues. This revised annotation describes 59,373 transcripts, compared to 16,533 and 18,939 currently for Ensembl and NCBI, and 22,962 predicted protein-coding genes. A key improvement in this revised annotation is coverage of untranslated region (UTR) sequences, with 79% and 59% of transcripts containing 5' and 3' UTRs, respectively. Gaps in genome sequence from the current A. carolinensis build (Anocar2.0) are highlighted by our identification of 16,542 unmapped transcripts, representing 6,695 orthologues, with less than 70% genomic coverage.
conclusionsIncorporation of tissue-specific transcriptome sequence into the A. carolinensis genome annotation has markedly improved its utility for comparative and functional studies. Increased UTR coverage allows for more accurate predicted protein sequence and regulatory analysis. This revised annotation also provides an atlas of gene expression specific to adult and embryonic tissues.
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