ArticleGenome biology and evolution2020
A High-Quality Reference Genome Assembly of the Saltwater Crocodile, Crocodylus porosus, Reveals Patterns of Selection in Crocodylidae.
Article in Genome biology and evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- Genome evolution and long-term demographic history in true crocodiles.G3 (Bethesda, Md.) · 2026Article
- The genomic basis of independent marine transitions in turtles: convergent episodic adaptation and demographic shifts.Molecular biology and evolution · 2026Article
- Draft assembly and annotation of the Cuban crocodile (Crocodylus rhombifer) genome.BMC genomic data · 2024Article
- A nuclear genome assembly of an extinct flightless bird, the little bush moa.Science advances · 2024Article
- Deep Conservation and Unexpected Evolutionary History of Neighboring lncRNAs MALAT1 and NEAT1.Journal of molecular evolution · 2024Article
- The first high-quality chromosome-level genome of Eretmochelys imbricata using HiFi and Hi-C data.Scientific data · 2023Article
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- Longevity, cellular senescence and the gut microbiome: lessons to be learned from crocodiles.Heliyon · 2021Review
- New Ther1-derived SINE Squam3 in scaled reptiles.Mobile DNA · 2021Article
- The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin biosynthetic genes.Horticulture research · 2021Article
- Connexins during 500 Million Years-From Cyclostomes to Mammals.International journal of molecular sciences · 2021Review
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11 authors.
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Abstract
Crocodilians are an economically, culturally, and biologically important group. To improve researchers' ability to study genome structure, evolution, and gene regulation in the clade, we generated a high-quality de novo genome assembly of the saltwater crocodile, Crocodylus porosus, from Illumina short read data from genomic libraries and in vitro proximity-ligation libraries. The assembled genome is 2,123.5 Mb, with N50 scaffold size of 17.7 Mb and N90 scaffold size of 3.8 Mb. We then annotated this new assembly, increasing the number of annotated genes by 74%. In total, 96% of 23,242 annotated genes were associated with a functional protein domain. Furthermore, multiple noncoding functional regions and mappable genetic markers were identified. Upon analysis and overlapping the results of branch length estimation and site selection tests for detecting potential selection, we found 16 putative genes under positive selection in crocodilians, 10 in C. porosus and 6 in Alligator mississippiensis. The annotated C. porosus genome will serve as an important platform for osmoregulatory, physiological, and sex determination studies, as well as an important reference in investigating the phylogenetic relationships of crocodilians, birds, and other tetrapods.
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