We lately printed a chromosome-scale meeting of the slender anole (Anolis apletophallus) genome, a species that has been studied for many years on the Smithsonian Tropical Analysis Institute in Panama.
Right here is the summary: The slender anole, Anolis apletophallus, is a small arboreal lizard of the rainforest understory of central and jap Panama. This species has been the topic of quite a few ecological and evolutionary research over the previous 60 years because of attributes that make it particularly amenable to discipline and laboratory science. Slender anoles are extremely ample, short-lived (practically 100% annual turnover), straightforward to control in each the lab and discipline, and are ubiquitous within the forests surrounding the Smithsonian Tropical Analysis Institute in Panama, the place researchers have entry to high-quality laboratory amenities. Right here, we current a high-quality genome for the slender anole, which is a vital new useful resource for learning this mannequin species. We assembled and annotated the slender anole genome by combining three applied sciences; Oxford Nanopore, 10X Genomics linked-reads, and Dovetail Omni-C. We in contrast this genome with the lately printed brown anole (Anolis sagrei) and the canonical inexperienced anole (Anolis carolinensis) genomes. Our genome is the primary assembled for an Anolis lizard from mainland Central or South America, the areas that host the vast majority of variety within the genus. This new reference genome is without doubt one of the most full genomes of any anole assembled to this point and will facilitate deeper research of slender anole evolution, in addition to broader scale comparative genomic research of each mainland and island species. In flip, such research will additional our understanding of the well-known adaptive radiation of Anolis lizards.
And here’s a barely longer abstract of what we did (and a few outcomes): We used a hybrid genome meeting by combining three applied sciences: Oxford Nanopore, 10X Genomics linked-reads, and Dovetail Omni-C. We annotated our slender anole genome utilizing the Dovetail Genomics annotation pipeline and in contrast our genome with the lately printed brown anole (Anolis sagrei) and the canonical inexperienced anole (Anolis carolinensis) genomes. We additionally estimated the repeat parts composition and repetitive panorama utilizing the RepeatModeler and RepeatMasker pipelines.
After a number of rounds of enchancment, our last genome meeting for the slender anole was ~2.4 Gbp in dimension with with a scaffold N50 of 154.6 Kbp and a GC content material of 43.8%. The slender anole genome was thus considerably bigger than each the inexperienced anole (1.89 Gbp) and brown anole (1.93 Gbp) genomes. Our annotation utilizing the Dovetail pipeline recognized a complete of 46,763,836 bp coding areas and a complete of 33,912 gene fashions. The variety of gene fashions recognized for the slender anole was greater than that of each the inexperienced anole (22,292) and brown anole (20,033).
Authors: Renata M. Pirani1,2*†, Carlos F. Arias2,3, Kristin Charles1, Albert Ok. Chung2,4, John David Curlis2,5, Daniel J. Nicholson2,6, Marta Vargas2, Christian L. Cox2,7, W. Owen McMillan2, Michael L. Logan1,2
Affiliation:
(1) Division of Biology and program in Ecology, Evolution, and Conservation Biology, College of Nevada, Reno, Reno, 89557, United States
(2) Smithsonian Tropical Analysis Institute, Panama Metropolis, Panama
(3) Information Science Lab, Workplace of the Chief Info Officer, Smithsonian Establishment, Washington, 20013, United States
(4) Division of Ecology and Evolutionary Biology, Princeton College, Princeton, 08544-2016, United States
(5) Division of Ecology and Evolution, College of Michigan, Ann Arbor, 48109-1085, United States
(6) College of Texas, Arlington, Arlington, 76019, United States
(7) Florida Worldwide College, Miami, 33199, United States
*Corresponding creator: renatampirani@gmail.com
† Current handle: Division of Ecology and Evolutionary Biology, College of California, Los Angeles, 90095, USADetermine 1 Figure_2
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