Karyotypic Evolution of Sauropsid Vertebrates Illuminated by Optical and Physical Mapping of the Painted Turtle and Slider Turtle Genomes
| Autor: | Thea B Gessler, Zhiqiang Wu, Eugenia E. Montiel, Nicole Valenzuela, Ling Sze Lee, Basanta Bista, Daleen Badenhorst, Beatriz Navarro-Domínguez |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
genome alignments Chromosomes Artificial Bacterial physical molecular cytogenetic BAC clone mapping lcsh:QH426-470 Karyotype Sequence assembly turtle lizard and snake non-avian reptiles Biology 010603 evolutionary biology 01 natural sciences Genome avian squamate and chelonian vertebrates Article law.invention Chromosome Painting Evolution Molecular 03 medical and health sciences law Phylogenomics Chrysemys picta and Trachemys scripta Databases Genetic Genetics Animals Turtle (robot) Gene Genetics (clinical) Cells Cultured In Situ Hybridization Fluorescence Phylogeny 030304 developmental biology Synteny BioNano optical genome mapping 0303 health sciences Bacterial artificial chromosome karyotype evolution Computational Biology phylogenomics genome and chromosome evolution biology.organism_classification Physical Chromosome Mapping Turtles lcsh:Genetics Microscopy Fluorescence Evolutionary biology Painted turtle |
| Zdroj: | Genes Genes, Vol 11, Iss 928, p 928 (2020) Volume 11 Issue 8 |
| ISSN: | 2073-4425 |
| Popis: | Recent sequencing and software enhancements have advanced our understanding of the evolution of genomic structure and function, especially addressing novel evolutionary biology questions. Yet fragmentary turtle genome assemblies remain a challenge to fully decipher the genetic architecture of adaptive evolution. Here, we use optical mapping to improve the contiguity of the painted turtle (Chrysemys picta) genome assembly and use de novo fluorescent in situ hybridization (FISH) of bacterial artificial chromosome (BAC) clones, BAC-FISH, to physically map the genomes of the painted and slider turtles (Trachemys scripta elegans). Optical mapping increased C. picta&rsquo s N50 by ~242% compared to the previous assembly. Physical mapping permitted anchoring ~45% of the genome assembly, spanning 5544 genes (including 20 genes related to the sex determination network of turtles and vertebrates). BAC-FISH data revealed assembly errors in C. picta and T. s. elegans assemblies, highlighting the importance of molecular cytogenetic data to complement bioinformatic approaches. We also compared C. picta&rsquo s anchored scaffolds to the genomes of other chelonians, chicken, lizards, and snake. Results revealed a mostly one-to-one correspondence between chromosomes of painted and slider turtles, and high homology among large syntenic blocks shared with other turtles and sauropsids. Yet, numerous chromosomal rearrangements were also evident across chelonians, between turtles and squamates, and between avian and non-avian reptiles. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|