Project name: Astyanax mexicanus isolate:ESR-SI-001

Description: The Astyanax mexicanus DNA sample was obtained from a female fish that was reared at the Stowers Institute aquatic facility. High molecular weight DNA was used as input to generate long reads using circular consensus sequence (CCS) base calling output from the Sequel II instrument (Pacific Biosciences) according to the manufacturer's protocols. Total CCS coverage was ~35x using a genome size estimate of 1.4Gb. All quality filtered sequence reads were assembled with hifiasm using default parameter settings and redundant contigs removed using purge_haplotigs. Assembled contigs were scaffolded using HiC sequence data from a sibling individual using SALSA2 and Juicebox. Chromosomes were numbered by synteny to previously assembled chromosomes of Astyanax mexicanus. This version of the surface fish assembly will replace the prior version CA_000372685.2. Credits: DNA source: Stowers Institute, Kansas City, MO Genome sequencing: Hudson Alpha Institute, Huntsville, AL. Assembly: University of Missouri, Columbia, MO. It is requested that users of this assembly acknowledge the Astyanax mexicanus genomes consortium in any publications that result from use of this sequence assembly prior to the publication of this resource. Any publications that propose to generate whole genome analyses using this resource should contact Dr. Nicolas Rohner (nro@stowers.edu) or Dr. Wes Warren (warrenwc@missouri.edu) for the use of pre-publication data in accord with the Ft. Lauderdale and Toronto genomic data use agreements.

Data type: Genome sequencing and assembly

Sample scope: Monoisolate

Relevance: Evolution

Release date: 2022-05-16

Last updated: 2022-02-15