Introduction

Welcome to the Darter Genomics web site.

This site was originally set up to introduce my sequencing and assembly of the Tallapoosa darter genome. While I originally planned on a gradual improvement of the assembly with long read nanopore sequences and more complete annotation, I shifted to sequencing genomes of more darter species and targeted analysis fo the evolution of specific sets of genes. The raw Illumina sequence reads of these genomes will be deposited in GenBank in the spring of 2020.

In the meantime, note that an annotated genome of Etheostoma spectabile has been constructed and should be available on GenBank soon:

Genomic resources for darters (Percidae: Etheostominae) provide insight into postzygotic barriers implicated in speciation

Rachel L Moran Julian M Catchen Rebecca C Fuller

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Description of Tallapoosa darter genomic sequencing:

The genomic sequence was obtained as a result of two 250 nucleotide PE runs on an Illumina MiSeq. A total of 13 billion nucleotides of sequence was obtained from 52 million such 250 nucleotide sequence reads. This represents, on average, about a 12 fold coverage of the darter genome. (See Tallapoosa darter genome link for description.)

These sequences were assembled into contigs utilizing the Minia assembler and these contigs were assembled into scaffolds with SSPACE. 


Leos Kral
Department of Biology
University of West Georgia
Carrollton, GA 30118

lkral@westga.edu
678-839-4023

 

Subpages (1): Database Notice