Teleopsis dalmanni (Tel_dalmanni_2A_v1.0)

Teleopsis dalmanni Assembly and Gene Annotation

About Teleopsis dalmanni

Teleopsis dalmanni, is a stalked-eyed fly, it belongs to the family Diopsidae.

Picture credit (public domain): Robb Knell (Wikipedia) 2006

Assembly

A shotgun genome assembly of the stalk eyed fly Teleopsis dalmanni (inbred strain 2A) was produced using a combination of Pacific Biosciences, Roche 454, and Illumina sequencing data. It was submitted by the University of Maryland (UMD) to ENA under the accession number GCA_002237135.1. The assembly was generated by researchers at UMD (Jerry Wilkinson, Aleksey Zimin and the UMD Genome Assembly Group), SUNY Geneseo (Josie Reinhardt), and the American Museum of Natural History (Rick Baker).

Repeats were annotated with the Ensembl Genomes repeat feature pipeline. There are: 1724973 Low complexity (Dust) features, covering 79 Mb (12.8% of the genome); 12915 RepeatMasker features (with the RepBase library), covering 3 Mb (0.5% of the genome); 492976 Tandem repeats (TRF) features, covering 41 Mb (6.5% of the genome).

Annotation

The annotation of Teleopsis dalmanni was performed at the University of Maryland. Only Teleopsis RNA-Seq transcripts [1, 2] were used as EST evidence (no dipteran proteins), and ab initio prediction with SNAP. Two rounds of training we done with SNAP as the ab initio predictor using a "bootstrapping" approach. The annotation was performed by researchers at UMD (Jerry Wilkinson), SUNY Geneseo (Josie Reinhardt), and the American Museum of Natural History (Rick Baker).

References

  1. Meiotic Drive Impacts Expression and Evolution of X-Linked Genes in Stalk-Eyed Flies.
    Reinhardt JA, Brand CL, Paczolt KA, Johns PM, Baker RH, Wilkinson GS. 2014. PLoS Genetics. 10:e1004362.
  2. Spermatogenesis Drives Rapid Gene Creation and Masculinization of the X Chromosome in Stalk-Eyed Flies (Diopsidae).
    Baker RH, Narechania A, DeSalle R, Johns PM, Reinhardt JA, Wilkinson GS. 2016. Genome Biology and Evolution. 8:896-914.

Picture credit: Photo of a male stalk-eyed fly of the species Teleopsis dalmanni from Wikipedia.

Statistics

Summary

AssemblyTel_dalmanni_2A_v1.0, INSDC Assembly GCA_002237135.1,
Database version94.1
Base Pairs621,706,043
Golden Path Length621,706,043
Genebuild byUMD
Genebuild methodImport
Data sourceUniversity of Maryland Assembly Group

Gene counts

Coding genes16,571
Non coding genes1,207
Small non coding genes1,203
Long non coding genes4
Gene transcripts17,778

About this species