Apr 23, 2020

RADSex: a computational workflow to study sex determination using Restriction Site-Associated DNA Sequencing data

BioRxiv : the Preprint Server for Biology
R. FeronYann Guiguen

Abstract

The study of sex determination and sex chromosome organisation in non-model species has long been technically challenging, but new sequencing methodologies are now enabling precise and high-throughput identification of sex-specific genomic sequences. In particular, Restriction Site-Associated DNA Sequencing (RAD-Seq) is being extensively applied to explore sex determination systems in many plant and animal species. However, software designed to specifically search for sex-biased markers using RAD-Seq data is lacking. Here, we present RADSex, a computational analysis workflow designed to study the genetic basis of sex determination using RAD-Seq data. RADSex is simple to use, requires few computational resources, makes no prior assumptions about type of sex-determination system or structure of the sex locus, and offers convenient visualization through a dedicated R package. To demonstrate the functionality of RADSex, we re-analyzed a published dataset of Japanese medaka, Oryzias latipes, where we uncovered a previously unknown Y chromosome polymorphism. We then used RADSex to analyze new RAD-Seq datasets from 15 fish species spanning multiple systematic orders. We identified the sex determination system and sex-specific markers ...Continue Reading

  • References
  • Citations

References

  • We're still populating references for this paper, please check back later.
  • References
  • Citations

Citations

  • This paper may not have been cited yet.

Mentioned in this Paper

Study
Short Tandem Repeat
Ovum
WAS gene
Abnormal Fragmented Structure
Determination Aspects
Cat-Scratch Disease
Hymenoptera
Haploid Cell
Cytochrome P-450 CYP1A1

Related Feeds

Cat-scratch disease

Cat-scratch disease, a relatively common infectious disease, is caused by Bartonella henselae and characterized by a fever and regional lymphadenitis. Here is the latest research.

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.

Bartonellosis

Bartonellosis is an infection caused by bacteria in the genus Bartonella and can present as a variety of diseases depending on the organism involved. While asymptomatic infection has been reported, immunocompromised individuals are more susceptible to severe infection. Find the latest research on bartonellosis here.