OSCR

Non-uniform chromosomal SNP density biases sites of meiotic crossovers in Drosophila melanogaster.

Overview

Authors: Savanna Hinson1, Ryan Sangston1, Karol Cichewicz1, Guruprasad Konduru2, Ishan Parikh1, Jay Hirsh1
ORCID iDs: Savanna Hinson
  1. Department of Biology, University of Virginia, 485 McCormick Rd, Charlottesville, VA 22903, United States
  2. Bioinformatics Core, University of Virginia, 1312 Pinn Hall, Charlottesville, VA 22908, United States
Institutions: University of Virginia (United States)
Journal: G3 (Bethesda, Md.), volume 16, issue 6, article jkag095
Dates: received 29 December 2025; accepted 31 March 2026; published online 15 April 2026; in print June 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1093/g3journal/jkag095 · PMID 41986294 · PMCID PMC13232501 · OpenAlex W7154477291
Open access: gold, a free copy (OpenAlex)
Status: data only (how the code is found and verified)
Categories: genetics / omics (modality), other (organism), drosophila (organism)
Methods: Connectivity, Statistics
Keywords: recombination, genetic mapping, dopamine
MeSH: Crossing Over, Genetic*, Drosophila melanogaster*, Meiosis*, Polymorphism, Single Nucleotide*, Animals, Chromosome Mapping, Chromosomes, Insect, Female, Phenotype, Recombination, Genetic, X Chromosome (* major topic)
Topic: Genetic diversity and population structure (Genetics, Biochemistry, Genetics and Molecular Biology), according to OpenAlex
Funding: National Institute of General Medical Sciences (R01 GM084128)
Citations: not cited yet (Europe PMC); 31 references in the paper
Research resources: RRID:SCR_012718

Abstract

Here we localize a genetic suppressor that enhances the reduced locomotor activity phenotype of flies lacking brain dopamine. We utilized a bulk segregant analysis mapping strategy coupled with whole genome sequencing, mapping the trait to a roughly 3.5 mega-base region of the X chromosome. However, this mapping yielded ∼5-fold lower resolution than anticipated, due to an uneven distribution of single nucleotide polymorphisms (SNPs) between the X chromosomes of the 2 recombining lines. This uneven SNP distribution was associated with recombination events biased toward regions of low SNP density, and away from the more SNP dense regions associating with the activity phenotype. We find that nearly perfect mapping of X chromosome visible markers occurs only in historical data from a time before the establishment of discrete genetic background strains. This suggests that genetic uniformity in early Drosophila studies may have contributed to more consistent recombination frequencies, whereas modern mapping efforts are complicated by variability in SNP distribution across recombining strains. These findings highlight challenges in Drosophila genetic mapping in situations where altered SNP density can skew recombination, complicating trait localization.

Reproduced under the paper's license (CC BY), from the paper cited above.

Code

The paper links to its data and to no code of its authors: see the Data section.

Tracing map

A tracing map links a paper to the code its authors published: this paper has none, so it has no map.

Data

Data links

Data availability

Raw WGS data are deposited in the NCBI SRA (http://www.ncbi.nlm.nih.gov/sra) as a BioProject under accession number PRJNA1393392. Fly stocks generated and used in this study will be made available to the research community upon reasonable request.

Reproduced under the paper's license (CC BY), from the paper cited above.

Versions

The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 6 authors, 3 keywords, 11 MeSH terms, 1 funder, 29 references, 1 RRID.

Cite

This paper

Hinson, S., Sangston, R., Cichewicz, K., Konduru, G., Parikh, I., & Hirsh, J. (2026). Non-uniform chromosomal SNP density biases sites of meiotic crossovers in Drosophila melanogaster. G3 (Bethesda, Md.), 16(6), jkag095. https://doi.org/10.1093/g3journal/jkag095

BibTeX

@article{hinson2026non,
author = {Hinson, Savanna and Sangston, Ryan and Cichewicz, Karol and Konduru, Guruprasad and Parikh, Ishan and Hirsh, Jay},
title = {{Non-uniform chromosomal SNP density biases sites of meiotic crossovers in Drosophila melanogaster}},
journal = {G3 (Bethesda, Md.)},
year = {2026},
month = jun,
volume = {16},
number = {6},
pages = {jkag095},
publisher = {Oxford University Press},
issn = {2160-1836},
doi = {10.1093/g3journal/jkag095},
url = {https://doi.org/10.1093/g3journal/jkag095},
pmid = {41986294},
pmcid = {PMC13232501}
}

RIS

TY - JOUR
AU - Hinson, Savanna
AU - Sangston, Ryan
AU - Cichewicz, Karol
AU - Konduru, Guruprasad
AU - Parikh, Ishan
AU - Hirsh, Jay
TI - Non-uniform chromosomal SNP density biases sites of meiotic crossovers in Drosophila melanogaster
T2 - G3 (Bethesda, Md.)
J2 - G3 (Bethesda)
PY - 2026
DA - 2026/06/01
VL - 16
IS - 6
SP - jkag095
SN - 2160-1836
PB - Oxford University Press
DO - 10.1093/g3journal/jkag095
UR - https://doi.org/10.1093/g3journal/jkag095
LA - en
ER -

CSL-JSON

{
"id": "10.1093/g3journal/jkag095",
"type": "article-journal",
"title": "Non-uniform chromosomal SNP density biases sites of meiotic crossovers in Drosophila melanogaster",
"container-title": "G3 (Bethesda, Md.)",
"author": [
{
"family": "Hinson",
"given": "Savanna"
},
{
"family": "Sangston",
"given": "Ryan"
},
{
"family": "Cichewicz",
"given": "Karol"
},
{
"family": "Konduru",
"given": "Guruprasad"
},
{
"family": "Parikh",
"given": "Ishan"
},
{
"family": "Hirsh",
"given": "Jay"
}
],
"container-title-short": "G3 (Bethesda)",
"volume": "16",
"issue": "6",
"page": "jkag095",
"DOI": "10.1093/g3journal/jkag095",
"PMID": "41986294",
"PMCID": "PMC13232501",
"ISSN": "2160-1836",
"publisher": "Oxford University Press",
"URL": "https://doi.org/10.1093/g3journal/jkag095",
"language": "en",
"issued": {
"date-parts": [
[
2026,
6,
1
]
]
}
}

Similar papers

The papers with a page that share the most with this one: the tools found in their code, their categories, datasets, cited references and authors, the rarest counting most.

[1] doi:10.1016/j.isci.2025.114388
RNAi-based screen for pigmentation in <i>Drosophila melanogaster</i> reveals regulators of brain dopamine and sleep.
Journal: iScience
In common: drosophila, 4 references
[2] doi:10.1371/journal.pgen.1012260
Hippo signaling regulates cuticle pigmentation and dopamine metabolism in Drosophila.
Journal: PLoS genetics
In common: drosophila, genetics / omics, 3 references
[3] doi:10.1093/gbe/evae047 [code]
The Complex Landscape of Structural Divergence Between the Drosophila pseudoobscura and D. persimilis Genomes.
Journal: Genome biology and evolution
In common: drosophila, 3 references
[4] doi:10.1371/journal.pgen.1010435
A STIM dependent dopamine-neuropeptide axis maintains the larval drive to feed and grow in Drosophila.
Journal: PLoS genetics
In common: drosophila, other, 2 references
[5] doi:10.1016/j.ebiom.2022.104395 [code]
Inherited rare variants in homologous recombination and neurodevelopmental genes are associated with increased risk of neuroblastoma.
Journal: EBioMedicine
In common: genetics / omics, 4 references
[6] doi:10.7554/elife.80923 [code]
Flexible specificity of memory in <i>Drosophila</i> depends on a comparison between choices.
Journal: eLife
In common: drosophila, 2 references
[7] doi:10.3390/ijms24108585 [code]
Asymmetric Presynaptic Depletion of Dopamine Neurons in a &lt;i&gt;Drosophila&lt;/i&gt; Model of Parkinson's Disease.
Journal: International journal of molecular sciences
In common: drosophila, 2 references
[8] doi:10.1016/j.psj.2026.107561 [code]
Integrated Analysis of SNPs and Structural Variations via High-depth Whole-genome Sequencing Reveals the Genetic Architecture and Optimizes Genomic Prediction in Chickens.
Journal: Poultry science
In common: other, genetics / omics, 3 references
[9] doi:10.7554/elife.90905 [code]
Altered reactivity to threatening stimuli in &lt;i&gt;Drosophila&lt;/i&gt; models of Parkinson's disease, revealed by a trial-based assay.
Journal: eLife
In common: drosophila, 2 references
[10] doi:10.1371/journal.pgen.1010657 [code]
IntroUNET: Identifying introgressed alleles via semantic segmentation.
Journal: PLoS genetics
In common: drosophila, 2 references

Contribute

The authors of this paper can claim it, correct its record and validate its tracing map, and the maintainers of its code (its owner, or a public member of its organization) correct what it says of their repository; anyone signed in can ask for its removal. Every request goes to OSCR's own machine, which answers it; your account page follows them.

Sign in with ORCID to claim this paper as one of its authors, correct its record or validate its tracing map: when the paper's metadata lists your ORCID iD, you are recognized at once. Maintainers of its code: sign in with GitHub, then claim the repository on your account page.

Request its removal

To ask OSCR to remove this record, the copies of its authors' scripts or its tracing map, use the removal request page: signed in, you say who you are, what to remove and why, then review and confirm the request. Published rules decide every request (how).

Discussion, reproductions, activity

Discussion: code errors and mismatches between the code and the paper about this paper and its code, from readers and its authors, beside the paper and its tracing map.

Reproductions: reports from readers who ran the authors' code and did not get the paper's result, what they ran, with which environment, commit and data.

Activity: what happens around this paper: new versions of its record, its map's validation, discussions and reproductions. It opens with sign-in.