ArticleGenetics2015
A Male-Specific Genetic Map of the Microcrustacean Daphnia pulex Based on Single-Sperm Whole-Genome Sequencing.
Article in Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- A retrospective and regional approach assessing the genomic diversity ofNAR genomics and bioinformatics · 2022Article
- Review
- Evolutionary Genomics of a Subdivided Species.Molecular biology and evolution · 2022Article
- Construction of a chromosome-level Japanese stickleback species genome using ultra-dense linkage analysis with single-cell sperm sequencing.NAR genomics and bioinformatics · 2022Article
- Salmonella enterica subsp. enterica Welikade: guideline for phylogenetic analysis of serovars rarely involved in foodborne outbreaks.BMC genomics · 2022Article
- No evidence for genetic sex determination inRoyal Society open science · 2021Article
- Review
- Adaptive Divergence of Meiotic Recombination Rate in Ecological Speciation.Genome biology and evolution · 2020Article
- From molecules to populations: appreciating and estimating recombination rate variation.Nature reviews. Genetics · 2020Review
- Inference of past demography, dormancy and self-fertilization rates from whole genome sequence data.PLoS genetics · 2020Article
- Genetic and metabolic signatures of Salmonella enterica subsp. enterica associated with animal sources at the pangenomic scale.BMC genomics · 2019Article
- Genetic control of male production inProceedings of the National Academy of Sciences of the United States of America · 2019Article
- Fitness and Genomic Consequences of Chronic Exposure to Low Levels of Copper and Nickel inG3 (Bethesda, Md.) · 2019Article
- A Simple and Robust Statistical Method to Define Genetic Relatedness of Samples Related to Outbreaks at the Genomic Scale - Application to RetrospectiveFrontiers in microbiology · 2019Article
- Large-Scale Genomic Analyses and Toxinotyping ofFrontiers in microbiology · 2019Article
- Identification of General Patterns of Sex-Biased Expression inG3 (Bethesda, Md.) · 2018Article
- Article
- Variation in recombination frequency and distribution across eukaryotes: patterns and processes.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Review
- Single-sperm sequencing reveals the accelerated mitochondrial mutation rate in maleProceedings. Biological sciences · 2017Article
- A New Reference Genome Assembly for the MicrocrustaceanG3 (Bethesda, Md.) · 2017Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Genetic linkage maps are critical for assembling draft genomes to a meaningful chromosome level and for deciphering the genomic underpinnings of biological traits. The estimates of recombination rates derived from genetic maps also play an important role in understanding multiple aspects of genomic evolution such as nucleotide substitution patterns and accumulation of deleterious mutations. In this study, we developed a high-throughput experimental approach that combines fluorescence-activated cell sorting, whole-genome amplification, and short-read sequencing to construct a genetic map using single-sperm cells. Furthermore, a computational algorithm was developed to analyze single-sperm whole-genome sequencing data for map construction. These methods allowed us to rapidly build a male-specific genetic map for the freshwater microcrustacean Daphnia pulex, which shows significant improvements compared to a previous map. With a total of mapped 1672 haplotype blocks and an average intermarker distance of 0.87 cM, this map spans a total genetic distance of 1451 Kosambi cM and comprises 90% of the resolved regions in the current Daphnia reference assembly. The map also reveals the mistaken mapping of seven scaffolds in the reference assembly onto chromosome II by a previous microsatellite map based on F2 crosses. Our approach can be easily applied to many other organisms and holds great promise for unveiling the intragenomic and intraspecific variation in the recombination rates.
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