A genetic basis for facultative parthenogenesis in Drosophila

Sperling, Alexis L.; Fabian, Daniel K.; Garrison, Erik; Glover, David M.

doi:10.1016/j.cub.2023.07.006

Cited by 9 publications

(32 citation statements)

References 91 publications

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“…These images were originally published by Sperling et al. 1 Coverage analysis with bedtools 8 using the input Nanopore reads to measure the completeness of the assemblies. Map assemblies.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

“…These images were originally published by Sperling et al. 1 Self-heterozygosity analysis. Establish estimates for pairwise heterozygosity in each strain.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

“…These images were originally published by Sperling et al. 1 Determine genes per contig by matching to D. melanogaster chromosomes using nucmer 15 Run nucmer on the hard-masked genome.

nucmer rep_masked/dmel-all-chromosome-r6.27.fasta.masked Sample_2.masked_headerEdit --coords --maxgap 500 --maxmatch --prefix Dmerc_Dmel_hardmask_nucmer_maxmatch_maxgap500 Analyze proportions.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

“… Nanopore FLO-MIN106D KAPA HyperPrep kits for NGS DNA library prep Roche KK8542 NEBNext Ultra II DNA library prep kit New England Biolabs E7645S Deposited data D. mercatorum raw and analyzed transcriptomics data Sperling et al. 1 ENA: PRJEB43100 D. mercatorum raw and analyzed genomics data Sperling et al. 1 ENA: PRJEB64421 D. melanogaster gene names and FBgn numbers http://flybase.org/ fbgn_NAseq_Uniprot_fb_2020_03.tsv D. melanogaster CDS (reference version 6.35) and Genome (v6.27) https://www.ncbi.nlm.nih.gov/genome?term=vih&cmd=DetailsSearch D. melanogaster Genome Release 6 plus ISO1 MT The FlyBase Consortium/Berkeley Drosophila Genome Project/Celera Genomics https://www.ncbi.nlm.nih.gov/assembly/GCF_000001215.4/ Experimental models: Organisms/strains D. mercatorum wild-type, adult females, freshly eclosed.…”

Section: Key Resources Tablementioning

confidence: 99%

“… 1 ENA: PRJEB43100 D. mercatorum raw and analyzed genomics data Sperling et al. 1 ENA: PRJEB64421 D. melanogaster gene names and FBgn numbers http://flybase.org/ fbgn_NAseq_Uniprot_fb_2020_03.tsv D. melanogaster CDS (reference version 6.35) and Genome (v6.27) https://www.ncbi.nlm.nih.gov/genome?term=vih&cmd=DetailsSearch D. melanogaster Genome Release 6 plus ISO1 MT The FlyBase Consortium/Berkeley Drosophila Genome Project/Celera Genomics https://www.ncbi.nlm.nih.gov/assembly/GCF_000001215.4/ Experimental models: Organisms/strains D. mercatorum wild-type, adult females, freshly eclosed. Cornell Stock Centre CSC 15082-1511.00 D. mercatorum parthenogenetic, adult females, freshly eclosed.…”

Section: Key Resources Tablementioning

confidence: 99%

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Protocol for preparing Drosophila genomic DNA to create chromosome-level de novo genome assemblies

Sperling,

Fabian,

Garrison

et al. 2024

STAR Protocols

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“…These images were originally published by Sperling et al. 1 Coverage analysis with bedtools 8 using the input Nanopore reads to measure the completeness of the assemblies. Map assemblies.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

“…These images were originally published by Sperling et al. 1 Self-heterozygosity analysis. Establish estimates for pairwise heterozygosity in each strain.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

“…These images were originally published by Sperling et al. 1 Determine genes per contig by matching to D. melanogaster chromosomes using nucmer 15 Run nucmer on the hard-masked genome.

nucmer rep_masked/dmel-all-chromosome-r6.27.fasta.masked Sample_2.masked_headerEdit --coords --maxgap 500 --maxmatch --prefix Dmerc_Dmel_hardmask_nucmer_maxmatch_maxgap500 Analyze proportions.…”

Section: Step-by-step Methods Detailsmentioning

confidence: 99%

Section: Key Resources Tablementioning

confidence: 99%

Section: Key Resources Tablementioning

confidence: 99%

See 3 more Smart Citations

Protocol for preparing Drosophila genomic DNA to create chromosome-level de novo genome assemblies

Sperling,

Fabian,

Garrison

et al. 2024

STAR Protocols

Self Cite

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Facultative parthenogenesis discovered for the first time in Jamaican boa (Chilabothrus subflavus) using novel microsatellite markers

Bailey,

Righton,

Reeves

et al. 2024

Zoo Biology

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The mode of reproduction most often seen in snakes is sexual, but studies have noted facultative parthenogenesis in at least six families. Here, we provide evidence for the first observed case of facultative parthenogenesis in a captive Jamaican boa (Chilabothrus subflavus). A 7‐year‐old female Jamaican boa, isolated since birth, was found to have produced a litter of 15 offspring. To provide molecular DNA evidence of parthenogenesis, 13 new microsatellite loci were isolated in the species. All offspring were found to be homozygous at each locus and only possess alleles found in the dam, implicating that they were born from asexual reproduction. Several developmental abnormalities, including stillbirths and spinal deformities, were noted in the litter which may be explained by their increased level of homozygosity. To preserve genetic diversity in the captive population, research should be conducted to understand the prevalence of this mode of reproduction and to guide future management decisions of this IUCN listed Vulnerable species.

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Reproductive biology: A genetic recipe for parthenogenesis

Thomalla,

Wolfner

2023

Current Biology

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A genetic basis for facultative parthenogenesis in Drosophila

Cited by 9 publications

References 91 publications

Protocol for preparing Drosophila genomic DNA to create chromosome-level de novo genome assemblies

Protocol for preparing Drosophila genomic DNA to create chromosome-level de novo genome assemblies

Facultative parthenogenesis discovered for the first time in Jamaican boa (Chilabothrus subflavus) using novel microsatellite markers

Reproductive biology: A genetic recipe for parthenogenesis

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