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Single-embryo RNA sequencing for continuous and sex-specific gene expression analysis on Drosophila.

ABSTRACT: Exploring early embryonic gene expression is challenging due to the rate of development and the limited material available. Here, we present a protocol for ordering Drosophila embryos along a developmental pseudo-time trajectory and determining the sex of the embryos using RNA-seq data. We describe steps for sample collection, RNA isolation, RNA-seq, and RNA-seq data processing. We then detail the establishment of a continuous transcriptome dataset for assessing gene expression throughout early development and in a sex-specific manner. For complete details on the use and execution of this protocol, please refer to Pérez-Mojica et al.¹.

SUBMITTER: Perez-Mojica JE

PROVIDER: S-EPMC10493594 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature

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Single-embryo RNA sequencing for continuous and sex-specific gene expression analysis on Drosophila.

Pérez-Mojica J Eduardo JE Enders Lennart L Lau Kin H KH Lempradl Adelheid A

STAR protocols 20230907 3

Exploring early embryonic gene expression is challenging due to the rate of development and the limited material available. Here, we present a protocol for ordering Drosophila embryos along a developmental pseudo-time trajectory and determining the sex of the embryos using RNA-seq data. We describe steps for sample collection, RNA isolation, RNA-seq, and RNA-seq data processing. We then detail the establishment of a continuous transcriptome dataset for assessing gene expression throughout early ...[more]

PMID: 37682716

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