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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Updated: Jun 15, 2025

Sand Fly Phlebotomus papatasi Embryo Microinjection for CRISPR/Cas9 Mutagenesis

Sand Fly Phlebotomus papatasi Embryo Microinjection for CRISPR/Cas9 Mutagenesis

Published on: November 17, 2020

Improved high quality sand fly assemblies enabled by ultra low input long read sequencing.

Michelle Huang¹, Sarah Kingan², Douglas Shoue¹

¹Department of Biological Sciences, University of Notre Dame, Notre Dame, IN, USA.

Scientific Data

|August 24, 2024

Summary

This summary is machine-generated.

New high-quality reference genomes for Phlebotomus papatasi and Lutzomyia longipalpis sand flies were generated. These improved assemblies will advance research into leishmaniasis vector biology and epidemiology.

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Area of Science:

Genomics
Vector Biology
Tropical Diseases

Background:

Phlebotomine sand flies transmit leishmaniasis, a neglected tropical disease.
Previous reference genomes were limited, hindering high-resolution genomic studies of these disease vectors.

Purpose of the Study:

To generate updated, high-quality chromosome-level reference genome assemblies for two key leishmaniasis vectors: Phlebotomus papatasi and Lutzomyia longipalpis.
To provide enhanced genomic resources for understanding sand fly biology and leishmaniasis epidemiology.

Main Methods:

Utilized PacBio HiFi long-read sequencing and Hi-C technology.
Employed an ultra-low input library preparation protocol.
Generated chromosome-level assemblies for P. papatasi and Lu. longipalpis.

Main Results:

Achieved a 351.6 Mb assembly for P. papatasi with scaffold N50 of 111.8 Mb.
Achieved a 147.8 Mb assembly for Lu. longipalpis with scaffold N50 of 40.6 Mb.
BUSCO assessments confirmed high completeness of insecta orthologs (94.5% for P. papatasi, 95.6% for Lu. longipalpis).

Conclusions:

The new reference assemblies represent a significant improvement over previous versions.
These high-quality genomes will be crucial for future genomic research on phlebotomine sand flies and leishmaniasis.
Facilitates deeper insights into vector evolution and disease transmission dynamics.