An annotated CNS transcriptome of the medicinal leech, Hirudo verbana: De novo sequencing to characterize genes associated with nervous system activity

PloS One
Adam J NorthcuttDavid J Schulz

Abstract

The medicinal leech is one of the most venerated model systems for the study of fundamental nervous system principles, ranging from single-cell excitability to complex sensorimotor integration. Yet, molecular analyses have yet to be extensively applied to complement the rich history of electrophysiological study that this animal has received. Here, we generated the first de novo transcriptome assembly from the entire central nervous system of Hirudo verbana, with the goal of providing a molecular resource, as well as to lay the foundation for a comprehensive discovery of genes fundamentally important for neural function. Our assembly generated 107,704 contigs from over 900 million raw reads. Of these 107,704 contigs, 39,047 (36%) were annotated using NCBI's validated RefSeq sequence database. From this annotated central nervous system transcriptome, we began the process of curating genes related to nervous system function by identifying and characterizing 126 unique ion channel, receptor, transporter, and enzyme contigs. Additionally, we generated sequence counts to estimate the relative abundance of each identified ion channel and receptor contig in the transcriptome through Kallisto mapping. This transcriptome will serve as a...Continue Reading

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Citations

Feb 26, 2020·Journal of Neuroscience Research·Oliva Mota SeguraMichael W Baker
Aug 13, 2020·Proceedings. Biological Sciences·Ann Jane Tierney
Jan 24, 2021·Journal of Comparative Physiology. A, Neuroethology, Sensory, Neural, and Behavioral Physiology·James D AngstadtMegan K Connolly
Mar 27, 2021·BMC Genomics·Elizabeth Heath-HeckmanDavid Weisblat

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Datasets Mentioned

BETA
GGIQ00000000
SRR6782848
ARJ36889.1
AGL96589.1

Methods Mentioned

BETA
Illumina sequencing
RNA-seq

Software Mentioned

BUSCO
BLAST
SeqMan
DNAstar
Blast2GO
Trinity
Fastq
SeqMan NGen®
Open Reading Frame finder ( ORFfinder )
Trimmomatic

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