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Heterodera schachtii

BioProject PRJNA722882 | Data Source The H. schachtii genome sequencing consortium | Taxonomy ID 97005

About Heterodera schachtii

Heterodera schachtii, also known as the beet cyst nematode or sugarbeet nematode, is a plant pathogenic parasite which can infect more than 200 plants including the model plant Arabidopsis thaliana. H. schachtii is an important agricultural pest on sugar beet and brassicaceous crops in its own right and is closely related to the soybean cyst nematode, H. glycines, which is one of the severely economically damaging plant-parasitic nematodes worldwide.

Genome Assembly & Annotation

Assembly

The draft genome assembly was produced by The H. schachtii genome sequencing consortium. The assembly uses a combination of Pacific Biosciences sequencing, and Illumina sequencing. PacBio reads were assembled using wtdbg2. The assembly was submitted to decontamination with BlobTools, upgrade with FinisherSC, scaffolding with SSPACE_longread and gapFinisher, polishing with PacBio's smrttools and Pilon using the raw PacBio reads and the Illumina reads.

Annotation

The gene predictions were made by The H. schachtii genome sequencing consortium. An in-house pipeline was developed to generate gene models using Braker2 supplied with RNAseq data.

Assembly Statistics

AssemblyHsch_Bonn_V1.0, GCA_019095935.1
StrainBonn
Database VersionWBPS17
Genome Size179,246,932
Data SourceThe H. schachtii genome sequencing consortium
Annotation Version2021-10-WormBase

Gene counts

Coding genes26,739
Gene transcripts32,624

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