About Meloidogyne chitwoodi
Meloidogyne chitwoodi, commonly known as the Columbia root-knot nematode (CRKN), is an important soilborne, sedentary endoparasite of potato. It is one of the most devastating pests of potato in the U.S. Pacific Northwest (PNW). Nematode-infected tubers develop external as well as internal defects, making the potato tubers unmarketable, and resulting in economic losses. M. chitwoodi can also infect tomato, sugar beet, wheat, and corn. It has a short life cycle (23 to 25 days), resulting in rapid population density build-up over a single cropping season.
Genome Assembly & Annotation
For this assembly, M. chitwoodi race 1 population, extracted from 3-month-old infected tomato plants, was used. This population did not reproduce on alfalfa (used as a rotation crop to control M. chitwoodi populations).
According to Bali S, et al., (2021), PacBio long sequencing reads were assembled using the SMRT analysis pipeline. Short Illumina reads were used to error correct PacBio data contigs using pilon v.1.22.
According to Bali S, et al., (2021), genome annotation was performed using the M. hapla protein dataset as Protein Homology Evidence and the SNAP training file prepared from the first round of annotation. EST evidence was used.
- Bali S, Hu S, Vining K, Brown C, Mojtahedi H, Zhang L, Gleason C, Sathuvalli V. Nematode Genome Announcement: Draft Genome of <i>Meloidogyne chitwoodi</i>, an Economically Important Pest of Potato in the Pacific Northwest. Mol Plant Microbe Interact, 2021;34(8):981-986
|Data Source||Northwest Potato Research Consortium|
This widget has been derived from the assembly-stats code developed by the Lepbase project at the University of Edinburgh