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  • Journal Of Nematology

 

research-article

The draft genome of Ditylenchus dipsaci

), to reduce heterozygosity. DNA was extracted from ~7,500 mixed-stage D. dipsaci, using the Qiagen DNeasy Blood & Tissue Kit (Valencia, CA). MUGQIC (Montréal, Canada) performed the library preparation (sheared large insert) and sequencing on a PacBio RSII instrument using 12 SMRT cells yielding 941,946 long reads at a mean size of 10,207 bp for an estimated coverage of 42×. Two assemblies were generated using CANU v1.7 (Koren et al., 2017), one with default parameters and one optimized for high

Benjamin Mimee, Etienne Lord, Pierre-Yves Véronneau, Rick Masonbrink, Qing Yu, Sebastian Eves-van den Akker

Journal of Nematology , 1–3

research-article

A draft genome of a field-collected Steinernema feltiae strain NW

., 2017). Often, contigs with low read support were highly fragmented and not informative in building gene models during the annotation process. Next, we polished the assembly by first aligning raw PacBio-h5 files to the assembly using the program pbalign following consensus calling using Quiver (SMRT analysis pipeline (v2.3)). Finally, we queried each contig in the assembly to genome sequences of the endosymbiont X. bovienii (GenBank assembly accession: GCA_000027225.1) using BLASTN (Altschul et al

Zhen Fu, Yuxiang Li, Axel A. Elling, William E. Snyder

Journal of Nematology , 1–7

research-article

Genome sequence of the root-knot nematode Meloidogyne luci

(Agilent) and a total of 10 µg of gDNA was used. The SMRTbell Express template prep kit (Pacific Biosciences) was used to prepare PacBio library >20 kb using standard protocol without shearing (Procedure & Checklist – Preparing >15 kb Libraries Using SMRTbell® Express Template Preparation Kit). Blue Pippin (Sage Science, MA, USA) was used for size selection (25 kb cutoff). Libraries were sequenced on the Sequel using v2.1 Sequencing and Binding kits generating 3,617,847 reads (42.4 Gb). We generated

Nik Susič, Georgios D. Koutsovoulos, Cristian Riccio, Etienne G. J. Danchin, Mark L. Blaxter, David H. Lunt, Polona Strajnar, Saša Širca, Gregor Urek, Barbara Gerič Stare

Journal of Nematology , 1–5

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