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High Contiguity de novo Genome Sequence Assembly of Trifoliate Yam ( Dioscorea dumetorum ) Using Long Read Sequencing

Authors
  • Siadjeu, Christian1, 2
  • Pucker, Boas2, 3
  • Viehöver, Prisca2
  • Albach, Dirk C.1
  • Weisshaar, Bernd2
  • 1 (D.C.A.)
  • 2 (P.V.)
  • 3 Molecular Genetics and Physiology of Plants, Faculty of Biology and Biotechnology, Ruhr-University Bochum, Universitätsstraße 150, 44801 Bochum, Germany
Type
Published Article
Journal
Genes
Publisher
MDPI AG
Publication Date
Mar 04, 2020
Volume
11
Issue
3
Identifiers
DOI: 10.3390/genes11030274
PMID: 32143301
PMCID: PMC7140821
Source
PubMed Central
Keywords
License
Green

Abstract

Trifoliate yam ( Dioscorea dumetorum ) is one example of an orphan crop, not traded internationally. Post-harvest hardening of the tubers of this species starts within 24 h after harvesting and renders the tubers inedible. Genomic resources are required for D. dumetorum to improve breeding for non-hardening varieties as well as for other traits. We sequenced the D. dumetorum genome and generated the corresponding annotation. The two haplophases of this highly heterozygous genome were separated to a large extent. The assembly represents 485 Mbp of the genome with an N50 of over 3.2 Mbp. A total of 35,269 protein-encoding gene models as well as 9941 non-coding RNA genes were predicted, and functional annotations were assigned.

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