Journal article
Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach)
Scientific Reports, Vol.8(1), Art. 14419
2018
Abstract
Napiergrass (Cenchrus purpureus Schumach) is a tropical forage grass and a promising lignocellulosic biofuel feedstock due to its high biomass yield, persistence, and nutritive value. However, its utilization for breeding has lagged behind other crops due to limited genetic and genomic resources. In this study, next-generation sequencing was first used to survey the genome of napiergrass. Napiergrass sequences displayed high synteny to the pearl millet genome and showed expansions in the pearl millet genome along with genomic rearrangements between the two genomes. An average repeat content of 27.5% was observed in napiergrass including 5,339 simple sequence repeats (SSRs). Furthermore, to construct a high-density genetic map of napiergrass, genotyping-by-sequencing (GBS) was employed in a bi-parental population of 185 F1 hybrids. A total of 512 million high quality reads were generated and 287,093 SNPs were called by using multiple de-novo and reference-based SNP callers. Single dose SNPs were used to construct the first high-density linkage map that resulted in 1,913 SNPs mapped to 14 linkage groups, spanning a length of 1,410 cM and a density of 1 marker per 0.73 cM. This map can be used for many further genetic and genomic studies in napiergrass and related species.
Details
- Title
- Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach)
- Authors/Creators
- D. Paudel (Author/Creator) - University of FloridaB. Kannan (Author/Creator) - University of FloridaX. Yang (Author/Creator) - University of FloridaK. Harris-Shultz (Author/Creator) - Agricultural Research ServiceM. Thudi (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsR.K. Varshney (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsF. Altpeter (Author/Creator) - University of FloridaJ. Wang (Author/Creator) - University of Florida
- Publication Details
- Scientific Reports, Vol.8(1), Art. 14419
- Publisher
- Springer Nature
- Identifiers
- 991005543716107891
- Copyright
- © 2018 The Authors.
- Murdoch Affiliation
- Murdoch University
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Genetics & Heredity
- ESI research areas
- Molecular Biology & Genetics