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Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach)

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Relation http://oar.icrisat.org/10883/
http://dx.doi.org/10.1038/s41598-018-32674-x
10.1038/s41598-018-32674-x
 
Title Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach)
 
Creator Paudel, D
Kannan, B
Yang, X
Harris-Shultz, K
Thudi, M
Varshney, R K
Altpeter, F
Wang, J
 
Subject Pearl Millet
Genetics and Genomics
Africa
 
Description 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.
 
Publisher Nature Publishing Group
 
Date 2018-09
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights —
 
Identifier http://oar.icrisat.org/10883/1/Surveying%20the%20genome.pdf
Paudel, D and Kannan, B and Yang, X and Harris-Shultz, K and Thudi, M and Varshney, R K and Altpeter, F and Wang, J (2018) Surveying the genome and constructing a high-density genetic map of napiergrass (Cenchrus purpureus Schumach). Scientific Reports (TSI), 8 (1) (14419). pp. 1-11. ISSN 2045-2322