title: Combining Next Generation Sequencing with Bulked Segregant Analysis to Fine Map a Stem Moisture Locus in Sorghum (Sorghum bicolor L. Moench).
abstract: Sorghum is one of the most promising bioenergy crops. Stem juice yield, together with stem sugar concentration, determines sugar yield in sweet sorghum. Bulked segregant analysis (BSA) is a gene mapping technique for identifying genomic regions containing genetic loci affecting a trait of interest that when combined with deep sequencing could effectively accelerate the gene mapping process. In this study, a dry stem sorghum landrace was characterized and the stem water controlling locus, qSW6, was fine mapped using QTL analysis and the combined BSA and deep sequencing technologies. Results showed that: (i) In sorghum variety Jiliang 2, stem water content was around 80% before flowering stage. It dropped to 75% during grain filling with little difference between different internodes. In landrace G21, stem water content keeps dropping after the flag leaf stage. The drop from 71% at flowering time progressed to 60% at grain filling time. Large differences exist between different internodes with the lowest (51%) at the 7th and 8th internodes at dough stage. (ii) A quantitative trait locus (QTL) controlling stem water content mapped on chromosome 6 between SSR markers Ch6-2 and gpsb069 explained about 34.7-56.9% of the phenotypic variation for the 5th to 10th internodes, respectively. (iii) BSA and deep sequencing analysis narrowed the associated region to 339 kb containing 38 putative genes. The results could help reveal molecular mechanisms underlying juice yield of sorghum and thus to improve total sugar yield.
authors.affiliation: Key Laboratory of Minor Cereal Crops in Hebei Province/Department of Biotechnology, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Yucui
authors.initials: Y
authors.lastname: Han
authors.affiliation: Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Peng
authors.initials: P
authors.lastname: Lv
authors.affiliation: Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Shenglin
authors.initials: S
authors.lastname: Hou
authors.affiliation: Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Suying
authors.initials: S
authors.lastname: Li
authors.affiliation: Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Guisu
authors.initials: G
authors.lastname: Ji
authors.affiliation: Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Xue
authors.initials: X
authors.lastname: Ma
authors.affiliation: Key Laboratory of Minor Cereal Crops in Hebei Province/Department of Biotechnology, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China; Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Ruiheng
authors.initials: R
authors.lastname: Du
authors.affiliation: Key Laboratory of Minor Cereal Crops in Hebei Province/Department of Biotechnology, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China; Hebei Branch of the National Sorghum Improvement Center/ Department of Sorghum Breeding, Institute of Millet Crops, Hebei Academy of Agricultural & Forestry Sciences, Shijiazhuang, China.
authors.forename: Guoqing
authors.initials: G
authors.lastname: Liu
mesh_terms: D020090:Chromosome Segregation / Q000235:genetics*; D032461:Chromosomes, Plant / Q000235:genetics; D017343:Genes, Plant; D056726:Genetic Association Studies; D008040:Genetic Linkage; D056426:Genetic Loci; D005819:Genetic Markers; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006813:Humidity; D058977:Molecular Sequence Annotation; D020161:Physical Chromosome Mapping / Q000379:methods*; D018547:Plant Stems / Q000502:physiology*; D040641:Quantitative Trait Loci / Q000235:genetics; D045868:Sorghum / Q000235:genetics* / Q000254:growth & development
chemical_list: D005819:Genetic Markers