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Description

Title:Data from: High-density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe
Author(s):Liu, Siyao; Clark, Lindsay V.; Swaminathan, Kankshita; Gifford, Justin M.; Juvik, John A.; Sacks, Erik J.
Subject(s):bioenergy
chlorophyll
chloroplast
gene
linkage QTL
mapping
Poaceae
restriction site-associated DNA sequencing
single nucleotide polymorphisms
synteny
Abstract:Miscanthus is a perennial C4 grass that has recently become an important bioenergy crop. The efficiency of breeding improved Miscanthus biomass cultivars could be greatly increased by marker-assisted selection. Thus, a high-density genetic map is critical to Miscanthus improvement. In this study, a mapping population of 261 F1 progeny was developed from a cross between two diploid M. sinensis cultivars, ‘Strictus’ and ‘Kaskade’. High-density genetic maps for the two parents were produced with 3044 newly developed single nucleotide polymorphisms (SNPs) obtained from restriction site-associated DNA sequencing, and 138 previously mapped GoldenGate SNPs. The female parent (‘Strictus’) map spanned 1599 cM, with 1989 SNPs on 19 linkage groups, and an average intermarker spacing of 0.8 cM. The length of the male parent (‘Kaskade’) map was 1612 cM, with 1821 SNPs, and an average intermarker spacing of 0.9 cM. The utility of the map was confirmed by locating quantitative trait loci (QTL) for the zebra-striped trait, which was segregating in this population. Three QTL for zebra-striped presence/absence (zb1, zb2 on LG 7, and zb3 on LG 10) and three for zebra-striped intensity (zbi1, zbi2, zbi3 on LGs 7, 10, 3) were identified. Each allele that caused striping was recessive. Incomplete penetrance was observed for each zb QTL, but penetrance was greatest when two or more zb QTL were homozygous for the causative alleles. Similarly, the intensity of striping was greatest when two or more zbi QTL were homozygous for alleles that conferred the trait. Comparative mapping indicated putative correspondence between zb3 and/or zbi2 on LG 10 to previously sequenced genes conferring zebra stripe in maize and rice. These results demonstrate that the new map is useful for identifying marker–trait associations. The mapped markers will become a valuable community resource, facilitating comparisons among studies and the breeding of Miscanthus.
Issue Date:2015-07-28
Publisher:Wiley
Citation Info:Siyao Liu, Lindsay V. Clark, Kankshita Swaminathan, Justin M. Gifford, John A. Juvik, Erik J. Sacks (2015) "High density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe." GCB Bioenergy. doi:10.1111/gcbb.12275
Genre:Data
Type:Text
Dataset / Spreadsheet
Language:English
URI:http://hdl.handle.net/2142/79522
DOI:10.1111/gcbb.12275
Sponsor:Energy Biosciences Institute
HATCH project ILLU-802-311
DOE Office of Science, Office of Biological and Environmental Research (BER), Grant No. DE-SC0006634
Date Available in IDEALS:2015-09-20


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