High‐density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe

Liu, Siyao; Clark, Lindsay V.; Swaminathan, Kankshita; Gifford, Justin M.; Juvik, John A.; Sacks, Erik J.

doi:10.1111/gcbb.12275

Title: High‐density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe

Journal Article · Tue Jul 28 00:00:00 EDT 2015 · Global Change Biology. Bioenergy

DOI:https://doi.org/10.1111/gcbb.12275· OSTI ID:1246699

Liu, Siyao ^[1]; Clark, Lindsay V. ^[1]; Swaminathan, Kankshita ^[2]; Gifford, Justin M. ^[1]; Juvik, John A. ^[1]; Sacks, Erik J. ^[1]

Department of Crop Sciences University of Illinois at Urbana‐Champaign 1201 W Gregory Dr. Urbana IL 61801 USA
Energy Biosciences Institute Institute for Genomic Biology University of Illinois at Urbana‐Champaign 1206 W Gregory Dr. Urbana IL 61801 USA

Abstract Miscanthus is a perennial C ₄ 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 F ₁ 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 ( SNP s) obtained from restriction site‐associated DNA sequencing, and 138 previously mapped GoldenGate SNP s. The female parent (‘Strictus’) map spanned 1599 cM, with 1989 SNP s 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 SNP s, 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 LG s 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 .

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Research Organization:: Univ. of Illinois at Urbana-Champaign, IL (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: SC0006634

OSTI ID:: 1246699

Alternate ID(s):: OSTI ID: 1345702; OSTI ID: 1436490

Journal Information:: Global Change Biology. Bioenergy, Journal Name: Global Change Biology. Bioenergy Vol. 8 Journal Issue: 3; ISSN 1757-1693

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

Citation Metrics:

Cited by: 12 works

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59 BASIC BIOLOGICAL SCIENCES
bioenergy
chlorophyll
chloroplast
gene
linkage QTL
mapping
Poaceae
restriction site-associated DNA sequencing
single nucleotide polymorphisms
synteny

Title: High‐density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe

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