Genetic variation in Miscanthus × giganteus and the importance of estimating genetic distance thresholds for differentiating clones

Katarzyna Głowacka, Lindsay V. Clark, Shivani Adhikari, Junhua Peng, J. Ryan Stewart, Aya Nishiwaki, Toshihiko Yamada, Uffe Jørgensen, Trevor R. Hodkinson, Justin Gifford, John A. Juvik, Erik J. Sacks

Research output: Contribution to journalArticle

Abstract

Miscanthus × giganteus (Mxg) is an important bioenergy feedstock crop, however, genetic diversity among legacy cultivars may be severely constrained. Only one introduction from Japan to Denmark of this sterile, triploid, vegetatively propagated crop was recorded in the 1930s. We sought to determine if the Mxg cultivars in North America were all synonyms, and if they were derived from the European introduction. We used 64 nuclear and five chloroplast simple sequence repeat (SSR) markers to estimate genetic similarity for 27 Mxg accessions from North America, and compared them with six accessions from Europe, including the species' type-specimen. A subset of accessions was also evaluated by restriction-site associated DNA sequencing (RAD-seq). In addition, we assessed the potential of new crosses to increase Mxg genetic diversity by comparing eight new triploid Mxg progeny grown from seed, along with samples of the parental species M. sacchariflorus and M. sinensis. Estimates of genotyping error rates were essential for distinguishing between experimental error and true genotypic differences among accessions. Given differences in estimated error rates and costs per marker for SSRs and RAD-seq, the former is currently more cost-effective for determining if two accessions are genetically identical. We concluded that all of the Mxg legacy cultivars were derived via vegetative propagation from a single genet. In contrast with the Mxg legacy cultivars, genetic similarity to the type-specimen of eight new triploid Mxg progeny ranged from 0.46 to 0.56. Though genetic diversity among the Mxg legacy cultivars is critically low, new crosses can provide much-needed variation to growers.

Original languageEnglish (US)
Pages (from-to)386-404
Number of pages19
JournalGCB Bioenergy
Volume7
Issue number2
DOIs
StatePublished - Mar 1 2015

Fingerprint

Miscanthus giganteus
genetic distance
genetic variation
clone
cultivar
clones
triploidy
Crops
cultivars
DNA
type specimen
type collections
sequence analysis
Feedstocks
Seed
Costs
vegetative propagation
genet
crop
bioenergy

Keywords

  • Genetic diversity
  • Genotyping error
  • Interspecific hybrids
  • Miscanthus sacchariflorus
  • Miscanthus sinensis
  • RAD-seq
  • SSR

ASJC Scopus subject areas

  • Forestry
  • Renewable Energy, Sustainability and the Environment
  • Agronomy and Crop Science
  • Waste Management and Disposal

Cite this

Genetic variation in Miscanthus × giganteus and the importance of estimating genetic distance thresholds for differentiating clones. / Głowacka, Katarzyna; Clark, Lindsay V.; Adhikari, Shivani; Peng, Junhua; Stewart, J. Ryan; Nishiwaki, Aya; Yamada, Toshihiko; Jørgensen, Uffe; Hodkinson, Trevor R.; Gifford, Justin; Juvik, John A.; Sacks, Erik J.

In: GCB Bioenergy, Vol. 7, No. 2, 01.03.2015, p. 386-404.

Research output: Contribution to journalArticle

Głowacka, K, Clark, LV, Adhikari, S, Peng, J, Stewart, JR, Nishiwaki, A, Yamada, T, Jørgensen, U, Hodkinson, TR, Gifford, J, Juvik, JA & Sacks, EJ 2015, 'Genetic variation in Miscanthus × giganteus and the importance of estimating genetic distance thresholds for differentiating clones', GCB Bioenergy, vol. 7, no. 2, pp. 386-404. https://doi.org/10.1111/gcbb.12166
Głowacka, Katarzyna ; Clark, Lindsay V. ; Adhikari, Shivani ; Peng, Junhua ; Stewart, J. Ryan ; Nishiwaki, Aya ; Yamada, Toshihiko ; Jørgensen, Uffe ; Hodkinson, Trevor R. ; Gifford, Justin ; Juvik, John A. ; Sacks, Erik J. / Genetic variation in Miscanthus × giganteus and the importance of estimating genetic distance thresholds for differentiating clones. In: GCB Bioenergy. 2015 ; Vol. 7, No. 2. pp. 386-404.
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