Isolation and characterization of microsatellite loci from a potential biofuel plant Miscanthus sinensis (Poaceae)

Hung, Kuo-Hsiang; Chiang, Tzen‐Yuh; Chiu, Chi-Te; Hsu, Tsai‐Wen; Ho, Chuan-Wen

doi:10.1007/s10592-008-9699-6

Cited by 40 publications

(33 citation statements)

References 9 publications

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“…It is interesting that despite the ability of M. sinensis to spread in the USA and form wild populations (Quinn , values for heterozygosity for the species overall were still smaller than expected for long-lived perennial species, outcrossing species, and wind-dispersed species (Nybom 2004). Our results are comparable with the average expected (0.58) and observed heterozygosity (0.19) values reported when microsatellite markers were developed for M. sinensis (Hung et al 2009), although fewer samples were used in that study. Few broad scale, populationlevel microsatellite-based studies have been published on outcrossing invasive plant species; however, and only a few involve outcrossing grasses (invasive or native) (e.g.…”

Section: Discussionsupporting

confidence: 72%

Genetic comparison of introduced and native populations of Miscanthus sinensis (Poaceae), a potential bioenergy crop

Quinn¹,

Culley²,

Stewart³

2012

Grassland Science

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Miscanthus sinensis Anderss. is a perennial grass being considered for bioenergy production in the United States (USA) and elsewhere. Because M. sinensis is already naturalized in the USA, it is important to examine its potential to spread with further introduction. Introduced populations may harbor substantial genetic diversity or enable genetic admixture, which may enhance adaptation to novel environments. Here we compare genetic diversity in introduced US populations with native Japanese populations to understand the potential for invasiveness through genetic means in M. sinensis. Using 11 microsatellite markers, we determined genetic variation and structure in populations within and across the introduced and native ranges. We also correlated genetic diversity with population size in each range. Genetic diversity was substantial and similar in all populations, with only allelic richness (A, Ap) significantly lower in the USA than in Japan. Japanese populations were slightly more differentiated (θ = 0.098) than those in the USA (θ = 0.078) although both exhibited significant genetic admixture and were composed of a number of different genetic groups (K = 3 or 7, depending on the STRUCTURE model). Genetic diversity (He) was positively correlated with population size, but only in the USA The lack of a genetic bottleneck and the consequent maintenance of genetic diversity and admixture in US populations suggest the potential for further spread of introduced populations, assuming such diversity is important for adaptation to novel environments. Potential invasiveness should be considered by breeders of new Miscanthus varieties for bioenergy and ornamental uses.

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Section: Discussionsupporting

confidence: 72%

Genetic comparison of introduced and native populations of Miscanthus sinensis (Poaceae), a potential bioenergy crop

Quinn¹,

Culley²,

Stewart³

2012

Grassland Science

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“…(). The accessions were initially screened with 85 SSRs (Table ), including 79 nuclear (Hung et al ., ; James et al ., ; Swaminathan et al ., ) and six chloroplast markers (de Cesare et al ., ). A final set of 64 nuclear and five chloroplast SSRs were used for the analyses.…”

Section: Methodsmentioning

confidence: 99%

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

et al. 2014

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Miscanthus 9 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.

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“…sinensis germplasm accessions [19]–[20] and molecular markers, mainly random amplified polymorphic DNA (RAPD) and amplified fragment length polymorphism (AFLP) [21]–[23]. To date, a limited number of SSR markers have been developed for Miscanthus [24]–[26]. The most recent studies reported a linkage map consisting of single nucleotide polymorphism(SNP)markers in M .…”

Section: Introductionmentioning

confidence: 99%

Genetic Diversity and Population Structure of Miscanthus sinensis Germplasm in China

Zhao

et al. 2013

PLoS ONE

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Miscanthus is a perennial rhizomatous C4 grass native to East Asia. Endowed with great biomass yield, high ligno-cellulose composition, efficient use of radiation, nutrient and water, as well as tolerance to stress, Miscanthus has great potential as an excellent bioenergy crop. Despite of the high potential for biomass production of the allotriploid hybrid M. ×giganteus, derived from M. sacchariflorus and M. sinensis, other options need to be explored to improve the narrow genetic base of M. ×giganteus, and also to exploit other Miscanthus species, including M. sinensis (2n = 2x = 38), as bioenergy crops. In the present study, a large number of 459 M. sinensis accessions, collected from the wide geographical distribution regions in China, were genotyped using 23 SSR markers transferable from Brachypodium distachyon. Genetic diversity and population structure were assessed. High genetic diversity and differentiation of the germplasm were observed, with 115 alleles in total, a polymorphic rate of 0.77, Nei’s genetic diversity index (He) of 0.32 and polymorphism information content (PIC) of 0.26. Clustering of germplasm accessions was primarily in agreement with the natural geographic distribution. AMOVA and genetic distance analyses confirmed the genetic differentiation in the M. sinensis germplasm and it was grouped into five clusters or subpopulations. Significant genetic variation among subpopulations indicated obvious genetic differentiation in the collections, but within-subpopulation variation (83%) was substantially greater than the between-subpopulation variation (17%). Considerable phenotypic variation was observed for multiple traits among 300 M. sinensis accessions. Nine SSR markers were found to be associated with heading date and biomass yield. The diverse Chinese M. sinensis germplasm and newly identified SSR markers were proved to be valuable for breeding Miscanthus varieties with desired bioenergy traits.

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Isolation and characterization of microsatellite loci from a potential biofuel plant Miscanthus sinensis (Poaceae)

Cited by 40 publications

References 9 publications

Genetic comparison of introduced and native populations of Miscanthus sinensis (Poaceae), a potential bioenergy crop

Genetic comparison of introduced and native populations of Miscanthus sinensis (Poaceae), a potential bioenergy crop

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

Genetic Diversity and Population Structure of Miscanthus sinensis Germplasm in China

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