Genetic analysis and phenotypic associations for drought tolerance in Hordeum spontaneum introgression lines using SSR and SNP markers

Lakew, Berhane; Henry, Robert J.; Ceccarelli, Salvatore; Grando, S.; Eglinton, J.; Baum, Michaël

doi:10.1007/s10681-012-0674-4

Cited by 41 publications

(33 citation statements)

References 63 publications

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“…The potential risk of losing precious genetic alleles should be balanced by using presumably adaptive novelties, which were derived from climate change during 1980–2008 (Nevo et al ., ), in breeding programs for earliness and drought resistance. Wild barley has proved to be a useful source of drought tolerance that can be transferred to domesticated barley with marker‐assisted selection (Lakew et al ., , ).…”

Section: Wild Crop Relativesmentioning

confidence: 99%

Exploring natural selection to guide breeding for agriculture

Henry

Nevo

2014

Plant Biotechnology Journal

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Summary Climate change threatens reduced crop production and poses major challenges to food security. The breeding of climate‐resilient crop varieties is increasingly urgent. Wild plant populations evolve to cope with changes in their environment due to the forces of natural selection. This adaptation may be followed over time in populations at the same site or explored by examining differences between populations growing in different environments or across an environmental gradient. Survival in the wild has important differences to the objective of agriculture to maximize crop yields. However, understanding the nature of adaptation in wild populations at the whole genome level may suggest strategies for crop breeding to deliver agricultural production with more resilience to climate variability.

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Section: Wild Crop Relativesmentioning

confidence: 99%

Exploring natural selection to guide breeding for agriculture

Henry

Nevo

2014

Plant Biotechnology Journal

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“…spontaneum; in the following Hs ). Hs has been repeatedly used to improve Hv elite cultivars (Kalladan et al ., ; Lakew et al ., ; Nevo, ). H. bulbosum L. (in the following Hb ) is the only member of the secondary gene pool of barley.…”

Section: Introductionmentioning

confidence: 99%

Unlocking the secondary gene‐pool of barley with next‐generation sequencing

Wendler

Mascher

Nöh

et al. 2014

Plant Biotechnology Journal

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Accession numbers: Accession numbers for sequence data generated in this study are ERP004444 (GBS reads) and ERP004445 (exome capture reads).Keywords: Hordeum bulbosum, crop wild relatives, introgression line, genotyping-by-sequencing, exome capture, next-generation sequencing. SummaryCrop wild relatives (CWR) provide an important source of allelic diversity for any given crop plant species for counteracting the erosion of genetic diversity caused by domestication and elite breeding bottlenecks. Hordeum bulbosum L. is representing the secondary gene pool of the genus Hordeum. It has been used as a source of genetic introgressions for improving elite barley germplasm (Hordeum vulgare L.). However, genetic introgressions from H. bulbosum have yet not been broadly applied, due to a lack of suitable molecular tools for locating, characterizing, and decreasing by recombination and marker-assisted backcrossing the size of introgressed segments. We applied next-generation sequencing (NGS) based strategies for unlocking genetic diversity of three diploid introgression lines of cultivated barley containing chromosomal segments of its close relative H. bulbosum. Firstly, exome capture-based (re)-sequencing revealed large numbers of single nucleotide polymorphisms (SNPs) enabling the precise allocation of H. bulbosum introgressions. This SNP resource was further exploited by designing a custom multiplex SNP genotyping assay. Secondly, twoenzyme-based genotyping-by-sequencing (GBS) was employed to allocate the introgressed H. bulbosum segments and to genotype a mapping population. Both methods provided fast and reliable detection and mapping of the introgressed segments and enabled the identification of recombinant plants. Thus, the utilization of H. bulbosum as a resource of natural genetic diversity in barley crop improvement will be greatly facilitated by these tools in the future.

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“…Microsatellite or SSR markers have been extensively used in barley in different genetic studies including linkage mapping, germplasm surveys and phylogenetic analysis (Lakew et al. ).…”

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confidence: 99%

“…A variety of molecular markers like RAPD, RFLP, AFLP and simple sequence repeats (SSRs) have been used to characterize germplasm and in genetic diversity studies (Graner et al 2003). Microsatellite or SSR markers have been extensively used in barley in different genetic studies including linkage mapping, germplasm surveys and phylogenetic analysis (Lakew et al 2013).…”

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confidence: 99%

Comparative assessment of genetic diversity between wild and cultivated barley using gSSR and EST‐SSR markers

Nandha

Singh

2013

Plant Breeding

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Barley is an economically important cereal crop especially for feed and malt production, but its value as food is increasing due to various health benefits. Wild barley is the progenitor of modern day barley cultivars possessing a rich source of genetic variation for various biotic and abiotic stresses. Species‐specific molecular markers have great potential for efficient introgression of these important traits from wild to cultivated barley. In the present study, 140 microsatellite markers were screened to assess the genetic variation and species‐specific markers between wild and cultivated germplasm. Of these 140, a polymorphic set of 48 genomic (gSSR) and 16 EST‐SSRs amplified a total of 685 alleles. Cluster analysis discriminated all 47 accessions and classified wild and cultivated genotypes into two distinct groups, according to their geographic origin. Our analysis indicated that gSSRs were more informative than EST‐based SSRs. Results from PCoA analysis for species‐specific alleles clearly suggest that wild barley genotypes contain a higher number of unique alleles.

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Genetic analysis and phenotypic associations for drought tolerance in Hordeum spontaneum introgression lines using SSR and SNP markers

Cited by 41 publications

References 63 publications

Exploring natural selection to guide breeding for agriculture

Exploring natural selection to guide breeding for agriculture

Unlocking the secondary gene‐pool of barley with next‐generation sequencing

Comparative assessment of genetic diversity between wild and cultivated barley using gSSR and EST‐SSR markers

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