Dataset Information

Retrospective view of North American potato (Solanum tuberosum L.) breeding in the 20th and 21st centuries.

ABSTRACT: Cultivated potato (Solanum tuberosum L.), a vegetatively propagated autotetraploid, has been bred for distinct market classes, including fresh market, pigmented, and processing varieties. Breeding efforts have relied on phenotypic selection of populations developed from intra- and intermarket class crosses and introgressions of wild and cultivated Solanum relatives. To retrospectively explore the effects of potato breeding at the genome level, we used 8303 single-nucleotide polymorphism markers to genotype a 250-line diversity panel composed of wild species, genetic stocks, and cultivated potato lines with release dates ranging from 1857 to 2011. Population structure analysis revealed four subpopulations within the panel, with cultivated potato lines grouping together and separate from wild species and genetic stocks. With pairwise kinship estimates clear separation between potato market classes was observed. Modern breeding efforts have scarcely changed the percentage of heterozygous loci or the frequency of homozygous, single-dose, and duplex loci on a genome level, despite concerted efforts by breeders. In contrast, clear selection in less than 50 years of breeding was observed for alleles in biosynthetic pathways important for market class-specific traits such as pigmentation and carbohydrate composition. Although improvement and diversification for distinct market classes was observed through whole-genome analysis of historic and current potato lines, an increased rate of gain from selection will be required to meet growing global food demands and challenges due to climate change. Understanding the genetic basis of diversification and trait improvement will allow for more rapid genome-guided improvement of potato in future breeding efforts.

SUBMITTER: Hirsch CN

PROVIDER: S-EPMC3689798 | biostudies-other | 2013 Jun

REPOSITORIES: biostudies-other

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Retrospective view of North American potato (Solanum tuberosum L.) breeding in the 20th and 21st centuries.

Hirsch Candice N CN Hirsch Cory D CD Felcher Kimberly K Coombs Joseph J Zarka Dan D Van Deynze Allen A De Jong Walter W Veilleux Richard E RE Jansky Shelley S Bethke Paul P Douches David S DS Buell C Robin CR

G3 (Bethesda, Md.) 20130621 6

Cultivated potato (Solanum tuberosum L.), a vegetatively propagated autotetraploid, has been bred for distinct market classes, including fresh market, pigmented, and processing varieties. Breeding efforts have relied on phenotypic selection of populations developed from intra- and intermarket class crosses and introgressions of wild and cultivated Solanum relatives. To retrospectively explore the effects of potato breeding at the genome level, we used 8303 single-nucleotide polymorphism markers ...[more]

PMID: 23589519

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Project description:BACKGROUND: Invertases are ubiquitous enzymes that irreversibly cleave sucrose into fructose and glucose. Plant invertases play important roles in carbohydrate metabolism, plant development, and biotic and abiotic stress responses. In potato (Solanum tuberosum), invertases are involved in 'cold-induced sweetening' of tubers, an adaptive response to cold stress, which negatively affects the quality of potato chips and French fries. Linkage and association studies have identified quantitative trait loci (QTL) for tuber sugar content and chip quality that colocalize with three independent potato invertase loci, which together encode five invertase genes. The role of natural allelic variation of these genes in controlling the variation of tuber sugar content in different genotypes is unknown. RESULTS: For functional studies on natural variants of five potato invertase genes we cloned and sequenced 193 full-length cDNAs from six heterozygous individuals (three tetraploid and three diploid). Eleven, thirteen, ten, twelve and nine different cDNA alleles were obtained for the genes Pain-1, InvGE, InvGF, InvCD141 and InvCD111, respectively. Allelic cDNA sequences differed from each other by 4 to 9%, and most were genotype specific. Additional variation was identified by single nucleotide polymorphism (SNP) analysis in an association-mapping population of 219 tetraploid individuals. Haplotype modeling revealed two to three major haplotypes besides a larger number of minor frequency haplotypes. cDNA alleles associated with chip quality, tuber starch content and starch yield were identified. CONCLUSIONS: Very high natural allelic variation was uncovered in a set of five potato invertase genes. This variability is a consequence of the cultivated potato's reproductive biology. Some of the structural variation found might underlie functional variation that influences important agronomic traits such as tuber sugar content. The associations found between specific invertase alleles and chip quality, tuber starch content and starch yield will facilitate the selection of superior potato genotypes in breeding programs.

Project description:We evaluate bioclimatic changes in Kazakhstan from the end of the 20th century until the middle of the 21st century to offer natural resource managers a tool that facilitates their decision-making on measures to adapt agriculture and environmental care to foreseeable climate change. We use climatic data from the "Providing REgional Climates for Impact Studies" (PRECIS) prediction and study them following the Worldwide Bioclimatic Classification System (WBCS) of Rivas-Martínez. For three 25-year intervals (1980-2004, 2010-2034 and 2035-2059), we identify the continentality, macrobioclimates, bioclimates, bioclimatic variants, thermotypes, ombrotypes and isobioclimates of the study area. The results of the work allow us to: locate the territories where bioclimatic conditions will change, quantify the magnitude of the predicted climate changes, and determine the trends of predictable climate change. We present the results in maps, tables and graphs. For the 80-year interval, we identify 3 macroclimates, 3 bioclimatic variants, 10 bioclimates, 11 thermotypes, 10 ombrotypes and 43 isobioclimates. Some of those found bioclimates, thermotypes, ombrotypes and isobioclimates are only located in the E, SE and S mountains, where they occupy very small areas, that decrease in a generalized way as the 20th century progresses. Comparing the three successive periods, the following trends are observed: 36.2% of the territory increases in thermicity; 7.3% of the territory increases in continentality; 9.7% of the territory increases in annual aridity; 9.5% of the territory increases in summer aridity or mediterraneity; and generalized losses occur in the areas of all mountain isobioclimates. The climate change foreseen by the PRECIS model for the middle of the 21st century leads to bioclimatic homogenization, with 20.8% losses in bioclimatic diversity. We indicate on maps the locations of all the predicted bioclimatic changes; these maps may provide decision makers with a scientific basis to take necessary adaptation measures.

Dataset Information

Retrospective view of North American potato (Solanum tuberosum L.) breeding in the 20th and 21st centuries.

Publications

Retrospective view of North American potato (Solanum tuberosum L.) breeding in the 20th and 21st centuries.

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