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Assessment of genetic variation within a global collection of lentil (Lens culinarisMedik.) cultivars and landraces using SNP markers

Overview of attention for article published in BMC Genomic Data, December 2014
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Title
Assessment of genetic variation within a global collection of lentil (Lens culinarisMedik.) cultivars and landraces using SNP markers
Published in
BMC Genomic Data, December 2014
DOI 10.1186/s12863-014-0150-3
Pubmed ID
Authors

Maria Lombardi, Michael Materne, Noel O I Cogan, Matthew Rodda, Hans D Daetwyler, Anthony T Slater, John W Forster, Sukhjiwan Kaur

Abstract

BackgroundLentil is a self-pollinated annual diploid (2n¿=¿2׿=¿14) crop with a restricted history of genetic improvement through breeding, particularly when compared to cereal crops. This limited breeding has probably contributed to the narrow genetic base of local cultivars, and a corresponding potential to continue yield increases and stability. Therefore, knowledge of genetic variation and relationships between populations is important for understanding of available genetic variability and its potential for use in breeding programs. Single nucleotide polymorphism (SNP) markers provide a method for rapid automated genotyping and subsequent data analysis over large numbers of samples, allowing assessment of genetic relationships between genotypes.ResultsIn order to investigate levels of genetic diversity within lentil germplasm, 505 cultivars and landraces were genotyped with 384 genome-wide distributed SNP markers, of which 266 (69.2%) obtained successful amplification and detected polymorphisms. Gene diversity and PIC values varied between 0.108-0.5 and 0.102-0.375, with averages of 0.419 and 0.328, respectively. On the basis of clarity and interest to lentil breeders, the genetic structure of the germplasm collection was analysed separately for cultivars and landraces. A neighbour-joining (NJ) dendrogram was constructed for commercial cultivars, in which lentil cultivars were sorted into three major groups (G-I, G-II and G-III). These results were further supported by principal coordinate analysis (PCoA) and STRUCTURE, from which three clear clusters were defined based on differences in geographical location. In the case of landraces, a weak correlation between geographical origin and genetic relationships was observed. The landraces from the Mediterranean region, predominantly Greece and Turkey, revealed very high levels of genetic diversity.Conclusions Lentil cultivars revealed clear clustering based on geographical origin, but much more limited correlation between geographic origin and genetic diversity was observed for landraces. These results suggest that selection of divergent parental genotypes for breeding should be made actively on the basis of systematic assessment of genetic distance between genotypes, rather than passively based on geographical distance.

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Geographical breakdown

Country Count As %
Unknown 99 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 24 24%
Researcher 16 16%
Student > Master 14 14%
Student > Doctoral Student 5 5%
Other 5 5%
Other 11 11%
Unknown 24 24%
Readers by discipline Count As %
Agricultural and Biological Sciences 58 59%
Engineering 3 3%
Unspecified 2 2%
Biochemistry, Genetics and Molecular Biology 2 2%
Computer Science 2 2%
Other 6 6%
Unknown 26 26%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 09 May 2020.
All research outputs
#19,942,887
of 25,371,288 outputs
Outputs from BMC Genomic Data
#786
of 1,204 outputs
Outputs of similar age
#252,646
of 359,906 outputs
Outputs of similar age from BMC Genomic Data
#23
of 39 outputs
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