ArticleBMC genomics2018
Genome-wide characterization of simple sequence repeats in Pyrus bretschneideri and their application in an analysis of genetic diversity in pear.
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 28 citations in OpenAlex.
- Integrated metabolomic and transcriptomic analyses elucidate anthocyanin-mediated flesh coloration mechanisms in red-fleshed pear.Frontiers in plant science · 2025Article
- Genome-wide characterization and development of SSR markers for genetic diversity analysis in northwestern Himalayas Walnut (3 Biotech · 2023Article
- First Report on Development of Genome-Wide Microsatellite Markers for Stock (Plants (Basel, Switzerland) · 2023Article
- Transcriptome Analysis Reveals Roles of Sucrose in Anthocyanin Accumulation in 'Kuerle Xiangli' (Genes · 2022Article
- Reevaluation ofPlants (Basel, Switzerland) · 2022Article
- Genome-Wide Investigation and Analysis of Microsatellites and Compound Microsatellites inLife (Basel, Switzerland) · 2021Article
- Development of genic SSR marker resources from RNA-seq data in Camellia japonica and their application in the genus Camellia.Scientific reports · 2021Article
- A worldwide map of swine short tandem repeats and their associations with evolutionary and environmental adaptations.Genetics, selection, evolution : GSE · 2021Article
- Genome-Wide Analysis of Simple Sequence Repeats in Cabbage (Frontiers in plant science · 2021Article
- De-novo transcriptome analysis unveils differentially expressed genes regulating drought and salt stress response in Panicum sumatrense.Scientific reports · 2020Article
- Development of transcriptome-wide SSR markers for genetic diversity and structure analysis inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2020Article
- Detection and application of genome-wide variations in peach for association and genetic relationship analysis.BMC genetics · 2019Article
- Chromosome level high-density integrated genetic maps improve the Pyrus bretschneideri 'DangshanSuli' v1.0 genome.BMC genomics · 2018Article
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Authors and funding
10 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundPear (Pyrus spp.) is an economically important temperate fruit tree worldwide. In the past decade, significant progress has been made in pear molecular genetics based on DNA research, but the number of molecular markers is still quite limited, which hardly satisfies the increasing needs of geneticists and breeders.
resultsIn this study, a total of 156,396 simple sequence repeat (SSR) loci were identified from a genome sequence of Pyrus bretschneideri 'Dangshansuli'. A total of 101,694 pairs of SSR primers were designed from the SSR loci, and 80,415 of the SSR loci were successfully located on 17 linkage groups (LGs). A total of 534 primer pairs were synthesized and preliminarily screened in four pear cultivars, and of these, 332 primer pairs were selected as clear, stable, and polymorphic SSR markers. Eighteen polymorphic SSR markers were randomly selected from the 332 polymorphic SSR markers in order to perform a further analysis of the genetic diversity among 44 pear cultivars. The 14 European pears and their hybrid materials were clustered into one group (European pear group); 29 Asian pear cultivars were clustered into one group (Asian pear group); and the Zangli pear cultivar 'Deqinli' from Yunnan Province, China, was grouped in an independent group, which suggested that the cultivar 'Deqinli' is a distinct and valuable germplasm resource. The population structure analysis partitioned the 44 cultivars into two populations, Pop 1 and Pop 2. Pop 2 was further divided into two subpopulations. Results from the population structure analysis were generally consistent with the results from the UPGMA cluster analysis.
conclusionsThe results of the present study showed that the use of next-generating sequencing to develop SSR markers is fast and effective, and the developed SSR markers can be utilized by researchers and breeders for future pear improvement.
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