ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2011
In silico mining for simple sequence repeat loci in a pineapple expressed sequence tag database and cross-species amplification of EST-SSR markers across Bromeliaceae.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 65 citations in OpenAlex.
- From micro- to macroevolution: insights from a Neotropical bromeliad with high population genetic structure adapted to rock outcrops.Heredity · 2020Article
- Genetic Diversity of Pineapple (Tropical life sciences research · 2020Article
- SSR markers developed using next-generation sequencing technology in pineapple,Breeding science · 2020Article
- New microsatellite markers forApplications in plant sciences · 2019Article
- Molecular Resources from Transcriptomes in the Brassicaceae Family.Frontiers in plant science · 2017Article
- Current status of tropical fruit breeding and genetics for three tropical fruit species cultivated in Japan: pineapple, mango, and papaya.Breeding science · 2016Review
- PineElm_SSRdb: a microsatellite marker database identified from genomic, chloroplast, mitochondrial and EST sequences of pineapple (Hereditas · 2016Article
- Mining microsatellite markers from public expressed sequence tags databases for the study of threatened plants.BMC genomics · 2015Article
- Leaf margin phenotype-specific restriction-site-associated DNA-derived markers for pineapple (Ananas comosus L.).Breeding science · 2015Article
- Developing single nucleotide polymorphism markers for the identification of pineapple (Ananas comosus) germplasm.Horticulture research · 2015Article
- Rediscovering medicinal plants' potential with OMICS: microsatellite survey in expressed sequence tags of eleven traditional plants with potent antidiabetic properties.Omics : a journal of integrative biology · 2014Article
- DNA fingerprinting in botany: past, present, future.Investigative genetics · 2014Article
- Mining of microsatellites using next generation sequencing of seabuckthorn (Hippophae rhamnoides L.) transcriptome.Physiology and molecular biology of plants : an international journal of functional plant biology · 2014Article
- Development of pineapple microsatellite markers and germplasm genetic diversity analysis.BioMed research international · 2013Article
- DNA profiling of pineapple cultivars in Japan discriminated by SSR markers.Breeding science · 2012Article
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Authors and funding
2 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
A collection of 5,659 expressed sequence tags (ESTs) from pineapple [Ananas comosus (L.) Merr.] was screened for simple sequence repeats (EST-SSRs) with motif lengths between 1 and 6 bp. Lower thresholds of 15, 7 and 5 repeat units were used to define microsatellites of the mono-, di-, and tri- to hexanucleotide repeat type, respectively. Based on these criteria, 696 SSRs were identified among 3,389 EST unigenes, together representing 2,840 kb. This corresponds to an average density of one SSR every 4.1 kb of non-redundant EST sequences. Dinucleotide repeats were most abundant (38.4% of all SSRs) followed by trinucleotide repeats (38.1%). Flanking primer pairs were designed for 537 EST-SSR loci, and 49 of these were screened for their functionality in 12 accessions of A. comosus, 14 accessions of 5 additional Ananas species and 1 species of Pseudananas. Distinct PCR products of the expected size range were obtained with 36 primer pairs. Eighteen loci analyzed in more detail were all polymorphic in pineapple, and primer pairs flanking these loci also generated PCR products from a wide range of genera and species from six subfamilies of the Bromeliaceae. The potential to reveal polymorphism in a heterologous target species was demonstrated in Deuterocohnia brevifolia (subfamily Pitcairnioideae).
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