ArticleBMC plant biology2009
EST and EST-SSR marker resources for Iris.
Article in BMC plant biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Genetic Diversity ofPlants (Basel, Switzerland) · 2024Article
- Complete plastid genome of Iris orchioides and comparative analysis with 19 Iris plastomes.PloS one · 2024Article
- Article
- De novo transcriptome characterization of Iris atropurpurea (the Royal Iris) and phylogenetic analysis of MADS-box and R2R3-MYB gene families.Scientific reports · 2021Article
- Article
- Development of EST-SSR markers and association mapping with floral traits in Syringa oblata.BMC plant biology · 2020Article
- Molecular Study of Selected Taxonomically Critical Taxa of the GenusPlants (Basel, Switzerland) · 2020Article
- Article
- Transcriptomic Identification of Drought-Related Genes and SSR Markers in Sudan Grass Based on RNA-Seq.Frontiers in plant science · 2017Article
- Characterization and Development of EST-SSRs by Deep Transcriptome Sequencing in Chinese Cabbage (Brassica rapa L. ssp. pekinensis).International journal of genomics · 2015Article
- 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
- Article
- Identification and characterization of gene-based SSR markers in date palm (Phoenix dactylifera L.).BMC plant biology · 2012Article
- De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity.BMC genomics · 2011Article
- Identification of drought-responsive universal stress proteins in viridiplantae.Bioinformatics and biology insights · 2011Article
- SSR mining in oil palm EST database: application in oil palm germplasm diversity studies.Journal of genetics · 2010Article
- Complete switchgrass genetic maps reveal subgenome collinearity, preferential pairing and multilocus interactions.Genetics · 2010Article
- Transmission ratio distortion results in asymmetric introgression in Louisiana Iris.BMC plant biology · 2010Article
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8 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundLimited DNA sequence and DNA marker resources have been developed for Iris (Iridaceae), a monocot genus of 200-300 species in the Asparagales, several of which are horticulturally important. We mined an I. brevicaulis-I. fulva EST database for simple sequence repeats (SSRs) and developed ortholog-specific EST-SSR markers for genetic mapping and other genotyping applications in Iris. Here, we describe the abundance and other characteristics of SSRs identified in the transcript assembly (EST database) and the cross-species utility and polymorphisms of I. brevicaulis-I. fulva EST-SSR markers among wild collected ecotypes and horticulturally important cultivars.
resultsCollectively, 6,530 ESTs were produced from normalized leaf and root cDNA libraries of I. brevicaulis (IB72) and I. fulva (IF174), and assembled into 4,917 unigenes (1,066 contigs and 3,851 singletons). We identified 1,447 SSRs in 1,162 unigenes and developed 526 EST-SSR markers, each tracing a different unigene. Three-fourths of the EST-SSR markers (399/526) amplified alleles from IB72 and IF174 and 84% (335/399) were polymorphic between IB25 and IF174, the parents of I. brevicaulis x I. fulva mapping populations. Forty EST-SSR markers were screened for polymorphisms among 39 ecotypes or cultivars of seven species - 100% amplified alleles from wild collected ecotypes of Louisiana Iris (I.brevicaulis, I.fulva, I. nelsonii, and I. hexagona), whereas 42-52% amplified alleles from cultivars of three horticulturally important species (I. pseudacorus, I. germanica, and I. sibirica). Ecotypes and cultivars were genetically diverse - the number of alleles/locus ranged from two to 18 and mean heterozygosity was 0.76.
conclusionNearly 400 ortholog-specific EST-SSR markers were developed for comparative genetic mapping and other genotyping applications in Iris, were highly polymorphic among ecotypes and cultivars, and have broad utility for genotyping applications within the genus.
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