ArticlePloS one2018
High-throughput SSR marker development and its application in a centipedegrass (Eremochloa ophiuroides (Munro) Hack.) genetic diversity analysis.
Article in PloS one, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed.
- Genetic and genomic resources for turfgrasses: status, applications, and prospects.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Identification of candidate genes for Nilaparvata lugens (stål) resistance through genomic dissection from diverse Indigenous rice genotypes.Botanical studies · 2025Article
- Molecular Characterization and Phylogenetic Analysis of Centipedegrass [Current issues in molecular biology · 2024Article
- Biological responses of an elite centipedegrass [Frontiers in plant science · 2024Article
- Characterization and development of transcriptome-derived novel EST-SSR markers to assess genetic diversity in3 Biotech · 2023Article
- Genome-wide characterization leading to simple sequence repeat (SSR) markers development in Shorea robusta.Functional & integrative genomics · 2023Article
- Application of MaxEnt Modeling and HRM Analysis to Support the Conservation and Domestication ofPlants (Basel, Switzerland) · 2022Article
- Genome skimming-based simple sequence repeat (SSR) marker discovery and characterization inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- Protocol development for somatic embryogenesis, SSR markers and genetic modification of Stipagrostis pennata (Trin.) De Winter.Plant methods · 2021Article
- Use of Transcriptomic Analyses to Elucidate the Mechanism Governing Nodal Root Development inFrontiers in plant science · 2021Article
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- Genetic diversity in centipedegrass [Horticulture research · 2020Review
- Transcriptome Profiling Provides Insight into the Genes in Carotenoid Biosynthesis during the Mesocarp and Seed Developmental Stages of Avocado (International journal of molecular sciences · 2019Article
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9 authors.
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Abstract
Centipedegrass (Eremochloa ophiuroides (Munro) Hack.) is a perennial, warm-season C4 grass species that shows great potential for use as a low-maintenance turfgrass species in tropical and subtropical regions. However, limited genetic and genomic information is available for this species, which has impeded systematic studies on the enhancement of its turf quality and resistance against biotic and abiotic stress. In this study, Illumina HiSeq high-throughput sequencing technology was performed to generate centipedegrass transcriptome sequences. A total of 352,513 assembled sequences were used to search for simple sequence repeat (SSR) loci, and 64,470 SSR loci were detected in 47,638 SSR containing sequences. The tri-nucleotides were the most frequent repeat motif, followed by di-nucleotides, tetra-nucleotides hexnucleotides, and pentanucleotides. A total of 48,061 primer pairs were successfully designed in the flanking sequences of the SSRs, and 100 sets of primers were randomly selected for the initial validation in four centipedegrass accessions. In total, 56 (56.0%) of the 100 primer pairs tested successfully amplified alleles from all four centipedegrass accessions, while 50 were identified as polymorphic markers and were then used to assess the level of genetic diversity among 43 centipedegrass core collections. The genetic diversity analysis exhibited that the number of alleles (Na) per locus ranged from 3 to 13, and the observed heterozygosity (Ho) ranged from 0.17 to 0.83. The polymorphism information content (PIC) value of the markers ranged from 0.15 to 0.78, and the genetic distances (coefficient Nei72) between the accessions varied from 0.07 to 0.48. The UPGMA-based dendrogram clustered all 43 core collections into two main groups and six subgroups, which further validated the effectiveness of these newly developed SSR markers. Hence, these newly developed SSR markers will be valuable and potentially useful for future genetic and genomic studies of E. ophiuroides.
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