ArticlePloS one2014
De novo assembly and annotation of Salvia splendens transcriptome using the Illumina platform.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
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- Development of a Large Gene-Associated SSR Marker Set and in-Depth Genetic Characterization in Scarlet Sage.Frontiers in genetics · 2020Article
- Identification of key genes involved in the biosynthesis of triterpenic acids in the mint family.Scientific reports · 2019Article
- Transcriptome Landscape Variation in the GenusGenes · 2019Article
- RNA sequencing analysis of Cymbidium goeringii identifies floral scent biosynthesis related genes.BMC plant biology · 2019Article
- Integrative omics analysis in Pandanus odorifer (Forssk.) Kuntze reveals the role of Asparagine synthetase in salinity tolerance.Scientific reports · 2019Article
- Comparative transcriptomic analysis provides insights into the development of a Salvia splendens Ker-Gawler mutant, SX919M.PloS one · 2019Article
- High-quality assembly of the reference genome for scarlet sage, Salvia splendens, an economically important ornamental plant.GigaScience · 2018Article
- Spatial transcriptome analysis provides insights of key gene(s) involved in steroidal saponin biosynthesis in medicinally important herb Trillium govanianum.Scientific reports · 2017Article
- De novo transcriptomic analysis and development of EST-SSRs for Sorbus pohuashanensis (Hance) Hedl.PloS one · 2017Article
- Article
- De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem.International journal of genomics · 2016Article
- De novo assembly and functional annotation of Myrciaria dubia fruit transcriptome reveals multiple metabolic pathways for L-ascorbic acid biosynthesis.BMC genomics · 2015Article
- De novo sequencing and assembly analysis of transcriptome in the Sodom apple (Calotropis gigantea).BMC genomics · 2015Article
- De novo assembly of the Carcinus maenas transcriptome and characterization of innate immune system pathways.BMC genomics · 2015Article
- The transcriptome of Utricularia vulgaris, a rootless plant with minimalist genome, reveals extreme alternative splicing and only moderate sequence similarity with Utricularia gibba.BMC plant biology · 2015Article
- Article
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5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAs an important perennial herbaceous flower, Salvia splendens possesses high ornamental value. Understanding its branching processes may help scientists select the best plant type. Although Salvia splendens is a frequently-used horticultural flower, only limited transcriptomic or genomic research is available in public databases. In the present study, we, for the first time, constructed a comprehensive dataset for Salvia splendens through de novo high-throughput transcriptome sequencing. METHODOLOGY/PRINCIPAL
findingsWe performed de novo transcriptome sequencing on two different branching type plants (Strain 35 and Cailinghong) using the Illumina paired-end sequencing technology. For Strain 35, a total of 16,488,829 reads were generated and assembled into 38,498 unigenes, with a mean length of approximately 779 bp. For Cailinghong, 16,464,713 reads were generated and assembled into 34,302 unigenes, with a mean length of approximately 812 bp. Moreover, a total of 49,310 unigenes for Salvia splendens were identified, among them 33,925 (68.80%) were annotated in the non-redundant NCBI database, 25,371 (51.45%) were annotated in the Swiss-Prot database, while 24,888 (50.47%) and 9,896 (20.07%) unigenes were assigned to gene ontology categories and clusters of orthologous groups, respectively. Using the Kyoto Encyclopedia of Genes and Genomes pathway database, we identified 134 differently expressed unigenes between Strain 35 and Cailinghong, and then these unigenes were mapped to 79 pathways. In addition, we detected 2,453 simple sequence repeats (SSRs).
conclusionsWe obtained a comprehensive transcriptomic information from this work and provided a valuable resource of transcript sequences of Salvia splendens in public databases. Moreover, some candidate genes potentially involved in branching were identified. Furthermore, numerous obtained SSRs might contribute to marker-assisted selection. These data could be further utilized in functional genomics studies on Salvia splendens.
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