RNA-seq of Ranunculus sceleratus and Identification of Orthologous Genes among Four Ranunculus Species

Ranunculus L. is an early diverging clade in the Angiosperm phylogeny. The split between terrestrial and aquatic/semi-aquatic lineages within the genus occurred within 20 Ma (Emadzade and Horandl, 2011), which is much younger than for some well-known aquatic lineages such as Ceratophyllum and Potamogeton. Ranunculus sceleratus Linn. is a semi-aquatic plant commonly found in paddy fields, streams and lakes in Asia, Europe and North America (eFlora of China, http://www.efloras.org/). The plant has also been studied for its unique toxicological and pharmacological properties (Prieto et al., 2003). Its karyotype is 2n = 32, x = 8 in mainland China (Yang, 2000). It usually roots in inundated soils, with stems and leaves emergent. The semi-aquatic R. sceleratus has been hypothesized to be an inter-mediate type in the transition from a terrestrial to aquatic habitat within the genus (Barrett et al., 1993; Prieto et al., 2003). In this study, we generated RNA-seq data of R. sceleratus and analyzed this in relation to the RNA-seq data of Ranunculus bungei Steud., Ranunculus cantoniensis DC., and Ranunculus brotherusii Freyn (Chen et al., 2015). Our aim was to generate RNA-seq data of R. sceleratus and identify the orthologous genes among the four species. Links to deposited data RNA-seq data of R. sceleratus was deposited at NCBI sequence Reads Archive (no. SRP072329). It is in SRA format. ITS sequence of R. sceleratus was deposited in GenBank (no. {"type":"entrez-nucleotide","attrs":{"text":"KT957621","term_id":"949478889","term_text":"KT957621"}}KT957621). All the unigenes of R. sceleratus, data matrices of ITS and chloroplast DNA, sequences of the 3455 putative orthologous clusters identified using the program OrthoMCL, and 884 clusters after filters were deposited in figshare (https://figshare.com/s/f40d8f9bd8f894f2d630; sequences in fasta format). These data can be used for further transcriptome assembly, selective pressure estimation, phylogenetic analyses, etc.