Dataset of the transcribed 45S ribosomal RNA sequence of the tree crop “yerba mate”

Abstract

This contribution contains data related to the research article entitled “The 18S-25S ribosomal RNA unit of yerba mate (Ilex paraguariensis A. St.-Hil.)” (Aguilera et al., 2016) [1]. Through a bioinformatic approach involving NGS data, we provide information of the transcribed 45S ribosomal RNA (rRNA) sequence of yerba mate, the first reference for the Ilex L. genus. This dataset (Supplementary file 1) comprises information regarding the assembly and annotation of this rRNA unit. The generated data is applicable for comparative analysis and evolutionary studies among Ilex and related taxa. The raw sequencing data used here is available at DDBJ/EMBL/GenBank (NCBI Resource Coordinators, 2016) [2] Sequence Read Archive (SRA) under the accession SRP043293 and the consensus 45S ribosomal RNA sequence has been deposited there under the accession GFHV00000000.

Mining of diverse short non-coding RNAs from transcriptome of milk somatic cells of Murrah buffalo

“…STAR v2.4.2a (Dobin et al, 2013) and Bowtie v2.2.6 (Langmead and Salzberg, 2012) were used for alignment of the processed reads against the human reference genome. For annotation, different databases incorporated in exceRpt were used, rRNAs were extracted from 45S (Aguilera et al, 2017), 5S (Szymanski et al, 2002), miRNAs from miRBase v22.1 (Kozomara and Griffiths-Jones, 2011) and tRNAs from gtRNAdb (Chan and Lowe, 2016). The annotations were derived from GENCODE version 24 (Harrow et al, 2012).…”