RNA-Seq of homografted watermelon: stem - SRA

SRX6969183: RNA-Seq of homografted watermelon: stem
1 ILLUMINA (NextSeq 500) run: 23.9M spots, 3.2G bases, 1.1Gb downloads

Design: Total RNA was isolated from tissues (root, stem, leaf and fruit) of grafted plants including WM/WM, WM/LAG, LAG/LAG and LAG/WM by using the CTAB method (Chang et al. 1993). Degradation and contamination of total RNA was monitored before RNA library preparation on 1% agarose gels. The RNA quantity and quality were measured by using the Qubit 2.0 Fluorometer and 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA). Samples with RNA integrity number > 7 were used for library preparation. An equal amount of RNA (1 g) was used to construct the RNA-Seq libraries by using the NEBNext Ultra RNA Library Prep Kit for Illumina (NEB, USA) according to the manufacturers instructions. In this protocol, mRNA was enriched with Oligo (dT) beads from total RNA, and mRNA was fragmented and primed for reverse-transcription into cDNA by using random primers. The double-stranded cDNA was purified by using SPRIselect beads and further end-repaired and adaptor-ligated. Libraries were size-selected by using SPRIselect beads, enriched by PCR and quality assessed on a Bioanalyzer. RNA-Seq libraries were paired-end sequenced on an Illumina NextSeq 500 system with 75-bp read length.

Submitted by: West Virginia State University

Study: Transcriptome changes in reciprocal grafts involving watermelon and bottle gourd reveal molecular mechanisms involved in increase of the fruit size, rind toughness and soluble solids

PRJNA576654 • SRP224947 • All experiments • All runs

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In this study, to determine the regulatory networks mediating grafting on the sensory features of watermelon and bottle gourd fruit, we performed a comprehensive transcriptome analysis of different tissues (root, stem, leaf and fruit) of grafted watermelon onto bottle gourd rootstock and its reciprocal grafted set as compared with self-grafted plants. Furthermore, RNA-seq data were used to identify mobile transcripts in these heterografts.

Sample:

SAMN13000296 • SRS5494750 • All experiments • All runs

Organism: Citrullus lanatus

Library:

Name: wm_wm_S

Instrument: NextSeq 500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PCR

Layout: PAIRED

Runs: 1 run, 23.9M spots, 3.2G bases, 1.1Gb

Run	# of Spots	# of Bases	Size	Published
SRR10251182	23,944,545	3.2G	1.1Gb	2019-10-09

ID:: 9166969

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