Dry samples of root and shoot tissue were ground and ashed at 495 °C for 12 h.
A total of 20 fresh samples of root of Ficus hirta (RFH) were collected as plants from four regions in China, namely, Hainan province (samples 1-4), Guangdong province (samples 5-8), Guangxi province (samples 9-11), and Hong Kong (samples 18-20), asd as commercial products purchased from stores in Hong Kong (samples 12-17).
Two samples of root and leaf tissues were generated from different batches of plants.
At 5 DAI, the harvested samples of root tips or segments showed prominent swelling, an indication of nematode invasion and establishment.
Using extensive sampling of root tissue across seasonal development and next-generation sequencing we have generated a reliable North American ginseng transcriptome with extensive annotation and isoform information.
50 mg samples of root and shoot tissue were harvested at different time points after treatment, homogenized and suspended in CCLR buffer (Promega Corp. Madison, USA).
A total of 1154, 878, 1114, 3283, 905, and 998 DEGs were found up- or down-regulated by drought in the samples of root at the tillering stage (TR), leaf at tillering stage (TL), root at panicle elongation stage (PR), leaf at panicle elongation (PL), young panicle sample at booting stage (BP), and leaf at booting stages (BL), respectively (Table 1).
The two samples of root and leaf tissues from different individual plants both showed a high degree of concordance in gene expression of log2-transformed fragments per kilobase of transcript per million fragments mapped (FPKM) values (R-squared of 0.94 for both comparisons, in Additional file 1: Figure S7).
