Longitudinal gene expression profiling in Nodal-induced and control zebrafish embryonic explants

We report RNA-sequencing from zebrafish explants generated from embryos injected with mRNA encoding the Nodal ligand ndr2 (N), constitutively active Nodal receptor CA-acvr1b* (T), and uninjected (U) controls. Explants of all 3 conditions were compared at each of 7 developmental stages: sphere (SR), 30% epiboly (30), 50% epiboly (50), shield (SH), 75% epiboly (75), 90% epiboly (90), and 2-somite (2S) (corresponding to 4, 4.7, 5.3, 6, 8, 9, and 11 hours post fertilization, respectively). Overall design: Sequencing of polyadenylated mRNAs from ndr2 (N), CA-acvr1b*(T), and uninjected (U) explants with 3 biological replicates (A-C) per condition per stage (SR - 2S).

本研究报道了斑马鱼外植体（zebrafish explants）的RNA测序（RNA-sequencing）数据，该批外植体由三类胚胎制备得到：注射编码Nodal配体ndr2（N）的mRNA的胚胎、注射组成型激活Nodal受体CA-acvr1b*（T）的mRNA的胚胎，以及未注射的空白对照胚胎（U）。本研究对上述三类实验条件的外植体，在7个发育阶段均开展了测序比对，分别为：球期（SR）、30%外包期（30）、50%外包期（50）、胚盾期（SH）、75%外包期（75）、90%外包期（90）及2体节期（2S），上述阶段分别对应受精后4、4.7、5.3、6、8、9和11小时。实验整体设计如下：对ndr2（N）、CA-acvr1b*（T）及未注射（U）三组外植体的多聚腺苷酸化mRNA（polyadenylated mRNAs）进行测序，每个实验条件在每个发育阶段（球期至2体节期）均设置3个生物学重复（biological replicates，标记为A-C）。