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Abstract：
Drosophila melanogaster cell lines are an important resource for a range of studies spanning genomics, molecular genetics, and cell biology. Amongst these valuable lines are Kc167 (Kc) and Schneider 2 (S2) cells, which were originally isolated in the late 1960s from embryonic sources and have been used extensively to investigate a broad spectrum of biological activities including cell-cell signaling and immune system function. Whole-genome tiling microarray analysis of total RNA from these two cell types was performed as part of the modENCODE project over a decade ago and revealed that they share a number of gene expression features. Here, we expand on these earlier studies by using deep-coverage RNA-sequencing approaches to investigate the transcriptional profile in Kc and S2 cells in detail. Comparison of the transcriptomes reveals that ∼75% of the 13,919 annotated genes are expressed at a detectable level in at least one of the cell lines, with the majority of these genes expressed at high levels in both cell lines. Despite the overall similarity of the transcriptional landscape in the two cell types, 2,588 differentially expressed genes are identified. Many of the genes with the largest fold change are known only by their \"CG\" designations, indicating that the molecular control of Kc and S2 cell identity may be regulated in part by a cohort of relatively uncharacterized genes. Our data also indicate that both cell lines have distinct hemocyte-like identities, but share active signaling pathways and express a number of genes in the network responsible for dorsal-ventral patterning of the early embryo.
摘要：
果蝇细胞系是跨越基因组学的一系列研究的重要资源，分子遗传学和细胞生物学。在这些有价值的细胞系中，有Kc167和S2细胞，它最初是在1960年代后期从胚胎来源中分离出来的，已被广泛用于研究广泛的生物活性，包括细胞-细胞信号传导和免疫系统功能。十年前，作为modENCODE项目的一部分，对这两种细胞类型的总RNA进行了全基因组拼接微阵列分析，并揭示了它们共享许多基因表达特征。这里,我们通过使用深度覆盖RNA测序方法来详细研究Kc和S2细胞中的转录谱来扩展这些早期研究。转录组的比较表明，在至少一种细胞系中，约有75％的13,919个注释基因以可检测的水平表达。这些基因中的大多数在两种细胞系中都以高水平表达。尽管两种细胞类型的转录景观总体相似，鉴定了2588个差异表达的基因。许多具有最大倍数变化的基因只有它们的“CG”名称才知道，这表明Kc和S2细胞身份的分子控制可能部分受到一组相对未表征的基因的调节。我们的数据还表明，两种细胞系都具有不同的血细胞样身份，但是共享活跃的信号通路，并在网络中表达许多基因，这些基因负责早期胚胎的背-腹模式。
