Strong correlation between air-liquid interface cultures and in vivo transcriptomics of nasal brush biopsy
Strong correlation between air-liquid interface cultures and in vivo transcriptomics of nasal brush biopsy
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DOI：
10.1152/ajplung.00050.2020
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发表时间：
2020-05-01
影响因子：
4.9
通讯作者：
Sidhaye, Venkataramana K.
中科院分区：
文献类型：
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作者：
Ghosh, Baishakhi;Park, Bongsoo;Sidhaye, Venkataramana K.
气-液界面（ALI）培养物是广泛用于研究患有慢性呼吸道疾病的患者的上皮的离体模型。然而，在体外条件强加的环境中遇到的患者在体内不同，这改变基因表达的程度仍然不清楚。在这项研究中，我们采用RNA测序来比较鼻上皮细胞的新鲜刷与来自相同患者的ALI培养的上皮细胞的转录组。我们观察到在ALI培养的细胞与从刷过的鼻上皮细胞获得的细胞之间存在很强的相关性：96%的表达基因显示出相似的表达谱，尽管刷过的样品之间存在更大的相似性。我们观察到，虽然ALI模型为机制研究提供了体内气道上皮转录组的良好代表性，但几种途径受到环境变化的影响。
Air-liquid interface (ALI) cultures are ex vivo models that are used extensively to study the epithelium of patients with chronic respiratory diseases. However, the in vitro conditions impose a milieu different from that encountered in the patient in vivo, and the degree to which this alters gene expression remains unclear. In this study we employed RNA sequencing to compare the transcriptome of fresh brushings of nasal epithelial cells with that of ALI-cultured epithelial cells from the same patients. We observed a strong correlation between cells cultured at the ALI and cells obtained from the brushed nasal epithelia: 96% of expressed genes showed similar expression profiles, although there was greater similarity between the brushed samples. We observed that while the ALI model provides an excellent representation of the in vivo airway epithelial transcriptome for mechanistic studies, several pathways are affected by the change in milieu.