Kim Eundeok, Xiong Yuqing, Kang Byung-Ho, Sung Sibum
Department of Molecular Biosciences and Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA.
Department of Biology, University of Washington, Seattle, WA, USA.
Methods Mol Biol. 2019;1933:49-65. doi: 10.1007/978-1-4939-9045-0_3.
Maize endosperm consists of three distinct types of tissues, including the starchy endosperm (SE), the basal endosperm transfer cell layer (BETL), and the aleurone cell layer (AL). Compartmentalization of these tissues during endosperm differentiation makes the endosperm development an excellent model to study changes in gene expression during development. By utilizing cryo-dissection of developing endosperm, morphologically distinct samples can be obtained for transcriptome and epigenome analysis. Here, we describe methods for the isolation of tissues from developing maize endosperm and for the transcriptome analysis to identify novel long noncoding RNAs. The transcriptome data can be further analyzed to illustrate spatiotemporal changes in both coding and noncoding transcripts during the endosperm development.
玉米胚乳由三种不同类型的组织组成，包括淀粉胚乳（SE）、胚乳基部转移细胞层（BETL）和糊粉层细胞（AL）。胚乳分化过程中这些组织的区室化使得胚乳发育成为研究发育过程中基因表达变化的极佳模型。通过利用发育中的胚乳进行冷冻解剖，可以获得形态上不同的样本用于转录组和表观基因组分析。在这里，我们描述了从发育中的玉米胚乳中分离组织以及进行转录组分析以鉴定新型长链非编码RNA的方法。转录组数据可以进一步分析，以阐明胚乳发育过程中编码和非编码转录本的时空变化。
