Transcriptome analysis of candidate genes and signaling pathways associated with light-induced brown film formation in Lentinula edodes
Transcriptome analysis of candidate genes and signaling pathways associated with light-induced brown film formation in Lentinula edodes
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香菇光诱导棕色膜形成相关候选基因和信号通路的转录组分析
DOI：
10.1007/s00253-013-4832-y
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发表时间：
2013-06-01
影响因子：
5
通讯作者：
Zhang, Xue-hong
中科院分区：
文献类型：
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作者：
Tang, Li-hua;Jian, Hua-hua;Zhang, Xue-hong
使用高通量Illumina RNA-seq对来自在三种不同条件下生长的菌丝体的poly（A）+ RNA的转录组进行深度测序分析：30天的黑暗（样品118）、80天黑暗（313 W）和30天黑暗接着50天光照（313 C），为深入了解食用菌香菇（Lentinula edodes）光诱导褐膜形成的分子机制，在三种生长条件中，仅在313 C样品中发生BF形成。获得约1.5923亿个读段，修剪并重新组装成31，511个重叠群，平均长度为1，746 bp，N50为2，480 bp。基于通过针对NR、Swiss-Prot、COG和KEGG数据库的BLASTX搜索确定的序列方向，24，246（76.9%）个重叠群被指定为推定描述。313 C/118和313 C/313 W表达谱的比较分别揭示了3，958和5，651个显著差异表达的重叠群（德克斯）。使用COG数据库的注释揭示了光诱导BF形成的候选基因编码与光接收相关的蛋白质（例如，WC-1、WC-2、光敏色素）、光信号转导途径（例如，双组分磷酸化系统，促分裂原活化蛋白激酶途径），和色素形成（例如，聚酮合酶、O-甲基转移酶、漆酶、P450单加氧酶、氧化还原酶）。使用定量实时聚合酶链反应验证了几种德克斯。我们的报告是第一个确定基因与光诱导BF形成L。香菇是未来对这种具有商业重要性的蘑菇进行基因组研究的宝贵资源。
High-throughput Illumina RNA-seq was used for deep sequencing analysis of the transcriptome of poly(A)+ RNA from mycelium grown under three different conditions: 30 days darkness (sample 118), 80 days darkness (313W), and 30 days darkness followed by 50 days in the light (313C), in order to gain insight into the molecular mechanisms underlying the process of light-induced brown film (BF) formation in the edible mushroom, Lentinula edodes. Of the three growth conditions, BF formation occurred in 313C samples only. Approximately 159.23 million reads were obtained, trimmed, and de novo assembled into 31,511 contigs with an average length of 1,746 bp and an N 50 of 2,480 bp. Based on sequence orientations determined by a BLASTX search against the NR, Swiss-Prot, COG, and KEGG databases, 24,246 (76.9 %) contigs were assigned putative descriptions. Comparison of 313C/118 and 313C/313W expression profiles revealed 3,958 and 5,651 significantly differentially expressed contigs (DECs), respectively. Annotation using the COG database revealed that candidate genes for light-induced BF formation encoded proteins linked to light reception (e.g., WC-1, WC-2, phytochrome), light signal transduction pathways (e.g., two-component phosphorelay system, mitogen-activated protein kinase pathway), and pigment formation (e.g., polyketide synthase, O-methyltransferase, laccase, P450 monooxygenase, oxidoreductase). Several DECs were validated using quantitative real-time polymerase chain reaction. Our report is the first to identify genes associated with light-induced BF formation in L. edodes and represents a valuable resource for future genomic studies on this commercially important mushroom.