利用加权基因共表达网络分析方法挖掘香菇发育不同阶段的关键基因  

Hub gene of Lentinula edodes at different developmental stages identified by weighted gene coexpression network analysis

作　　者：宋婷婷[1] 沈颖越[1] 徐飞[2] 范丽军[1] 蔡为明[1] SONG Ting-Ting;SHEN Ying-Yue;XU Fei;FAN Li-Jun;CAI Wei-Ming(Institute of Horticulture,Zhejiang Academy of Agricultural Sciences,Hangzhou,Zhejiang 310021,China;Central Laboratory,Zhejiang Academy of Agricultural Sciences,Hangzhou,Zhejiang 310021,China)

机构地区：[1]浙江省农业科学院园艺研究所,浙江杭州310021 [2]浙江省农业科学院中心试验室,浙江杭州310021

出　　处：《菌物学报》2021年第7期1761-1775,共15页Mycosystema

摘　　要：香菇是世界产量第二大食用菌,栽培历史悠久。在木屑袋料栽培模式下,香菇发育可以分为菌丝生长期(G)、菌丝褐化期(B)、原基形成期(P)以及出菇期(FB)4个阶段。褐化期和原基形成期是香菇从营养生长期到生殖生长两个关键发育阶段,对香菇子实体产量和质量至关重要。本研究以3种不同栽培材料为重复,对香菇发育的前3个阶段进行了转录组分析。主成分分析和相似性分析表明,基因随着发育进程的推进,不同栽培基质样本的基因表达特征相似。以菌丝生长阶段的转录本为参照,通过基因差异表达分析,获得与菌丝褐化成熟和原基形成相关的基因,并对这些基因进行GO和KEGG功能富集分析;其次,对9个转录本数据进行加权基因共表达网络分析(WGCNA),分别获得了与菌丝生长、褐化阶段及原基形成各阶段高度相关的黑色、蓝色及黄色基因模块,并利用网络节点分析获得了与菌丝褐化成熟和原基形成得到7个关键基因;最后,结合差异基因和基因模块分析,得到了菌丝生长阶段的17个重要基因、褐化阶段的167个重要基因以及原基形成阶段的67个重要基因。通过多分析手段结合为筛选候选基因提供了更为高效的方法。Lentinula edodes ranks second in production of edible mushroom in the world and has a long cultivation history.The development of L.edodes can be divided into four stages,growth stage(G),light-induced browning(B),primordial formation(P)and fruiting body development(FB).Mycelial browning and primordial formation are very important stage for transformation of L.edodes from vegetative stage to reproductive stage,which are crucial to the yield and quality.Transcription of L.edodes in the preceding three development stages was analyzed by using three different culture materials as replicates.Principal component and correlation analysis showed that the expression characteristics of the genes were similar within the same stage.Using transcriptome of growth stage as control,the genes related to mycelial browning maturation and primordial stage were obtained,and these genes were analyzed by GO and KEGG.WGCNA was used to analyze the differentially expressed genes,hub gene and the gene modules related to mycelial browning transformation and primordial formation.As a result,17 important genes in mycelial growth stage,167 in browning stage and 67 in primordium formation stage were obtained by combining differential gene and gene module analysis.The combination of multiple analysis provides us with a more efficient method for screening candidate genes.

关 键 词：香菇 加权基因共表达网络分析 关键基因 发育相关基因 

分 类 号：S646.12[农业科学—蔬菜学]