Genome Assembly and Pathway Analysis of Edible Mushroom Agrocybe cylindracea
- Author:
Liang YUAN
1
,
2
;
Lu DENGXUE
;
Wang SEN
;
Zhao YUHUI
;
Gao SHENGHAN
;
Han RONGBING
;
Yu JUN
;
Zheng WEILI
;
Geng JIANING
;
Hu SONGNIAN
Author Information
1. CAS Key Laboratory of Genome Sciences and Information,Beijing Institute of Genomics,Chinese Academy of Sciences,Beijing 100101,China
2. University of Chinese Academy of Sciences,Beijing 100049,China
- Keywords:
Mushroom;
Whole-genome sequencing;
Mating type;
Nutrients;
Metabolic pathway
- From:
Genomics, Proteomics & Bioinformatics
2020;18(3):341-351
- CountryChina
- Language:Chinese
-
Abstract:
Agrocybe cylindracea, an edible mushroom, is widely cultivated for its abundance of nutrients and flavor, and many of its metabolites are reported to have beneficial roles, such as medicinal effects on tumors and chronical illnesses. However, the lack of genomic information has hindered further molecular studies on this fungus. Here, we present a genome assembly of A. cylindracea together with comparative genomics and pathway analyses of Agaricales species. The draft, generated from both next-generation sequencing (NGS) and single-molecule real-time (SMRT) sequencing platforms to overcome high genetic heterozygosity, is composed of a 56.5 Mb sequence and 15,384 predicted genes. This mushroom possesses a complex reproductive system, including tetrapolar heterothallic and secondary homothallic mechanisms, and harbors sev-eral hydrolases and peptidases for gradual and effective degradation of various carbon sources. Our pathway analysis reveals complex processes involved in the biosynthesis of polysaccharides and other active substances, including B vitamins, unsaturated fatty acids, and N-acetylglucosamine. RNA-seq data show that A. cylindracea stipes tend to synthesize carbohydrate for carbon seques-tration and energy storage, whereas pilei are more active in carbon utilization and unsaturated fatty acid biosynthesis. These results reflect diverse functions of the two anatomical structures of the fruiting body. Our comprehensive genomic and transcriptomic data, as well as preliminary compar-ative analyses, provide insights into the molecular details of the medicinal effects in terms of active compounds and nutrient components.
