Abstract
Pleurotus ostreatus is a commercially grown mushroom species in China. However, studies on the mechanisms of the fruiting body development and stress response of P. ostreatus are still at a primary stage. In this study, we report the entire genome sequence of P. ostreatus CCMSSC03989. Then, we performed comprehensive genome-wide characterization and expression analysis of the MYB transcription factor family during a series of developmental stages and under the condition of heat stress. A 34.76 Mb genome was obtained through next-generation sequencing (NGS) and Bionano optical mapping approaches. The genome has a scaffold N50 of 1.1 Mb and contains 10.11% repeats, and 10,936 gene models were predicted. A total of 20 MYB genes (PoMYB) were identified across the genome, and the full-length open reading frames were isolated. The PoMYBs were classified into 1 repeat (1R), 2R, and 3R-MYB groups according to their MYB domain repeat numbers, and 3R-MYBs possessed relatively more introns than 1R and 2R-MYBs. Based on phylogenetic analysis, the PoMYBs were divided into four groups and showed close relationships with the MYB genes of plants and fungi. RNA-sequencing (RNA-Seq) and quantitative PCR (qPCR) analyses revealed that PoMYB expression showed stage-specific patterns in reproductive stages and could be induced by heat stress. The P. ostreatus draft genome will promote genome-wide analysis, and our study of PoMYBs will promote further functional analysis of MYB genes in mushrooms.
Highlights
Pleurotus ostreatus is widely cultivated in China for its delicious taste, nutritional value [1], ease of growth on a variety of organic substrates [2], and tolerance to a wide temperature range during cultivation [3]
We report a draft genome sequence of the monokaryotic P. ostreatus strain CCMSSC03989-1 (China Center for Mushroom Spawn Standards and Control, Beijing, China), based on the combination approaches of next-generation sequencing (NGS) and optical maps, and we conducted a comprehensive genome-wide analysis of the MYB gene family based on the obtained genome sequence
We sequenced the haploid of P. ostreatus strain CCMSSC03989-1 using a whole-genome shotgun and mate-pair sequencing strategy, and the NGS assembly was hybrid-scaffolded by using Bionano optical maps
Summary
Pleurotus ostreatus is widely cultivated in China for its delicious taste, nutritional value [1], ease of growth on a variety of organic substrates [2], and tolerance to a wide temperature range during cultivation [3]. Genome sequences are valuable resources for genetic or molecular-based analysis, which is beneficial to the decryption of genetic diversity and genes controlling important agronomic traits [4]. Several commercial strains are used in production at present [9], and they are genetically diverse according to identification by using molecular markers [10]. The genomes of PC15 and CCEF00389 do not sufficiently represent the genetic diversity of P. ostreatus. Genome-wide study of mushrooms has been conducted in a variety of aspects; that is, identifying fruiting body formation-related genes [14], studying the molecular mechanism of lignocellulose degradation [13,15], identifying and characterizing small noncoding RNAs [6], mining microsatellites [16], and so forth
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