Comparative genomic analysis of pleurotus species reveals insights into the evolution and coniferous utilization of Pleurotus placentodes

Lei Sun; Xiaolei Yin; Frederick Leo Sossah; Xuerong Han; Yu Li

doi:10.3389/fmolb.2023.1292556

Comparative genomic analysis of pleurotus species reveals insights into the evolution and coniferous utilization of Pleurotus placentodes

Front Mol Biosci. 2023 Nov 6:10:1292556. doi: 10.3389/fmolb.2023.1292556. eCollection 2023.

Authors

Lei Sun^#^{1

2}, Xiaolei Yin^#^{1

2}, Frederick Leo Sossah^{1

3}, Xuerong Han^{1

2}, Yu Li^{1

2}

Affiliations

¹ Jilin Province Key Laboratory of Fungal Phenomics, Jilin Agricultural University, Changchun, China.
² International Cooperation Research Center of China for New Germplasm Breeding of Edible Mushrooms, Jilin Agricultural University, Changchun, China.
³ Council for Scientific and Industrial Research (CSIR), Oil Palm Research Institute, Coconut Research Programme, Sekondi, Ghana.

^# Contributed equally.

Abstract

Pleurotus placentodes (PPL) and Pleurotus cystidiosus (PCY) are economically valuable species. PPL grows on conifers, while PCY grows on broad-leaved trees. To reveal the genetic mechanism behind PPL's adaptability to conifers, we performed de novo genome sequencing and comparative analysis of PPL and PCY. We determined the size of the genomes for PPL and PCY to be 36.12 and 42.74 Mb, respectively, and found that they contain 10,851 and 15,673 protein-coding genes, accounting for 59.34% and 53.70% of their respective genome sizes. Evolution analysis showed PPL was closely related to P. ostreatus with the divergence time of 62.7 MYA, while PCY was distantly related to other Pleurotus species with the divergence time of 111.7 MYA. Comparative analysis of carbohydrate-active enzymes (CAZYmes) in PPL and PCY showed that the increase number of CAZYmes related to pectin and cellulose degradation (e.g., AA9, PL1) in PPL may be important for the degradation and colonization of conifers. In addition, geraniol degradation and peroxisome pathways identified by comparative genomes should be another factors for PPL's tolerance to conifer substrate. Our research provides valuable genomes for Pleurotus species and sheds light on the genetic mechanism of PPL's conifer adaptability, which could aid in breeding new Pleurotus varieties for coniferous utilization.

Keywords: Pleurotus placentodes; adaption; coniferous utilization; evolution; genome sequencing.

Grants and funding

The author(s) declare financial support was received for the research, authorship, and/or publication of this article. This research was funded by 2021 Scientific and Technological Planning Project of Jilin Province—International Cooperation Projects, the China Postdoctoral Science Foundation (No. 2021M693835), National Natural Science Foundation of China (No. 31971252), the Program of Creation and Utilization of Germplasm of Mushroom Crop of “111” Project (No. D17014), the National-level International Joint Research Centre (No. 2017B01011) and the Open Project of Engineering Research Center of Ministry of Education for Edible and Medicinal Fungi (No. SYJ2020006).