Abstract
In this study, we obtained the complete mitochondrial genome of Sporobolomyces sp. using next-generation sequencing. The complete mitochondrial genome of Sporobolomyces sp. contained 15 protein-coding genes (PCG), two ribosomal RNA (rRNA) genes, and 25 transfer RNA (tRNA) genes. The total length of the Sporobolomyces sp. mitochondrial genome is 26,430 bp, and the GC content of the mitochondrial genome is 39.32%. Phylogenetic analysis based on combined mitochondrial gene dataset indicated that the mitochondrial genome of Sporobolomyces sp. exhibited a close relationship with that of Rhodotorula mucilaginosa.
The genus Sporobolomyces is a group of ballistoconidium-forming yeast. Dozens of species have been described in this genus (Satoh and Makimura Citation2008; Lorenzini et al. Citation2019). Sporobolomyces species are distributed in various habitats, such as on plant phyllodes, on the surface area of soils, and also in the fermentation system (Barahona et al. Citation2016; Arrigoni et al. Citation2018; Li, Yuan, et al. Citation2020). Limited morphological characteristics make it difficult to identify Sporobolomyces species accurately only by morphology (Hamamoto and Nakase Citation2000; Barahona et al. Citation2016; Lorenzini et al. Citation2019). Mitochondrial genome has been widely used in the phylogenetic analysis of species (Wang et al. Citation2020; Li, He, et al. Citation2020). However, up to now, no mitochondrial genome from the genus Sporobolomyces has been reported. The mitochondrial genome of Sporobolomyces sp. will promote the understanding of the phylogeny, evolution, and taxonomy of this important yeast.
The specimen (Sporobolomyces sp.) was collected from Jilin, China (129.32 E; 42.53 N). The specimen was stored in the Culture Collection Center of Chengdu University (No. Spo_ns1). The complete mitochondrial genome of Sporobolomyces sp. was sequenced and assembled according to previously described methods (Li, Liao, et al. Citation2018; Li, Xiang, et al. Citation2019; Wang et al. Citation2020). Briefly, the total genomic DNA of Sporobolomyces sp. was extracted using a Fungal DNA Kit D3390-00 (Omega Bio-Tek, Norcross, GA, USA). The extracted genomic DNA was purified using a Gel Extraction Kit (Omega Bio-Tek, Norcross, GA, USA). The purified DNA was stored in Chengdu University (No. DNA_ Spo_ns1). We constructed sequencing libraries with the purified genomic DNA using a NEBNext® Ultra™ II DNA Library Prep Kit (NEB, Beijing, China). Whole genomic sequencing (WGS) of Sporobolomyces sp. was conducted using the Illumina HiSeq 2500 Platform (Illumina, SanDiego, CA). We de novo assembled the mitochondrial genome of Sporobolomyces sp. using SPAdes 3.9.0 (Bankevich et al. Citation2012; Li, Ren, et al. Citation2020). The complete mitochondrial genome of Sporobolomyces sp. was annotated according to previously described methods (Li, Chen, et al. Citation2018; Li, Wang, et al. Citation2018).
We found the complete mitochondrial genome of Sporobolomyces sp. is 26,430 bp in length, with the base composition as follows: A (30.82%), T (29.84%), G (20.35%), and C (18.97%). The complete mitochondrial genome of Sporobolomyces sp. contains 15 protein-coding genes, two ribosomal RNA genes (rns and rnl), and 25 transfer RNA (tRNA) genes. To investigate the phylogenetic positions of Sporobolomyces sp., we constructed a phylogenetic tree for 18 Basidiomycota species. Rhizopogon salebrosus from the Boletales order was set as the outgroup (Li, Ren, et al. Citation2019). The phylogenetic tree was constructed using the Bayesian analysis (BI) method based on the combined 14 core protein-coding genes according to previously described methods (Li, Wang, Jin, Chen, Xiong, Li, Liu, et al. Citation2019; Li, Wang, Jin, Chen, Xiong, Li, Zhao, et al. Citation2019; Li, Yang, et al. Citation2020). As shown in the phylogenetic tree (), the mitochondrial genome of Sporobolomyces sp. exhibited a close relationship with that of Rhodotorula mucilaginosa (Gan et al. Citation2017).
Figure 1. Bayesian phylogenetic analysis of 18 species based on the combined 14 core protein-coding genes. Accession numbers of mitochondrial sequences used in the phylogenetic analysis are listed in brackets after species.
Disclosure statement
The authors have declared that no competing interests exist.
Data availability statement
This mitogenome of Sporobolomyces sp. was submitted to GenBank under the accession number of MT663151. (https://www.ncbi.nlm.nih.gov/nuccore/MT663151).
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References
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