The complete mitochondrial genome of a microalgae Chlamydomonas moewusii strain XJCH-01 from Tarim Basin of Xinjiang, China

Abstract

Chlamydomonas moewusii is a microalga isolated from the Tarim Basin of Xinjiang, China. The complete mitochondrial genome sequence of C. moewusii strain XJCH-01 was determined in this study (Accession number MT015649). The mitogenome (22,887 bp, 34.58% G + C) consists of 7 protein-coding genes (PCG), discontinuous large and small subunit ribosomal RNA (rRNA), and 4 transfer RNA (tRNA) genes. The complete mitochondrial genome sequence of the C. moewusii strain XJCH-01 enriches data resources for further study in genetic and functional evolution.

Keywords:

• Microalgae
• Chlamydomonas moewusii
• Mitochondrial genome

The single-celled Chlamydomonas was similar to the ancestors of land plants, which is considered an interesting model organism for studying genetic and functional evolution (Merchant et al. 2007). Chlamydomonas moewusii is a genus of the family Chlamydomonadaceae in the order Chlamydomonadales of Chlorophyceae consisting of unicellular flagellates, found in stagnant water and on damp soil containing organic matter, as a hydrogen-producing ecologically important group in the environment (Harris 2001). Here, the complete mitochondrial genome of C. moewusii was sequenced and characterized in detail. The strain of C. moewusii, named as XJCH-01, was isolated from Tarim Basin (39°95′N 84°26′E), Xinjiang Uygur Autonomous region, China in August, 2019. It was stored in the College of Life Sciences, Linyi University, Linyi, China. Genomic DNA was extracted from cultured C. moewusii according to Liu et al. (2012, 2014). The complete mitochondrial genome of C. moewusii strain XJCH-01 was sequenced using a shotgun approach and assembly. Subsequently, sequence data were analyzed according to Denovan-Wright et al. (1998). Clustal W was used for multiple sequence alignments (Thompson et al. 1994) and nucleotide sequence similarity searches were performed at the National Center for Biotechnology Information using the BLAST online service (Altschul et al. 1990).

The complete mitochondrial genome C. moewusii strain XJCH-01 (Accession number MT015649) was 22,887 bp in length with a G + C content of 34.58%. The C. moewusii mtDNA encodes seven respiratory chain proteins (cob: apocytochrome b, cox1: subunit 1 of cytochrome oxidase, subunits nad1, nad2, nad4, nad5, and nad6: 1, 2, 4, 5, and 6 of the NADH dehydrogenase complex), four tRNAs and discontinuous LSU and SSU rRNAs. However, there are two large direct repeat regions that do not appear to encode any functional mitochondrial molecule. The arrangement and composition of the mitochondrial genome are similar to the known microalgae genomes (Wolff et al. 1994; Denovan-Wright et al. 1998; Smith et al., 2011; Servin-Garciduenas and Martinez-Romero 2012; Tourasse et al. 2015; Hu et al. 2019; Huang et al. 2019). However, it showed a big difference from the vertebrates (Liu et al. 2016; Li, Liu, Sui, et al. 2019; Li, Kiu, Zhang, 2019) and the Arthropoda (Lavrov et al. 2000; Masta and Boore 2004; Choi et al. 2007). A phylogenetic tree was constructed based on the comparison of the complete mitochondrial genome sequences with other Chlorophyceae species using neighbour-joining method to determine the phylogenetic position of C. moewusii strain XJCH-01 (Figure 1). All 7 protein-coding genes identified in the C. moewusii mitochondrial genome, started with the typical initiation codon ATG. No incomplete termination codons were found, all PCGs had the complete termination codons TAA, whereas cob terminate with TAG. Among them, three (cob, cox1, and nad1) each contain one group I intron and one (nad5) contains two group I introns. In addition, seven ORFs (i1-orf, i2-orf, i3-orf, i4-orf, i5-orf, i6-orf, i7-orf) were identified within the nine introns interrupting the coding regions of C. moewusii mtDNA. There is an additional gene for tRNA-met in C. moewusii mtDNA. Two of the tRNA genes, tRNA-Trp and tRNA-Gln, are clustered and separated by only 7 bp, whereas tRNA-met-1 and tRNA-met-2 were located between the two LSU regions, and separated by a large direct repeat region. The mitochondrial SSU and LSU rRNAs are encoded by three (rns-a ∼ rns-c) and six (rnl-a ∼ rnl-f) rRNA gene pieces, respectively, which were dispersed throughout the genome and interspersed with each other and with protein-coding and tRNA genes. All the mitogenome genes were encoded on the same strand of the mtDNA molecule. The complete mitochondrial genome sequence obtained in our study would facilitate further investigations of phylogenetic relationships, genomic evolution and function within Chlorophyceae.

Figure 1. A phylogenetic tree constructed based on the comparison of complete mitochondrial genome sequences with of the other seven Chlorophyceae species. The seven Chlorophyceae species are Pycnococcus provasolii, Pedinomonas minor, Chlorosarcinopsis eremi, Pleodorina starrii, Iudorina sp., Mychonastges homosphaera, and Neochloris aquatica. Genbank accession numbers for all sequences are listed in the figure. The numbers at the nodes are bootstrap percent probability values based on 1000 replications.

Disclosure statement

No potential conflict of interest was reported by the author(s).

Additional information

Funding

This work was supported by grants from Xinjiang Production & Construction Corps Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin [BRZD1602], the Key Research and Development Program in Shandong Province [2019YYSP026], the National Natural Science Foundation of China [31560719], and the High-level Talent Introduction Project of Linyi University [LYDX2018BS032].