Characterization of the mitochondrial genome of Chlorolobion braunii ITBB-AG6, an azolla-associated green alga isolated from sanitary sewage

References

• Alam MT, Merlo ME, Takano E, Breitling R. 2010. Genome-based phylogenetic analysis of Streptomyces and its relatives. Mol Phylogenet Evol. 54(3):763–772. doi:10.1016/j.ympev.2009.11.019.
   PubMed Web of Science ®Google Scholar
• Bogen C, Al-Dilaimi A, Albersmeier A, Wichmann J, Grundmann M, Rupp O, Lauersen KJ, Blifernez-Klassen O, Kalinowski J, Goesmann A, et al. 2013. Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production. BMC Genomics. 14:926. doi:10.1186/1471-2164-14-926.
   PubMed Web of Science ®Google Scholar
• de Cambiaire JC, Otis C, Lemieux C, Turmel M. 2006. The complete chloroplast genome sequence of the chlorophycean green alga Scenedesmus obliquus reveals a compact gene organization and a biased distribution of genes on the two DNA strands. BMC Evol Biol. 6:37. doi:10.1186/1471-2148-6-37.
   PubMed Web of Science ®Google Scholar
• Denovan-Wright EM, Nedelcu AM, Lee RW. 1998. Complete sequence of the mitochondrial DNA of Chlamydomonas eugametos. Plant Mol Biol. 36(2):285–295. doi:10.1023/a:1005995718091.
   PubMed Web of Science ®Google Scholar
• Falkowski PG, Katz ME, Knoll AH, Quigg A, Raven JA, Schofield O, Taylor FJ. 2004. The evolution of modern eukaryotic phytoplankton. Science. 305(5682):354–360. doi:10.1126/science.1095964.
   PubMed Web of Science ®Google Scholar
• Fucikova K, Lewis PO, Lewis LA. 2014. Putting incertae sedis taxa in their place: a proposal for ten new families and three new genera in Sphaeropleales (Chlorophyceae, Chlorophyta). J Phycol. 50(1):14–25. doi:10.1111/jpy.12118.
   PubMed Web of Science ®Google Scholar
• Fucikova K, Lewis PO, Lewis LA. 2016a. Chloroplast phylogenomic data from the green algal order Sphaeropleales (Chlorophyceae, Chlorophyta) reveal complex patterns of sequence evolution. Mol Phylogenet Evol. 98:176–183. doi:10.1016/j.ympev.2016.01.022.
   PubMed Web of Science ®Google Scholar
• Fucikova K, Lewis LA, Lewis PO. 2016b. Comparative analyses of chloroplast genome data representing nine green algae in Sphaeropleales (Chlorophyceae, Chlorophyta). Data Brief. 7:558–570. doi:10.1016/j.dib.2016.03.014.
   PubMed Web of Science ®Google Scholar
• Guiry MD, Guiry GM. 2018. AlgaeBase. World-wide electronic publication, National University of Ireland, Galway. https://www.algaebase.org; [cited 2023 Mar 2].
   Google Scholar
• He L, Wang Z, Lou S, Lin X, Hu F. 2018. The complete chloroplast genome of the green algae Hariotina reticulata (Scenedesmaceae, Sphaeropleales, Chlorophyta). Genes Genomics. 40(5):543–552. doi:10.1007/s13258-018-0652-x.
   PubMed Web of Science ®Google Scholar
• Hepperle D, Hegewald E, Krienitz L. 2000. Phylogenetic position of the Oocystaceae (Chlorophyta). J Phycol. 36(3):590–595. doi:10.1046/j.1529-8817.2000.99184.x.
   PubMed Web of Science ®Google Scholar
• Hu X, Meneses YE, Aly Hassan A. 2020. Integration of sodium hypochlorite pretreatment with co-immobilized microalgae/bacteria treatment of meat processing wastewater. Bioresour Technol. 304:122953. doi:10.1016/j.biortech.2020.122953.
   PubMed Web of Science ®Google Scholar
• Komárek J. 1979. Änderungen in der Taxonomie der Chlorokokkalalgen. Archiv Hydrobiol Suppl. 56(24):239–263.
   Google Scholar
• Komárková-Legnerová J. 1969. The systematics and ontogenesis of the genera Ankistrodesmus Corda and Monoraphidium gen. nov. In: Fott B, editor. Studies in phycology. Prague: Academia Publishing House of the Czechoslovak Academy of Sciences; p. 75–144.
   Google Scholar
• Koren S, Walenz BP, Berlin K, Miller JR, Bergman NH, Phillippy AM. 2017. Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation. Genome Res. 27(5):722–736. doi:10.1101/gr.215087.116.
   PubMed Web of Science ®Google Scholar
• Krienitz L, Hegewald EH, Hepperle D, Wolf M. 2003. The systematics of coccoid green algae: 18S rRNA gene sequence data versus morphology. Biologia. 58:437–446.
   Web of Science ®Google Scholar
• Kroymann J, Zetsche K. 1998. The mitochondrial genome of Chlorogonium elongatum inferred from the complete sequence. J Mol Evol. 47(4):431–440. doi:10.1007/pl00006400.
   PubMed Web of Science ®Google Scholar
• Kulkarni S, Rubio MAT, Hegedűsová E, Ross RL, Limbach PA, Alfonzo JD, Paris Z. 2021. Preferential import of queuosine-modified tRNAs into Trypanosoma brucei mitochondrion is critical for organellar protein synthesis. Nucleic Acids Res. 49(14):8247–8260. doi:10.1093/nar/gkab567.
   PubMed Web of Science ®Google Scholar
• Kumar G, Huy M, Bakonyi P, Belafi-Bako K, Kim SH. 2018. Evaluation of gradual adaptation of mixed microalgae consortia cultivation using textile wastewater via fed batch operation. Biotechnol Rep. 20:e00289. doi:10.1016/j.btre.2018.e00289.
   Google Scholar
• Leliaert F, Smith DR, Moreau H, Herron MD, Verbruggen H, Delwiche CF, De Clerck O. 2012. Phylogeny and molecular evolution of the green algae. Crit Rev Plant Sci. 31(1):1–46. doi:10.1080/07352689.2011.615705.
   Web of Science ®Google Scholar
• Lemieux C, Vincent AT, Labarre A, Otis C, Turmel M. 2015. Chloroplast phylogenomic analysis of chlorophyte green algae identifies a novel lineage sister to the Sphaeropleales (Chlorophyceae). BMC Evol Biol. 15:264. doi:10.1186/s12862-015-0544-5.
   PubMed Web of Science ®Google Scholar
• Ma S, Han B, Huss VR, Hu X, Sun X, Zhang J. 2015. Chlorella thermophila (Trebouxiophyceae, Chlorophyta), a novel thermo-tolerant Chlorella species isolated from an occupied rooftop incubator. Hydrobiologia. 760(1):81–89. doi:10.1007/s10750-015-2304-3.
   Web of Science ®Google Scholar
• Ma S, Huss VAR, Tan DG, Sun XP, Chen JB, Xie YY, Zhang JM. 2013. A novel species in the genus Heveochlorella (Trebouxiophyceae, Chlorophyta) witnesses the evolution from an epiphytic into an endophytic lifestyle in tree-dwelling green algae. Eur J Phycol. 48(2):200–209. doi:10.1080/09670262.2013.790996.
   Web of Science ®Google Scholar
• Nedelcu AM, Lee RW, Lemieux C, Gray MW, Burger G. 2000. The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome. Genome Res. 10(6):819–831. doi:10.1101/gr.10.6.819.
   PubMed Web of Science ®Google Scholar
• Ni Y, Li J, Zhang C, Liu C. 2023. Generating sequencing depth and coverage map for organelle genomes.
   Google Scholar
• Ruan J, Li H. 2020. Fast and accurate long-read assembly with wtdbg2. Nat Methods. 17(2):155–158. doi:10.1038/s41592-019-0669-3.
   PubMed Web of Science ®Google Scholar
• Rzhetsky A, Nei M. 1992. Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. J Mol Evol. 35(4):367–375. doi:10.1007/BF00161174.
   PubMed Web of Science ®Google Scholar
• Sanders WB, Perez-Ortega S, Nelsen MP, Lucking R, de Los Rios A. 2016. Heveochlorella (Trebouxiophyceae): a little-known genus of unicellular green algae outside the Trebouxiales emerges unexpectedly as a major clade of lichen photobionts in foliicolous communities. J Phycol. 52(5):840–853. doi:10.1111/jpy.12446.
   PubMed Web of Science ®Google Scholar
• Sharma A, Sharma A. 2015. Plasmodium falciparum mitochondria import tRNAs along with an active phenylalanyl-tRNA synthetase. Biochem J. 465(3):459–469. doi:10.1042/BJ20140998.
   PubMedGoogle Scholar
• Sievers F, Higgins DG. 2021. The clustal omega multiple alignment package. Methods Mol Biol. 2231:3–16. doi:10.1007/978-1-0716-1036-7_1.
   PubMedGoogle Scholar
• Smith DR, Hamaji T, Olson BJ, Durand PM, Ferris P, Michod RE, Featherston J, Nozaki H, Keeling PJ. 2013. Organelle genome complexity scales positively with organism size in volvocine green algae. Mol Biol Evol. 30(4):793–797. doi:10.1093/molbev/mst002.
   PubMed Web of Science ®Google Scholar
• Stothard P, Wishart DS. 2005. Circular genome visualization and exploration using CGView. Bioinformatics. 21(4):537–539. doi:10.1093/bioinformatics/bti054.
   PubMed Web of Science ®Google Scholar
• Walker BJ, Abeel T, Shea T, Priest M, Abouelliel A, Sakthikumar S, Cuomo CA, Zeng QD, Wortman J, Young SK, et al. 2014. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLOS One. 9(11):e112963. doi:10.1371/journal.pone.0112963.
   PubMed Web of Science ®Google Scholar
• Yu B, Ma S, Han B, Fu L, Tan D, Sun X, Zhang J. 2020. The complete mitochondrial genome of the rubber tree endophytic alga Heveochlorella hainangensis. Mitochondrial DNA Part B. 5(2):1303–1304. doi:10.1080/23802359.2020.1732237.
   Web of Science ®Google Scholar