References
- Anton B, Sergey N, Dmitry A, Alexey AG, Mikhail D, Alexander SK, Valery ML, Sergey IN, Son P, Andrey DP, et al. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 19:455–477.
- Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemic Bullet. 19:11–15.
- JianJun J, WenBin Y, JunBo Y, Yu S, TingShuang Y, De-Zhu L. 2018. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. bioRxiv. 256479.
- Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol. 30(4):772–780.
- Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, et al. 2012. Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics. 28(12):1647–1649.
- Laslett D, Canback B. 2004. ARAGORN, a program to the detection of transfer RNA and transfer-messenger RNA genes in nucleotide sequences. Nucleic Acids Res. 32(1):11–16.
- Ryan RW, Mark BS, Justin Z, Kathryn EH. 2015. Bandage: interactive visualization of de novo genome assemblies. Bioinformatics. 31:3350–3352.
- Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics. 22(21):2688–2690.
- Stamatakis A. 2014. RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics. 30(9):1312–1313.