Asif MH, Mantri SS, Sharma A et al (2010) Complete sequence and organisation of the Jatropha curcas (Euphorbiaceae) chloroplast genome. Tree Genet Genomes 6:941–952. https://doi.org/10.1007/s11295-010-0303-0
Beier S, Thiel T, Münch T et al (2017) MISA-web: a web server for microsatellite prediction. Bioinformatics 33:2583–2585. https://doi.org/10.1093/bioinformatics/btx198
Article CAS PubMed PubMed Central Google Scholar
Bi Y, Zhang MF, Xue J et al (2018) Chloroplast genomic resources for phylogeny and DNA barcoding: a case study on Fritillaria. Sci Rep 8:1–12. https://doi.org/10.1038/s41598-018-19591-9
Bouman RW, Keßler PJA, Telford IRH et al (2021) Molecular phylogenetics of Phyllanthus sensu lato (Phyllanthaceae): towards coherent monophyletic taxa. Taxon 70:72–98. https://doi.org/10.1002/tax.12424
Bremer B, Bremer K, Chase MW et al (2003) An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II. Bot J Linn Soc 141:399–436. https://doi.org/10.1046/j.1095-8339.2003.t01-1-00158.x
Chen S, Zhou Y, Chen Y, Gu J (2018) Fastp: An ultra-fast all-in-one FASTQ preprocessor. Bioinformatics 34:i884–i890. https://doi.org/10.1093/bioinformatics/bty560
Article CAS PubMed PubMed Central Google Scholar
Chen Y, Zhong H, Zhu Y et al (2020) Plastome structure and adaptive evolution of Calanthe s.l. species. PeerJ 8:e10051. https://doi.org/10.7717/peerj.10051
Article PubMed PubMed Central Google Scholar
Christenhusz MJM, Byng JW (2016) The number of known plants species in the world and its annual increase. Phytotaxa 261:201–217. https://doi.org/10.11646/phytotaxa.261.3.1
Daniell H, Lin CS, Yu M, Chang WJ (2016) Chloroplast genomes: diversity, evolution, and applications in genetic engineering. Genome Biol 17:1–29. https://doi.org/10.1186/s13059-016-1004-2
Dong W, Xu C, Li C et al (2015) ycf1, the most promising plastid DNA barcode of land plants. Sci Rep 5:8348. https://doi.org/10.1038/srep08348
Article CAS PubMed PubMed Central Google Scholar
Doyle JJ, Doyle JL (1987) Genomic plant DNA preparation from fresh tissue-CTAB method. Phytochem Bull 19:11–15
Drescher A, Stephanie R, Calsa T et al (2000) The two largest chloroplast genome-encoded open reading frames of higher plants are essential genes. Plant J 22:97–104. https://doi.org/10.1046/j.1365-313X.2000.00722.x
Article CAS PubMed Google Scholar
Fahrenkrog AM, Matsumoto GO, Toth K et al (2022) Chloroplast genome assemblies and comparative analyses of commercially important Vaccinium berry crops. Sci Rep 12:21600. https://doi.org/10.1038/s41598-022-25434-5
Article CAS PubMed PubMed Central Google Scholar
Fang H, Dai G, Liao B et al (2023) Application of chloroplast genome in the identification of Phyllanthus urinaria and its common adulterants. Front Plant Sci 13:1–12. https://doi.org/10.3389/fpls.2022.1099856
Feng Y, Gao X-F, Zhang J-Y et al (2022) Complete chloroplast genomes provide insights into evolution and phylogeny of Campylotropis (Fabaceae). Front Plant Sci 13:895543. https://doi.org/10.3389/fpls.2022.895543
Article CAS PubMed PubMed Central Google Scholar
Gupta C, Singh RK, Mohapatra AK (2022) Geneminer: a classification approach for detection of XSS attacks on web services. Comput Intell Neurosci 2022:1–12. https://doi.org/10.1155/2022/3675821
Gustafsson MHG, Bittrich V, Stevens PF (2002) Phylogeny of Clusiaceae based on rbc L sequences. Int J Plant Sci 163:1045–1054
Hidalgo BF, Bazan SF, Iturralde RB, Borsch T (2020) Phylogenetic relationships and character evolution in neotropical Phyllanthus (Phyllanthaceae), with a focus on the cuban and caribbean taxa. Int J Plant Sci 181:284–305. https://doi.org/10.1086/706454
Hidalgo O, Garnatje T, Susanna A, Mathez J (2004) Phylogeny of valerianaceae based on matK and ITS markers, with reference to matK individual polymorphism. Ann Bot 93:283–293. https://doi.org/10.1093/aob/mch042
Article CAS PubMed PubMed Central Google Scholar
Hoffmann P, Kathriarachchi H, Wurdack KJ (2006) A phylogenetic classification of Phyllanthaceae (Malpighiales; Euphorbiaceae sensu lato). Kew Bull 61:37–53
Jiang H, Tian J, Yang J et al (2022) Comparative and phylogenetic analyses of six Kenya Polystachya (Orchidaceae) species based on the complete chloroplast genome sequences. BMC Plant Biol 22:1–21. https://doi.org/10.1186/s12870-022-03529-5
Jin JJ, Bin YuW, Yang JB et al (2020) GetOrganelle: A fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biol 21:1–31. https://doi.org/10.1186/s13059-020-02154-5
Kathriarachchi H, Hoffmann P, Samuel R et al (2005) Molecular phylogenetics of Phyllanthaceae inferred from five genes (plastid atpB, matK, 3′ndhF, rbcL, and nuclear PHYC). Mol Phylogenet Evol 36:112–134. https://doi.org/10.1016/j.ympev.2004.12.002
Article CAS PubMed Google Scholar
Kathriarachchi H, Samuel R, Hoffmann P et al (2006) Phylogenetics of tribe Phyllantheae (Phyllanthaceae; Euphorbiaceae sensu lato) based on nrITS and plastid matK DNA sequence data. Am J Bot 93:637–655. https://doi.org/10.3732/ajb.93.4.637
Article CAS PubMed Google Scholar
Katoh K, Rozewicki J, Yamada KD (2018) MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. Brief Bioinform 20:1160–1166. https://doi.org/10.1093/bib/bbx108
Kawakita A, Kato M (2017) Diversity of Phyllanthaceae Plants. Obligate Pollination Mutualism. Springer, Tokyo, pp 81–115
Kikuchi S, Bédard J, Hirano M et al (2013) Uncovering the protein translocon at the chloroplast inner envelope membrane. Science 339:571–574. https://doi.org/10.1126/science.1229262
Kirchner S, Ignatova Z (2015) Emerging roles of tRNA in adaptive translation, signalling dynamics and disease. Nat Rev Genet 16:98–112. https://doi.org/10.1038/nrg3861
Article CAS PubMed Google Scholar
Li B, Qiu H, Ma J et al (2008) Euphorbiaceae. Flora of China. Science Press, Beijing, pp 163–314
Li Q, Wei R (2022) Comparison of boraginales plastomes: insights into codon usage bias, adaptive evolution, and phylogenetic relationships. Diversity 14:1104. https://doi.org/10.3390/d14121104
Liu LM, Du XY, Guo C, Li DZ (2021) Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data. J Syst Evol 59:442–453. https://doi.org/10.1111/jse.12666
Lowe TM, Chan PP (2016) tRNAscan-SE on-line: integrating search and context for analysis of transfer RNA genes. Nucleic Acids Res 44:W54–W57. https://doi.org/10.1093/nar/gkw413
Article CAS PubMed PubMed Central Google Scholar
Maroyi A (2019) Utilization of Bridelia mollis as herbal medicine, nutraceutical and functional food in southern Africa: a review. Trop J Pharm Res 18:203–209. https://doi.org/10.4314/tjpr.v18i1.30
Minh BQ, Schmidt HA, Chernomor O et al (2020) IQ-tree 2: new models and efficient methods for phylogenetic inference in the genomic era. Mol Biol Evol 37:1530–1534. https://doi.org/10.1093/molbev/msaa015
Article CAS PubMed PubMed Central Google Scholar
Mohanta TK, Mohanta YK, Sharma N (2023) Anticodon table of the chloroplast genome and identification of putative quadruplet anticodons in chloroplast tRNAs. Sci Rep 13:1–14. https://doi.org/10.1038/s41598-023-27886-9
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