Literature Cited

Akaike, H. 1974. A new look at the statistical model identification. IEEE Trans. Automat. Contr. 19(6): 716–723.
DOI: 10.1109/TAC.1974.1100705View Article Google Scholar

?lvarez, I. and J.F. Wendel. 2003. Ribosomal ITS sequences and plant phylogenetic inference. Mol. Phylogenet. Evol. 29(3): 417–434.
DOI: 10.1016/S1055-7903(03)00208-2View Article Google Scholar

Anderson, D.E. 1974. Taxonomy of the genus Chloris (Gramineae). Brigham Young Univ. Sci. Bull., Biol. series 19: 1–133.

Barkworth, M.E. 2003. Chloris Sw. In: Barkworth, M. E., K. M. Capels, S. Long and M. B. Piep (eds.) Flora of North America, North of Mexico, 25: 204-218. Flora of North America Editorial Committee, Oxford University press, Oxford and New York.

Blattner, F.R. 2004. Phylogenetic analysis of Hordeum (Poaceae) as inferred by nuclear rDNA ITS sequences. Mol. Phylogenet. Evo. 33(2): 289–299.
DOI: 10.1016/j.ympev.2004.05.012View Article Google Scholar

Catal?n, P., P. Torrecilla. J.?. L?pez Rodr??guez and R.G. Olmstead. 2004. Phylogeny of the festucoid grasses of subtribe Loliinae and allies (Poeae, Pooideae) inferred from ITS and trnL-F sequences. Mol. Phylogenet. Evol. 31(2): 517–541.
DOI: 10.1016/j.ympev.2003.08.025View Article Google Scholar

Chen, C.-H., J.F. Veldkamp, C.-S. Kuoh, C.-C. Tsai and Y.-C. Chiang. 2009. Segregation of Leptatherum from Microstegium (Andropogoneae, Poaceae) confirmed by Internal Transcribed Spacer DNA sequences. Blumea 54(1): 175–180.
DOI: 10.3767/000651909X476120View Article Google Scholar

Chen, C.-H., C.-Y. Lin and C.-S. Kuoh. 2011a. Grass Flora of Taiwan (1 of 3): Pharoideae, Ehrhartoideae, Pooideae, Centothecoideae, Arundinoideae, Aristidoideae, Chloridoideae. Endemic Species Research Institute, Jiji, Taiwan. 197 p.p.

Chen, C.-H., J.F. Veldkamp and C.-S. Kuoh. 2011b. Microstegium glabratum (Brongn.) A. Camus (Poaceae, Andropogoneae), a new record for Japan, China, and Taiwan, based on morphological and molecular evidence. Taiwania 56(2): 111–117.
DOI: 10.6165/tai.2011.56(2).111View Article Google Scholar

Clayton, W.D., S.M. Phillips and S.A. Renvoize. 1974. Chloris. In: R. M. Polhill (ed.), Flora of Tropical East Africa: GRAMINEAE (Part 2), pp.337-347. Crown Agents for Overseas Governments and Administrations, London and Tonbridge.

Darriba, D., G.L. Taboada, R. Doallo and D. Posada. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nat. Methods 9(8): 772.
DOI: 10.1038/nmeth.2109View Article Google Scholar

Edgar, R.C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32(5): 1792–1797.
DOI: 10.1093/nar/gkh340View Article Google Scholar

Essi, L., H.M. Longhi-Wagner and T.T. de Souza-Chies. 2008. Phylogenetic analysis of the Briza Complex (Poaceae). Mol. Phylogenet. Evol. 47(3): 1018–1029.
DOI: 10.1016/j.ympev.2008.03.007View Article Google Scholar

Feliner, G.N. and J.A. Rossell?. 2007. Better the devil you know? Guidelines for insightful utilization of nrDNA ITS in species-level evolutionary studies in plants. Mol. Phylogenet. Evol. 44(2): 911–919.
DOI: 10.1016/j.ympev.2007.01.013View Article Google Scholar

Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39(4): 783–791.
DOI: 10.2307/2408678View Article Google Scholar

Guindon, S. and O. Gascuel. 2003. A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood. Syst. Biol. 52(5): 696–704.
DOI: 10.1080/10635150390235520View Article Google Scholar

Hackel, E. 1906. Especie nova da Flora das ilhas de Cabo Verde. Bol. Soc. Broter. 21: 179–180.

Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic acids symposium series 41: 95–98.

Hand, M., N. Cogan, A. Stewart and J. Forster. 2010. Evolutionary history of tall fescue morphotypes inferred from molecular phylogenetics of the Lolium-Festuca species complex. BMC Evol. Biol. 10(1): 303.
DOI: 10.1186/1471-2148-10-303View Article Google Scholar

Hodkinson, T.R., M.W. Chase, M. Dolores Lled? , N. Salamin and S.A. Renvoize. 2002. Phylogenetics of Miscanthus, Saccharum and related genera (Saccharinae, Andropogoneae, Poaceae) based on DNA sequences from ITS nuclear ribosomal DNA and plastid trnL intron and trnL-F intergenic spacers. J. Plant Res. 115(5): 381–392.
DOI: 10.1007/s10265-002-0049-3View Article Google Scholar

Hollingsworth P. M. 2011. Refining the DNA barcode for land plants. Proc. Natl. Acad. Sci. USA 108(49): 19451-19452.
DOI: 10.1073/pnas.1116812108View Article Google Scholar

Hooker, W. J. 1849. Niger Flora.Hippolyte Bailliere, London. 588pp.

Hsu, C.-C. 2000. Chlorioideae. In: Boufford, D. E., C.-F. Hsieh, T.-C. Huang, C.-S. Kuoh, H. Ohasi and H.-J. Su (eds), Flora of Taiwan, 2nd ed. 5: 402-409. Editorial Committee of the Flora of Taiwan, Dept. Bot. National Taiwan University, Taipei.

Jung, M.-J., C.-W. Chen and S.-W. Chung. 2009. Chloris divaricata (Poaceae) and its variety C. divaricate cynodontoides in Taiwan. Taiwan J. For. Sci. 24(3): 205-211.
DOI: 10.7075/TJFS.200909.0205View Article Google Scholar

Kellogg, E.A. 2015. Flowering Plants, Monocots, Poaceae. In: Kubitzki, K. (ed.), The Families and Genera of Vascular Plants, 13: 386–387. Springer International Publishing, Switzerland.

Kishino, H. and M. Hasegawa. 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. J. Mol. Evol. 29(2): 170–179.
DOI: 10.1007/BF02100115View Article Google Scholar

Kress, W.J., K.J. Wurdack, A. Zimmer, L.A. Weigt and D. H. Janzen. 2005. Use of DNA barcodes to identify flowering plants. Proc. Natl. Acad. Sci. USA 102(23): 8369–8374.
DOI: 10.1073/pnas.0503123102View Article Google Scholar

Kumar, S., G. Stecher and K. Tamura. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33(7): 1870–1874.
DOI: 10.1093/molbev/msw054View Article Google Scholar

Li, D.-Z., L.-M. Gao, H.-T. Li, H. Wang, X.-J. Ge, J.-Q. Liu, Z.-D. Chen, S.-L. Zhou, S.-L. Chen, J.-B. Yang, C.-X. Fu, C.-X. Zeng, H.-F. Yan, Y.-J. Zhu, Y.-S. Sun, S.-Y. Chen, L. Zhao, K. Wang, T. Yang and G.-W. Duan. 2011. Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants. Proc. Natl. Acad. Sci. USA 108(49): 19641–19646.
DOI: 10.1073/pnas.1104551108View Article Google Scholar

Morgulis, A., G. Coulouris, Y. Raytselis, T.L. Madden, R. Agarwala and A.A. Sch?ffer. 2008. Database Indexing for Production MegaBLAST Searches. Bioinf. 24(16): 1757–1764.
DOI: 10.1093/bioinformatics/btn322View Article Google Scholar

Nightingale, M.E., M. Lazarides and C.M. Weiller. 2005. Chloris. In: Mallett K. (ed.) Flora of Australia 44B: 269-282. ABRS, Canberra/CSIRO publishing, Melbourne.

Page, R.D. 1996. TreeView: an application to display phylogenetic trees on personal computers. Comput. Appl. Biosci. 12(4): 357–358.
DOI: 10.1093/bioinformatics/12.4.357View Article Google Scholar

Peterson, P.M., K. Romaschenko and G. Johnson. 2010. A classification of the Chloridoideae (Poaceae) based on multi-gene phylogenetic trees. Mol. Phylogenet. Evol. 55(2): 580–598.
DOI: 10.1016/j.ympev.2010.01.018View Article Google Scholar

Peterson, P.M., K. Romaschenko and R.J. Soreng. 2014. A laboratory guide for generating DNA barcodes in grasses: a case study of Leptochloa s.l. (Poaceae: Chloridoideae). Webbia 69(1): 1–12.
DOI: 10.1080/00837792.2014.927555View Article Google Scholar

Peterson, P.M., K. Romaschenko and Y.H. Arrieta. 2015. A molecular phylogeny and classification of the Eleusininae with a new genus, Micrachne (Poaceae: Chloridoideae: Cynodonteae). Taxon 64(3): 445–467.
DOI: 10.12705/643.5View Article Google Scholar

Phillips, S.M. 1995. Poaceae (Gramineae). In: Hedberg, I. and S. Edwards (eds.), Flora of Ethiopia and Eritrea, Vol. 7. National Herbarium, Addis Ababa University, Addis Ababa and Uppsala. 420 pp.

Posada, D. 2003. Using MODELTEST and PAUP* to select a model of nucleotide substitution. Curr. Protoc. Bioinf. 00: 6.5.1–6.5.14.
DOI: 10.1002/0471250953.bi0605s00View Article Google Scholar

Posada, D. and T. Buckley. 2004. Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests. Syst. Biol. 53(5): 793–808.
DOI: 10.1080/10635150490522304View Article Google Scholar

Ronquist, F., M. Teslenko, P. van der Mark, D.L. Ayres, A. Darling, S. H?hna, B. Largetr, L. Liu, M.A. Suchard and J.P. Huelsenbeck. 2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61(3): 539–542.
DOI: 10.1093/sysbio/sys029View Article Google Scholar

Schumacher, H.C.F. and P. Thonning. 1827. Beskrivelse af Guineeiske planter. Hartv. Frid. Popps Bogtrykkerie, Kj?benhavn. 466 pp.

Shimodaira, H. and M. Hasegawa. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16(8): 1114–1116.
DOI: 10.1093/oxfordjournals.molbev.a026201View Article Google Scholar

Shimodaira, H. and M. Hasegawa. 2001. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17(12): 1246–1247.
DOI: 10.1093/bioinformatics/17.12.1246View Article Google Scholar

Shimodaira, H. 2002. An approximately unbiased test of phylogenetic tree selection. Syst. Biol. 51(3): 492–508.
DOI: 10.1080/10635150290069913View Article Google Scholar

Soreng, R.J., P.M. Peterson, K. Romaschenko, G. Davidse, J.K. Teisher, L.G. Clark, P. Barber?, L.J. Gillespie and F.O. Zuloaga. 2017. A worldwide phylogenetic classification of Poaceae (Gramineae) II: an update and a comparison of two 2015 classifications. J. Syst. Evol. 55(4): 259–290.
DOI: 10.1111/jse.12262View Article Google Scholar

Stoeckle, M. 2003. Taxonomy, DNA, and the Bar Code of Life. BioScience 53(9): 796–797.
DOI: 10.1641/0006-3568(2003)053[0796:TDATBC]2.0.CO;2View Article Google Scholar

Sun, B.-S. and S.M. Phillips. 2006. Chloris Swartz. In: Wu, Z.-Y. and P. R. Raven (eds.), Flora of China 22: 489-490. Science Press, Beijing.

Swofford, D.L. 2002. PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Ver. 4.0a161. Sinauer Associates, Sunderland, Massachusetts.

Syme, A.E., F. Udovicic, V. Stajsic and D.J. Murphy. 2013. A test of sequence-matching algorithms for a DNA barcode database of invasive grasses. DNA Barcodes 1: 19-26.
DOI: 10.2478/dna-2012-0002View Article Google Scholar

Tavar?, S. 1986. Some probabilistic and statistical problems in the analysis of DNA sequences. Lectures Math. Life Sci. 17: 57–86.

Vanden Berghen, C. 1987. Chloris pilosa Schumach. var. nigra (Hackel) Vanden Berghen comb. nov. (Gramineae). Bull. Jard. Bot. Natl. Belg. 57, 455–456.
DOI: 10.2307/3668115View Article Google Scholar

Zon, A.P.M. van der. 1992. Gramin?es du Cameroun vol. 2 Flore. Wageningen Agricultural University Papers 92–1. 557 pp.

Wang, A., D. Gopurenko, H. Wu and B. Lepschi. 2017. Evaluation of six candidate DNA barcode loci for identification of five important invasive grasses in eastern Australia. PLoS ONE 12(4): e0175338.
DOI: 10.1371/journal.pone.0175338View Article Google Scholar

Yang, Z.-H. 1994. Maximum-likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39(3): 306–314.
DOI: 10.1007/BF00160154View Article Google Scholar

Yang, Z-H. 2007. PAML 4: a program package for phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24(8): 1586–1591
DOI: 10.1093/molbev/msm088View Article Google Scholar

Zhang, Z., S. Schwartz, L. Wagner and W. Miller. 2000. A greedy algorithm for aligning DNA sequences. J. Comput. Biol. 7(1-2): 203–214.
DOI: 10.1089/10665270050081478View Article Google Scholar