Published June 8, 2022 | Version v1
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Molecular phylogenetics of Sorocea (Moraceae)

  • 1. Instituto de Pesquisas Ambientais, Herbarium SP, Avenida Miguel Stefano 3687, São Paulo, SP, 04301-902, Brazil. & leticiademattosbot@gmail.com; https://orcid.org/0000-0002-6404-4374
  • 2. Instituto de Pesquisas Ambientais, Herbarium SP, Avenida Miguel Stefano 3687, São Paulo, SP, 04301-902, Brazil. & agaglioti@gmail.com; https://orcid.org/0000-0002-2638-4642
  • 3. Universidade Estadual do Centro-Oeste, Plant Genetics and Molecular Biology Laboratory, Rua Alameda Élio Antonio Dalla Vecchia 838, Guarapuava, PR, 85040-167, Brazil. & pabloprs@hotmail.com; https://orcid.org/0000-0003-3190-1461
  • 4. Instituto de Pesquisa do Jardim Botânico do Rio de Janeiro, DIPEQ, Rua Pacheco Leâo 915, Rio de Janeiro, RJ, 22460-030, Brazil. & leandro.pederneiras@gmail.com; https://orcid.org/0000-0003-1822-227X
  • 5. Instituto de Pesquisas Ambientais, Herbarium SP, Avenida Miguel Stefano 3687, São Paulo, SP, 04301-902, Brazil. & sromaniuc@gmail.com; https://orcid.org/0000-0002-2759-3008

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Mattos, Leticia De, Gaglioti, André Luiz, Da-Silva, Paulo Roberto, Pederneiras, Leandro Cardoso, Romaniuc-Neto, Sergio (2022): Molecular phylogenetics of Sorocea (Moraceae). Phytotaxa 549 (2): 185-198, DOI: 10.11646/phytotaxa.549.2.4

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References

  • Aublet, J.B.C.F. (1775) Histoire des Plantes de la Guiane Francoise 2, Suppl. London, P.F. Didot jeune. 160 pp.
  • Baillon, H, (1860) Note sur une nouvelle espece du genre Sorocea. Adansonia 1: 212-213
  • Akaike, H. (1974) A new look at the statistical model identification. IEEE Transactions on Automatic Control 19: 716-723. https://doi.org/10.1109/TAC.1974.1100705
  • Baillon, H. (1877) Ulmacees. In: Baillon, H. (Ed.) Histoire des plantes. Libraurue Hachette, Paris, pp. 137-216.
  • Barker, K.F. & Lutzoni, F.M. (2002) The utility of the incongruence length difference. Systematic Biology 51: 625-637. https://doi.org/10.1080/10635150290102302
  • Bentham, G. & Hooker, J.D. (1880) Genera plantarum. 3. Lovell Reeve, London, 459 pp.
  • Berg, C.C. (1977) Urticales, Their Differentiation and Systematic Position. Plant Systematics and Evolution - Supplementa 1: 349-374.
  • Berg, C.C. (1989) Systematics and phylogeny of the Urticales. In: Crane, P.R. & Blackmore, S. (eds.) Evolution, Systematics, and Fossil History of the Hamamelidae. 'Higher' Hamamelidae, Clarendon Press, Oxford, pp. 193-220.
  • Berg, C.C. (1990) Differentiation of flowers and inflorescences of Urticales in relation to their protection against breeding insects and to pollination. Sommerfeltia 11: 13-34.
  • Berg, C.C. (2001) Moreae, Artocarpeae, and Dorstenia (Moraceae). With introductions to the family and Ficus and with additions and corrections to Flora Neotropica Monograph 7. Flora Neotropica Monograph 83. The New York Botanical Garden, New York, 346 pp.
  • Berg, C.C. (2005) Flora Malesiana precursor for the treatment of Moraceae 8: other genera than Ficus. Blumea 50: 535-550. https://doi.org/10.3767/000651905X622815
  • BFG. (2015) Growing knowledge: an overview of Seed Plant diversity in Brazil. Rodriguesia 66: 1085-1113. https://doi.org/10.1590/2175-7860201566411
  • Biomatter. Geneious® 11.1.5. Biomatters development team. (2018) Available from: https://www.geneious.com/ (accessed 17 June 2020).
  • Browne, P. (1756) The Civil and Natural History of Jamaica in Three Parts. London: Printed for the author, and sold by T. Osborne and J. Shipton in Gray's-Inn. 503 pp.
  • Bureau, E.D. (1873) Artocarpaceae. In: De-Candolle, A.P. (Ed.) Prodromus Systematis Naturalis Regni Vegetabilis. Vol. 17. Sumptibus Sociorum Treuttel et Wu¨rtz, Paris, pp. 280-288.
  • Burger, W.C. (1962) Studies in new world Moraceae: Trophis, Clarisia, Acanthinophyllum. Annals of the Missouri Botanical Garden 49: 1-34. https://doi.org/10.2307/2394739
  • Burger, W.G., Lanjouw, J. & Boer, J.G.W. (1962) The genus Sorocea St. Hil. (Morac.). Acta Botanica Neerlandica 11: 428-477. https://doi.org/10.1111/j.1438-8677.1962.tb00098.x
  • Clement, W.L. (2008) Phylogeny and Pollination Ecology of Castilleae (Moraceae): Investigating the Evolutionary History of the Figs' Closest Relatives. Doctoral thesis, University of Minnesota, Minnesota, 296 pp.
  • Clement, W.L. & Weiblen, G.D. (2009) Morphological Evolution in the Mulberry Family (Moraceae). Systematic Botany 34: 530-552. https://doi.org/10.1600/036364409789271155
  • Corner, E.J.H. (1962) The Classification of Moraceae. The Gardens' bulletin, Singapore 19: 187-252.
  • Cunningam, C.W. (1997) Can three incongruence tests predict when data should be combined? Molecular Biology and Evolution 14: 733-740. https://doi.org/10.1093/oxfordjournals.molbev.a025813
  • Darriba, D., Taboada, G.L., Doallo, R. & Posada, D. (2012) jModelTest 2: more models, new heuristics and parallel computing. Nature Methods 9: 772. https://doi.org/10.1038/nmeth.2109
  • Datwyler, S.L. & Weiblen, G.D. (2004) On the origin of fig: phylogenetic relationships of Moraceae from ndhF sequences. American Journal of Botany 91: 767-777. https://doi.org/10.3732/ajb.91.5.767
  • Engler, G.H.A. (1889) Moraceae. In: Engler, G.H.A. & Prantl, K. (Eds.) Naturlichen Pflanzenfamilien. Vol. 3. Engelmann, Leipzig, pp. 66-98.
  • Erixon, P., Svennblad, B., Britton, T. & Oxelman, B. (2003) Reliability of Bayesian Posterior Probabilities and Bootstrap Frequencies in Phylogenetics. Systematic Biology 52: 665-673. https://doi.org/10.1080/10635150390235485
  • Farris, J.S. (1989) The retention index and the rescaled consistency index. Cladistics 5: 417-419. https://doi.org/10.1111/j.1096-0031.1989.tb00573.x
  • Farris, J.S., Kallersjo, M., Kluge, A.G. & Bult, C.T. (1995) Testing significance in incongruence. Cladistics 10: 315-319. https://doi.org/10.1111/j.1096-0031.1994.tb00181.x
  • Felsenstein, J. (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791. https://doi.org/10.2307/2408678
  • Gaudichaud, C. (1844) Voyage autour de Monde execute pendant les Annees 136 et 1837 sur la Corvette la Bonite. Botanique 3 (Atlas): 1-150.
  • Hassler, E. (1907) Plantae paraguarienses, novae vel minus cognitae. Bulletin de l'Herbier Boissier, ser. 2, v. 7: 1-80.
  • Hemsley, W.B. (1883) Enumeration of incompletae, Monocotyledons, and Cryptogamic vasculares, with description of new species. Biologia Centrali-Americana, Botany 3: 1-711.
  • Karsten, G.K.W.H. (1863) Batocarpus orinocensis Krst. Florae Columbiae 2: 67-68.
  • Kearse, M, Moir, R., Wilson, A., Stones-Havas, S., Cheung, M., Sturrock, S., Buxton, S., Cooper, A., Markowitz, S., Duran, C., Thierer, T., Ashton, B., Meintjes, P. & Drummond, A. (2012) Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28: 1647-1649. https://doi.org/10.1093/bioinformatics/bts199
  • Kluge, A.G. & Farris, J.S. (1969) Quantitative phyletics and the evolution of anurans. Systematic Zoology 18: 1-32. https://doi.org/10.1093/sysbio/18.1.1
  • Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R., Thompson, J.D., Gibson, T.J., Higgins, D.G. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948. https://doi.org/10.1093/bioinformatics/btm404
  • Linnaeus, C. von (1775) Species plantarum. v. 2. Holmiae: Impensis Laurentii Salvii. 561-1200.
  • Macbride, J.F. (1934) New or renamed spermatophytes mostly Peruvian. Candollea 5: 346-402.
  • Maddison, W.P. & Maddison, D.R. (2019) Mesquite: a modular system for evolutionary analysis. Version 3.61 Available from: http://www. mesquiteproject.org (accessed 10 May 2020).
  • Miquel, F.A.W. (1853) Urticineae. In: Martius, C.F.P. (Ed.) Flora Brasiliensis. P. Leipzig, Oldenburg, pp. 78-218.
  • Pederneiras, L.C., Costa, A.F.D., Araujo, D.S.D.D. & Carauta, J.P.P. (2011) Moraceae of restingas of the state of Rio de Janeiro. Rodriguesia 62: 77-92.
  • Pederneiras, L.C.; Ribeiro, J.E.L.S.; Mattos, L. (2020) Sorocea in Flora do Brasil 2020. Jardim Botanico do Rio de Janeiro. Available from: http://floradobrasil.jbrj.gov.br/reflora/floradobrasil/FB10191 (accessed 3 April 2021).
  • Posada, D. & Buckley, T.R. (2004) Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests. Systematic Biology 53: 793-808. https://doi.org/10.1080/10635150490522304
  • Posada, D. & Crandall, K.A. (1998) Modeltest: testing the model of DNA substituition. Bioinformatics 14: 817-818. https://doi.org/10.1093/bioinformatics/14.9.817
  • Rambaut, A., Suchard, M.A., Xie, W. & Drummond, A.J. (2013) Tracer version 1.6.0. Available from: http://tree.bio.ed.ac.uk/software/ tracer/ (accessed 25 June 2020)
  • Ribeiro, J.D.S., Hopkins, M.J.G., Vicentini, A., Sothers, C.A. & Costa, M.D.S. (1999) Flora da Reserva Ducke: guia de identificacao das plantas vasculares de uma floresta de terra-firme na Amazonia Central. Manaus: INPA-DFID. 816 pp.
  • Romaniuc-Neto, S. (1998) Repartition geographique et speciation dans les genres Sorocea A. St.-Hil., Clarisia Ruiz et Pavon et Trophis P. Browne (Moraceae). Biogeographica 74: 145-162.
  • Romaniuc-Neto, S. (1999) Taxonomie et Biogeographie des genres Sorocea A.St-Hil., Clarisia Ruiz & Pav.et Trophis P. Browne (Moracees-Urticales). Mise en evidence de centres d´endemisme et zones a proteger au Bresil. Doctoral thesis, Museum National d´Histoire Naturelle, Paris, France, 347 pp.
  • Romaniuc-Neto, S., Carauta, J.P.P., Viana-Filho, M.D.M., Pereira, R.A.S., Ribeiro, J.E.L.S., Machado, A.F.P., Santos, A. & Pelissari, G. (2010) Moraceae. In: Forzza, R.C., Baumgratz, J.F.A., Bicudo, C.E.M., Carvalho, A.A., Costa, A., Costa, D.P., Hopkins, M., Leitman, P.M., Lohmann, L.G., Maia, L.C., Martinelli, G., Menezes, M., Morim, M.P., Coelho, M.A.N., Peixoto, A.L., Pirani, J.R., Prado, J., Queiroz, L.P., Souza, V.C., Stehmann, J.R., Sylvestre, L.S., Walter, B.M.T., Zappi, D. (orgs.), Forzza, R.C., Leitman, P.M., Costa, A., Carvalho, A.A., Peixoto, A.L., Walter, B.M.T., Bicudo, C., Zappi, D., Costa, D.P., Lleras, E., Martinelli, G., Lima, H.C., Prado, J., Stehmann, J.R., Baumgratz, J.F.A., Pirani, J.R., Sylvestre, L.S., Maia, L.C., Lohmann, L.G., Paganucci, L., Silveira, M., Nadruz, M., Mamede, M.C.H., Bastos, M.N.C., Morim, M.P., Barbosa, M.R., Menezes, M., Hopkins, M., Secco, R., Cavalcanti, T. & Souza, V.C. (Eds.) Catalogo de Plantas e Fungos do Brasil 2. Instituto de Pesquisas Jardim Botanico do Rio de Janeiro, Rio de Janeiro, pp. 1287-1295.
  • Romaniuc-Neto, S., Carauta, J.P.P., Vianna Filho, M.D.M., Pereira, R.A.S., Ribeiro, J.E.L., Machado, A.F.P., Santos, A., Pelissari, G. & Pederneiras, L.C. (2015) Moraceae in Lista de Especies da Flora do Brasil. Jardim Botanico do Rio de Janeiro. Available from: http://floradobrasil.jbrj.gov.br/jabot/floradobrasil/FB167 (accessed 17 June 2020).
  • Ronquist, F. & Huelsenbeck, J.P. (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572- 1574. https://doi.org/10.1093/bioinformatics/btg180
  • Santos, A. (2016) Filogenia e Biogeografia de Naucleopsis Miq. (Moraceae). PhD thesis, Sao Paulo: Instituto de Botanica da Secretaria de Estado do Meio Ambiente, 235 pp.
  • Sharma, K., Mishra, A.K. & Misra, R.S. (2008) A simple and efficient method for extraction of genomic DNA from tropical tuber crops. African Journal of Biotechnology 7: 1018-1022. https://doi.org/10.5897/AJB07.637
  • Swofford, D.L. (2002) PAUP*: Phylogenetic analysis using parsimony (*and other methods), version 4.0b10. Sunderland, Massachussetts, Sinauer.
  • Sytsma, KJ., Morawetz, J., Pires, J.C., Nepokroeff, M., Conti, E., Zjhra, M., Hall, J.C. & Chase, M.W. (2002) Urticalean rosids: circumcription, rosid ancestry and phylogenetcs based on rbc L, trn L-F and ndh F sequences. American Journal of Botany 89: 1531- 1546. https://doi.org/10.3732/ajb.89.9.1531
  • Taberlet, P., Gielly, L., Pautou, G. & Bouvet, J. (1991) Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology 17: 1105-1109 https://doi.org/10.1007/BF00037152
  • Trecul, M.A. (1847) Memoire sur la famille des Artocarpees. Annales des sciences naturelles. Botanique 3: 38-157.
  • White, T.J., Bruns, T., Lee, S.J.W.T. & Taylor, J.L. (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: PCR protocols: a guide to methods and applications. Academic Press, UEA, pp. 315-322. https://doi.org/10.1016/b978-0-12-372180-8.50042-1
  • Yao, X., Li, C. & Dick, C.W. (2013) Exon-primed intron-crossing (EPIC) markers for evolutionary studies of Ficus and other taxa in the fig family (Moraceae). Applications in Plant Sciences 1: 1-4. https://doi.org/10.3732/apps.1300037
  • Zerega, N.J.C., Clement, W.L., Datwyler, S.L. & Weiblen, G.D. (2005) Biogeography and divergence times in the mulberry family (Moraceae). Molecular Phylogenetics and Evolution 37: 402-416. https://doi.org/10.1016/j.ympev.2005.07.004
  • Zerega, N.J.C., Supardi, M.N.N. & Motley, T.J. (2010) Phylogeny and recircumscription of Artocarpeae (Moraceae) with a focus on Artocarpus. Systematic Botany 35: 766-782. https://doi.org/10.1600/036364410X539853
  • Zerega, N.J.C. & Gardner, E.M. (2019) Delimitation of the new tribe Parartocarpeae (Moraceae) is supported by a 333-gene phylogeny and resolves tribal level Moraceae taxonomy. Phytotaxa 388: 253-265. https://doi.org/10.11646/phytotaxa.388.4.1