A preliminary molecular phylogeny of the genus Riccia L. (Ricciaceae) in Australia
D. Christine Cargill A B D , Will C. Neal C , Ish Sharma B and Cécile Gueidan B
+ Author Affiliations
- Author Affiliations
A Australian National Botanic Gardens, GPO Box 1777, Canberra, ACT 2601, Australia.
B Australian National Herbarium, CSIRO-NRMI, GPO Box 1700, Canberra, ACT 2601, Australia.
C University of Melbourne, School of BioSciences, Parkville Campus, Vic. 3010, Australia.
D Corresponding author. Email: chris.cargill@environment.gov.au
Australian Systematic Botany 29(3) 197-217 https://doi.org/10.1071/SB16018
Submitted: 15 April 2016 Accepted: 30 August 2016 Published: 29 November 2016
Abstract
Several Australian Riccia taxa have been sequenced for the first time, with the majority from the monsoon tropics of the Northern Territory, north of 18° latitude. This allowed testing of several infrageneric groupings within the genus as well as morphological species concepts. Molecular data from one nuclear and four plastid markers support the genus as a monophyletic group. However, the monophyly of the two largest subgenera, subgenus Riccia and subgenus Ricciella, are not supported, with the latter being polyphyletic and well nested within subgenus Riccia. Several currently accepted species such as Riccia inflexa and Riccia lamellosa were also found to be polyphyletic. A second tree reconstruction using only trnL–F sequences allowed comparison to several taxa collected outside of Australia. This showed that some species have a truly cosmopolitan distribution, whereas others have not.
References
Boulay NJ (1904) ‘Muscinées de la France, deuxième partie, Hépatiques.’ (Klincksieck: Paris)Braun A (1821) Bemerkungen über einige Lebermoose. Flora 4, 754–757.
Cargill DC, Vella NGF, Sharma I, Miller JT (2013) Cryptic speciation and species diversity among Australian and New Zealand hornwort taxa of Megaceros Campb. (Dendrocerotaceae). Australian Systematic Botany 26, 356–377.
| Cryptic speciation and species diversity among Australian and New Zealand hornwort taxa of Megaceros Campb. (Dendrocerotaceae).Crossref | GoogleScholarGoogle Scholar |
Cox CJ, Goffinet B, Newton AE, Shaw AJ, Hedderson TAJ (2000) Phylogenetic relationships among the diplolepideous-alternate mosses (Bryidae) inferred from nuclear and chloroplast DNA sequences. The Bryologist 103, 224–241.
| Phylogenetic relationships among the diplolepideous-alternate mosses (Bryidae) inferred from nuclear and chloroplast DNA sequences.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3cXksFShsL8%3D&md5=0d9a7ef86704985baf0369756c434bfdCAS |
Darriba D, Taboada GL, Doallo R, Posada D (2012) jModelTest 2: more models, new heuristics and parallel computing. Nature Methods 9, 772
| jModelTest 2: more models, new heuristics and parallel computing.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC38XhtFWmsbfP&md5=05295880fd404aca6e6c641989659034CAS |
Duff RJ, Cargill DC, Villarreal JC, Renzaglia KS (2004) Phylogenetic relationships of the hornworts based on rbcL sequence data: novel relationships and new insights. In ‘Molecular Systematics of Bryophytes’. (Eds B Goffinet, V Howell, R Magill) pp. 66–86. (Missouri Botanical Garden Press: St Louis, MO, USA)
Duthie AV, Garside S (1936) Studies in South African Ricciaceae. Transactions of the Royal Society of South Africa 24, 93–133.
Forrest LL, Crandall-Stotler BJ (2004) A phylogeny of the simple thalloid liverworts (Jungermanniospida, Metzgeriidae) as inferred from five plastid genes. In ‘Molecular Systematics of Bryophytes’. (Eds B Goffinet, V Howell, R Magill) pp. 119–140. (Missouri Botanical Garden Press: MO, USA)
Forrest LL, Davis EC, Long DG, Crandall-Stotler BJ, Clark A, Hollingsworth ML (2006) Unravelling the evolutionary history of the liverworts (Marchantiophyta): multiple taxa, genome and analyses. The Bryologist 109, 303–334.
| Unravelling the evolutionary history of the liverworts (Marchantiophyta): multiple taxa, genome and analyses.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD28XhtVWksLvL&md5=1bac252b144f345a5cb5c086a891f5a4CAS |
Guindon S, Gascuel O (2003) A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood. Systematic Biology 52, 696–704.
| A simple, fast and accurate method to estimate large phylogenies by maximum-likelihood.Crossref | GoogleScholarGoogle Scholar |
Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41, 95–98.
Hässel de Menéndez GG, Rubies MF (2009) Catalogue of Marchantiophyta and Anthocerotophyta of southern South America. Nova Hedwigia 134, 1–672.
Jovet-Ast S (1973) Complément à l’étude du Riccia crustata Trabut. Présence en Australia. Spores et paroi sporale. Revue Bryologique et Lichenologique 39, 167–174.
Jovet-Ast S (1976) Precisions sur les caracteres de deux Riccia du sous-genre Thallocarpus. Revue Bryologique et Lichénologique 41, 449–456.
Jovet-Ast S (1984) Riccia (subg. Viridisquamata) caroliniana Na-Thalang, espèce endémique rélituelle d’Australie. Cryptogamie. Bryologie, Lichenologie 5, 389–402.
Jovet-Ast S (1986) Les Riccia de la région Méditerranéenne. Cryptogamie, Bryologie et Lichénologie 7, 287–431.
Jovet-Ast S (1991) Riccia (Hépatiques, Marchantiales) d’Amérique Latine taxons du sous-genre Riccia. Cryptogamie. Bryologie, Lichenologie 12, 189–370.
Jovet-Ast S (1996) Riccia triseriata subg. nov. et R. singularis sp. nov., taxons nouveaux d’Australie. Cryptogamie. Bryologie, Lichenologie 17, 127–133.
Jovet-Ast S (1997) Un Riccia prolifère d’Australie: Riccia pullulans sp. nov. (sous-genre Ricciella). Cryptogamie. Bryologie, Lichenologie 18, 183–189.
Jovet-Ast S (2000) Documents pour la connaissance des Riccia australiens (Hépatiques, Marchantiales) ouvelles récoltes. Taxons nouveaux. Commentaires morphologiques et écologiques. Cryptogamie Bryologie 21, 289–343.
| Documents pour la connaissance des Riccia australiens (Hépatiques, Marchantiales) ouvelles récoltes. Taxons nouveaux. Commentaires morphologiques et écologiques.Crossref | GoogleScholarGoogle Scholar |
Jovet-Ast S (2005) Riccia. In ‘Marchantiidae Flora Neotropica’, Monograph 97. (The New York Botanical Garden: Bronx, NY, USA)
Lutzoni F, Wagner P, Reeb V, Zoller S (2000) Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology. Systematic Biology 49, 628–651.
| Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology.Crossref | GoogleScholarGoogle Scholar | 1:STN:280:DC%2BD38zntVOjtg%3D%3D&md5=215c530ef11ec520261fcf0c16e05c86CAS |
Mason-Gamer RJ, Kellogg EA (1996) Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae). Systematic Biology 45, 524–545.
| Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae).Crossref | GoogleScholarGoogle Scholar |
Miller MA, Pfeiffer W, Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. In ‘Proceedings of the Gateway Computing Environments Workshop (GCE)’, 14 November 2010, New Orleans, LA, USA. pp. 1–8. (CIPRES) Available at http://www.phylo.org/sub_sections/portal/sc2010_paper.pdf [Verified 18 October 2016]
Na-Thalang O (1980) A revision of the genus Riccia (Hepaticae) in Australia. Brunonia 3, 61–140.
| A revision of the genus Riccia (Hepaticae) in Australia.Crossref | GoogleScholarGoogle Scholar |
Nadot S, Bajon R, Lejeune B (1994) The chloroplast gene rps4 as a tool for the study of Poaceae phylogeny. Plant Systematics and Evolution 191, 27–38.
| The chloroplast gene rps4 as a tool for the study of Poaceae phylogeny.Crossref | GoogleScholarGoogle Scholar |
Perold SM (1995) The taxonomic history of the Ricciaceae (1937–1995) and a classification of sub-Saharan Ricciae. Bothalia 25, 211–231.
| The taxonomic history of the Ricciaceae (1937–1995) and a classification of sub-Saharan Ricciae.Crossref | GoogleScholarGoogle Scholar |
Perold SM (1999) Hepatophyta. Part 1: Marchantiopsida. Fascicle 1: Marchantiidae. In ‘Flora of Southern Africa’. (Ed. OA Leistner) pp. 111–240. (National Botanical Institute: Pretoria, South Africa)
Ray J (1696) Genus Secundum. In ‘Synopsis methodica stirpium britannicarum’, edn 2. p. 41. (Smith & Walford: London, UK)
Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19, 1572–1574.
| MrBayes 3: Bayesian phylogenetic inference under mixed models.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3sXntlKms7k%3D&md5=ebb7f79ca3abc332a555ac1fa9492884CAS |
Schuster RM (1984) Diagnoses of some new taxa of hepaticae. Phytologia 56, 65–74.
Schuster RM (1992a) Studies on Marchantiales, I-III. The Journal of the Hattori Botanical Laboratory 71, 267–287.
Schuster RM (1992b) ‘The Hepaticae and Anthocerotae of North America, East of the Hundredth Meridian. Vol 6.’ (Field Museum of Natural History: Chicago, IL, USA)
Seppelt R (1983) The status of Riccia areolata and R. longiciliata, two recently described species. Studies on Riccia in Australia 1. Lindbergia 9, 117–120.
Seppelt R (1998) The genus Riccia (Marchantiales: Ricciaceae), in South Australia. Hikobia 13, 317–341.
Seppelt R (1999) The genus Riccia (Marchantiales: Ricciaceae), in South Australia: nomenclatural corrections and additional notes. Hikobia 12, 77
Shaw AJ (2000) Molecular phylogeography and cryptic speciation in the mosses, Mielichhoferia elongata and M. mielichhoferiana (Bryaceae). Molecular Ecology 9, 595–608.
| Molecular phylogeography and cryptic speciation in the mosses, Mielichhoferia elongata and M. mielichhoferiana (Bryaceae).Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3cXjsFCqu7k%3D&md5=0e280f1367f09e921322343ae41a3ca0CAS |
Sim TR (1926) ‘The Bryophyta of South Africa.’ (Transactions of the Royal Society of South Africa: Capetown, South Africa).
Singh SK (2014) An appraisal of genus Riccia in India with a note on diversity and distribution of species. International Journal of Sustainable Water and Environmental Systems 6, 35–43.
Stamatakis A, Ludwig T, Meier H (2005) RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics 21, 456–463.
| RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2MXhsFSgu7s%3D&md5=63b918f7fa798b769043365a537011e5CAS |
Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web-servers. Systematic Biology 57, 758–771.
| A rapid bootstrap algorithm for the RAxML web-servers.Crossref | GoogleScholarGoogle Scholar |
Stech M (1999) Molekulare Systematik haplolepider Laubmoose (Dicrananae, Bryopsida). PhD Dissertation, Freie Universität, Berlin, Germany.
Stephani F (1900) ‘Species hepaticarum. Vol. 1.’ (Georg and Cie: Geneva, Switzerland)
Stephani F (1917) ‘Species hepaticarum. Vol. 5.’ (Georg and Cie: Geneva, Switzerland)
Taberlet P, Gielley L, Pautou G, Bouvet J (1991) Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology 17, 1105–1109.
| Universal primers for amplification of three non-coding regions of chloroplast DNA.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaK38Xhslel&md5=6d2f79284cf4d62f47d3c274de5bebcfCAS |
Vanderpoorten A, Goffinet B, Quandt D (2006) Chapter 10. Utility of the internal transcribed spacers of the 18S–5.8S–26S nuclear ribosomal DNA in land plant systematics with special emphasis on bryophytes. In ‘Plant Genome: Biodiversity & Evolution. Volume 2B: Lower Plants’. (Eds AK Sharma, A Sharma) pp. 385–407. (Science Publishers: Enfield, NH)
Volk OH, Perold SM (1986a) Studies in the genus Riccia (Marchantiales) from southern Africa. 3. R. schelpei, a new species, in the new subgenus Chartacea. Bothalia 16, 29–33.
Volk OH, Perold SM (1986b) Studies in the genus Riccia (Marchantiales) from southern Africa. 6. R. hirsuta, a new species, in a new section. Bothalia 16, 187–191.
Volk OH, Perold SM (1990) Studies in the genus Riccia (Marchantiales) from southern Africa. 15. R. hirsuta and R. tomentosa, sp. nov., two distinct species previously treated as one. Bothalia 20, 23–29.
| Studies in the genus Riccia (Marchantiales) from southern Africa. 15. R. hirsuta and R. tomentosa, sp. nov., two distinct species previously treated as one.Crossref | GoogleScholarGoogle Scholar |
Wheeler J (1998) Molecular phylogenetic analyses of Riccia and Marchantiales. PhD Dissertation, Oregon State University, Corvallis, OR.
Wheeler J (2000) Molecular phylogenetic reconstructions of the Marchantioid liverwort radiation. The Bryologist 103, 314–333.
| Molecular phylogenetic reconstructions of the Marchantioid liverwort radiation.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3cXksFShsLs%3D&md5=ca32ba22eca2fc1abd8c47717165e5f2CAS |
