Morphological, phytochemical and molecular analyses define species limits in Eucalyptus magnificata (Myrtaceae) and lead to the discovery of a new rare species
Timothy L. Collins A B , Rose L. Andrew A and Jeremy J. Bruhl AA School of Environmental and Rural Science, University of New England, Trevenna Road, Armidale, NSW 2351, Australia.
B Corresponding author. Email: tcollins@myune.edu.au
Australian Systematic Botany 32(1) 12-28 https://doi.org/10.1071/SB18037
Submitted: 5 June 2018 Accepted: 24 November 2018 Published: 25 February 2019
Abstract
Abstract. Eucalyptus magnificata L.A.S.Johnson & K.D.Hill is an endangered species endemic to the New England Tablelands Bioregion of eastern Australia, with taxonomic conflict regarding its recognition. Analyses of morphology, phytochemistry and genomic DNA were used to test species limits of E. magnificata. Morphometric and phytochemical phenetic analyses found distinct differences among E. magnificata, E. baueriana and a putative entity recognised during field collection, i.e. E. sp. Dalveen. Another putative entity, E. sp. Oxley, was morphologically and phytochemically intermediate between E. magnificata and E. conica. Phenetic analysis of single-nucleotide polymorphism (SNP) data supported the results from morphological and phytochemical analyses. The original circumscription of E. magnificata, as distinct from E. baueriana, was strongly corroborated. Eucalyptus magnificata was found to be restricted in distribution to the Macleay Gorges area south-east of Armidale. Multiple lines of evidence provided strong support for the recognition of E. sp. Dalveen as a separately evolving entity at a species level, here described as Eucalyptus dalveenica T.L.Collins, R.L.Andrew & J.J.Bruhl. A full description of the new species, a table distinguishing E. dalveenica from closely related taxa, and an identification key are provided. Distribution, habitat and conservation status are discussed.
References
Adams RP (Ed.) (2007) ‘Identification of Essential Oil Components by Gas Chromatography/Mass Spectrometry.’ (Allured Publishing Corporation: Carol Stream, IL, USA)Ahmad VU, Farooqui TA, Fizza K (1992) Three new eudesmane sesquiterpenes from Pluchea arguta. Journal of Natural Products 55, 730–735.
| Three new eudesmane sesquiterpenes from Pluchea arguta.Crossref | GoogleScholarGoogle Scholar |
Andrew RL, Keszei A, Foley WJ (2013) Intensive sampling identifies previously unknown chemotypes, population divergence and biosynthetic connections among terpenoids in Eucalyptus tricarpa. Phytochemistry 94, 148–158.
| Intensive sampling identifies previously unknown chemotypes, population divergence and biosynthetic connections among terpenoids in Eucalyptus tricarpa.Crossref | GoogleScholarGoogle Scholar | 23769022PubMed |
Ashton DH, Sandiford EM (1988) Natural hybridisation between Eucalyptus regnans F.Muell. and E. macrorhyncha F.Muell. in the Cathedral Range, Victoria. Australian Journal of Botany 36, 1–22.
| Natural hybridisation between Eucalyptus regnans F.Muell. and E. macrorhyncha F.Muell. in the Cathedral Range, Victoria.Crossref | GoogleScholarGoogle Scholar |
Atchley WR, Gaskins CT, Anderson D (1976) Statistical properties of ratios. I. Empirical results. Systematic Zoology 25, 137–148.
| Statistical properties of ratios. I. Empirical results.Crossref | GoogleScholarGoogle Scholar |
Belbin L (1993) ‘PATN: Pattern Analysis Package.’ (CSIRO Division of Wildlife and Ecology: Canberra, ACT, Australia)
Bignell CM, Dunlop PJ, Brophy JJ, Jackson JF (1997) Volatile leaf oils of some Queensland and northern Australian species of the genus Eucalyptus. (Series II). Part I. Subgenus Symphyomyrtus, section Adnataria: (a) series Oliganthae, (b) series Ochrophloiae, (c) series Moluccanae, (d) series Polyanthemae, (e) series Paniculatae, (f) series Melliodorae and (g) series Porantheroideae. Flavour and Fragrance Journal 12, 19–27.
| Volatile leaf oils of some Queensland and northern Australian species of the genus Eucalyptus. (Series II). Part I. Subgenus Symphyomyrtus, section Adnataria: (a) series Oliganthae, (b) series Ochrophloiae, (c) series Moluccanae, (d) series Polyanthemae, (e) series Paniculatae, (f) series Melliodorae and (g) series Porantheroideae.Crossref | GoogleScholarGoogle Scholar |
Boland DJ, Brophy JJ, House APN (1991) ‘Eucalyptus Leaf Oils: Use, Chemistry, Distillation and Marketing.’ (Inkata Press: Canberra, ACT, Australia)
Bostock PD, Holland AE (Eds) (2016) Census of the Queensland flora 2016. (Queensland Department of Science, Information Technology and Innovation: Brisbane, Qld, Australia). Available at https://data.qld.gov.au/dataset/census-of-the-queensland-flora-2016 [Verified 16 November 2016].
Brooker MIH (2000) A new classification of the genus Eucalyptus L’Her. (Myrtaceae). Australian Systematic Botany 13, 79–148.
| A new classification of the genus Eucalyptus L’Her. (Myrtaceae).Crossref | GoogleScholarGoogle Scholar |
Brooker MIH, Kleinig D (1999) ‘Field guide to eucalypts, vol. 1’, 2nd edn. (Blooming Books: Melbourne, Vic., Australia)
Brooker MIH, Kleinig D (2004) ‘Field guide to eucalypts, vol. 3’, 2nd edn. (Bloomings Books: Melbourne, Vic., Australia)
Brophy JJ, Forster PI, Goldsack RJ, Hibbert DB, Punruckvong A (2009) Essential oil variation in Eucalyptus crebra, E. melanophloia (Myrtaceae) and their hybrids. Australian Journal of Botany 57, 425–431.
| Essential oil variation in Eucalyptus crebra, E. melanophloia (Myrtaceae) and their hybrids.Crossref | GoogleScholarGoogle Scholar |
Butcher PA, Skinner AK, Gardiner CA (2005) Increased inbreeding and inter-species gene flow in remnant populations of the rare Eucalyptus benthamii. Conservation Genetics 6, 213–226.
| Increased inbreeding and inter-species gene flow in remnant populations of the rare Eucalyptus benthamii.Crossref | GoogleScholarGoogle Scholar |
Chappill J, Ladiges P, Boland D (1986) Eucalyptus aromaphloia Pryor & Willis: a redefinition of geographical and morphological boundaries. Australian Journal of Botany 34, 395–412.
| Eucalyptus aromaphloia Pryor & Willis: a redefinition of geographical and morphological boundaries.Crossref | GoogleScholarGoogle Scholar |
Collins TL, Andrew RL, Bruhl JJ (2017) New England North West Biodiversity Alliance, SoS Action 2016/2017 Eucalyptus magnificata project. Report written for the Local land Services and Office of Environment and Heritage, Armidale, NSW, Australia.
Collins TL, Andrew RL, Greatrex BW, Bruhl JJ (2018) Reliable analysis of volatile compounds from small samples of Eucalyptus magnificata (Myrtaceae). Australian Systematic Botany 31, 232–240.
| Reliable analysis of volatile compounds from small samples of Eucalyptus magnificata (Myrtaceae).Crossref | GoogleScholarGoogle Scholar |
Cornwell CP, Reddy N, Leach DN, Wyllie SG (2000) Hydrolysis of hedycaryol: the origin of the eudesmols in the Myrtaceae. Flavour and Fragrance Journal 15, 421–431.
| Hydrolysis of hedycaryol: the origin of the eudesmols in the Myrtaceae.Crossref | GoogleScholarGoogle Scholar |
De Queiroz K (2007) Species concepts and species delimitation. Systematic Biology 56, 879–886.
| Species concepts and species delimitation.Crossref | GoogleScholarGoogle Scholar | 18027281PubMed |
Delaporte KL, Conran JG, Sedgley M (2001) Interspecific hybridization within Eucalyptus (Myrtaceae): subgenus Symphyomyrtus, sections Bisectae and Adnataria. International Journal of Plant Sciences 162, 1317–1326.
| Interspecific hybridization within Eucalyptus (Myrtaceae): subgenus Symphyomyrtus, sections Bisectae and Adnataria.Crossref | GoogleScholarGoogle Scholar |
DePristo MA, Banks E, Poplin R, Garimella KV, Maguire JR, Hartl C, Philippakis AA, del Angel G, Rivas MA, Hanna M, McKenna A, Fennell TJ, Kernytsky AM, Sivachenko AY, Cibulskis K, Gabriel SB, Altshuler D, Daly MJ (2011) A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nature Genetics 43, 491–498.
| A framework for variation discovery and genotyping using next-generation DNA sequencing data.Crossref | GoogleScholarGoogle Scholar | 21478889PubMed |
Deschamps S, Llaca V, May GD (2012) Genotyping-by-sequencing in plants. Biology (Basel) 1, 460–483.
| Genotyping-by-sequencing in plants.Crossref | GoogleScholarGoogle Scholar | 24832503PubMed |
Earl DA, vonHoldt BM (2012) STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genetics Resources 4, 359–361.
| STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method.Crossref | GoogleScholarGoogle Scholar |
Eco Logical Australia (2014) The vegetation and plant species of Oxley Wild Rivers National Park and State Conservation Area. Prepared for the Northern Tablelands Region of the NPWS, NSW Office of Environment and Heritage. Eco Logical Australia, Coffs Harbour, NSW, Australia
Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, Buckler ES, Mitchell SE (2011) A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One 6, e19379
| A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species.Crossref | GoogleScholarGoogle Scholar | 21573248PubMed |
Faith DP, Minchin PR, Belbin L (1987) Compositional dissimilarity as a robust measure of ecological distance. Vegetatio 69, 57–68.
| Compositional dissimilarity as a robust measure of ecological distance.Crossref | GoogleScholarGoogle Scholar |
Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164, 1567–1587.
Field DL, Ayre DJ, Whelan RJ, Young AG (2008) Relative frequency of sympatric species influences rates of interspecific hybridization, seed production and seedling performance in the uncommon Eucalyptus aggregata. Journal of Ecology 96, 1198–1210.
| Relative frequency of sympatric species influences rates of interspecific hybridization, seed production and seedling performance in the uncommon Eucalyptus aggregata.Crossref | GoogleScholarGoogle Scholar |
Field DL, Ayre DJ, Whelan RJ, Young AG (2009) Molecular and morphological evidence of natural interspecific hybridization between the uncommon Eucalyptus aggregata and the widespread E. rubida and E. viminalis. Conservation Genetics 10, 881–896.
| Molecular and morphological evidence of natural interspecific hybridization between the uncommon Eucalyptus aggregata and the widespread E. rubida and E. viminalis.Crossref | GoogleScholarGoogle Scholar |
Gower JC (1971) A general coefficient of similarity and some of its properties. Biometrics 27, 857–871.
| A general coefficient of similarity and some of its properties.Crossref | GoogleScholarGoogle Scholar |
Grayling PM, Brooker MIH (1996) Evidence for the identity of the hybrid, Eucalyptus brachyphylla (Myrtaceae) from morphology and essential-oil composition. Australian Journal of Botany 44, 1–13.
| Evidence for the identity of the hybrid, Eucalyptus brachyphylla (Myrtaceae) from morphology and essential-oil composition.Crossref | GoogleScholarGoogle Scholar |
Griffin A, Burgess I, Wolf L (1988) Patterns of natural and manipulated hybridisation in the genus Eucalyptus L’herit. A review. Australian Journal of Botany 36, 41–66.
| Patterns of natural and manipulated hybridisation in the genus Eucalyptus L’herit. A review.Crossref | GoogleScholarGoogle Scholar |
Harden GJ (1991) ‘Flora of New South Wales.’ (NSW University Press: Sydney, NSW, Australia)
Herten K, Hestand MS, Vermeesch JR, Van Houdt JKJ (2015) GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments. BMC Bioinformatics 16, 73
| GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments.Crossref | GoogleScholarGoogle Scholar | 25887893PubMed |
Hills M (1978) On ratios: a response to Atchley, Gaskins, and Anderson. Systematic Zoology 27, 61–62.
| On ratios: a response to Atchley, Gaskins, and Anderson.Crossref | GoogleScholarGoogle Scholar |
Holman JE, Hughes JM, Fensham RJ (2003) A morphological cline in Eucalyptus: a genetic perspective. Molecular Ecology 12, 3013–3025.
| A morphological cline in Eucalyptus: a genetic perspective.Crossref | GoogleScholarGoogle Scholar | 14629382PubMed |
Holman JE, Hughes JM, Fensham RJ (2011) Origins of a morphological cline between Eucalyptus melanophloia and Eucalyptus whitei. Australian Journal of Botany 59, 244–252.
| Origins of a morphological cline between Eucalyptus melanophloia and Eucalyptus whitei.Crossref | GoogleScholarGoogle Scholar |
Hopper S, Coates D, Burbidge A (1978) Natural hybridization and morphometric relationships between three mallee eucalypts in the Fitzgerald River National Park, WA. Australian Journal of Botany 26, 319–333.
| Natural hybridization and morphometric relationships between three mallee eucalypts in the Fitzgerald River National Park, WA.Crossref | GoogleScholarGoogle Scholar |
Johnson LAS, Hill KD (1990) New taxa and combinations in Eucalyptus and Angophora (Myrtaceae). Telopea 4, 37–108.
| New taxa and combinations in Eucalyptus and Angophora (Myrtaceae).Crossref | GoogleScholarGoogle Scholar |
Jombart T, Ahmed I (2011) adegenet 1.3-1: new tools for the analysis of genome-wide SNP data. Bioinformatics 27, 3070–3071.
| adegenet 1.3-1: new tools for the analysis of genome-wide SNP data.Crossref | GoogleScholarGoogle Scholar | 21926124PubMed |
Kopelman NM, Mayzel J, Jakobsson M, Rosenberg NA, Mayrose I (2015) Clumpak: a program for identifying clustering modes and packaging population structure inferences across K. Molecular Ecology Resources 15, 1179–1191.
| Clumpak: a program for identifying clustering modes and packaging population structure inferences across K.Crossref | GoogleScholarGoogle Scholar | 25684545PubMed |
Kumar S, Banks TW, Cloutier S (2012) SNP discovery through next-generation sequencing and its applications. International Journal of Plant Genomics 2012, 831460
| SNP discovery through next-generation sequencing and its applications.Crossref | GoogleScholarGoogle Scholar | 23304121PubMed |
Lawson DJ, van Dorp L, Falush D (2018) A tutorial on how not to over-interpret STRUCTURE and ADMIXTURE bar plots. Nature Communications 9, 3258
| A tutorial on how not to over-interpret STRUCTURE and ADMIXTURE bar plots.Crossref | GoogleScholarGoogle Scholar | 30108219PubMed |
Li H, Durbin R (2009) Fast and accurate short read alignment with Burrows–Wheeler transform. Bioinformatics 25, 1754–1760.
| Fast and accurate short read alignment with Burrows–Wheeler transform.Crossref | GoogleScholarGoogle Scholar | 19451168PubMed |
Lowe RF, Russell MF, Southwell IA, Robinson CJ, Day J (2007) Composition of an essential oil from Agonis fragrans J.R.Wheeler & N.G.Marchant. The Journal of Essential Oil Research 19, 342–344.
| Composition of an essential oil from Agonis fragrans J.R.Wheeler & N.G.Marchant.Crossref | GoogleScholarGoogle Scholar |
Marginson J, Ladiges P (1988) Geographical variation in Eucalyptus baxteri s.l. and the recognition of a new species, E. arenacea. Australian Systematic Botany 1, 151–170.
| Geographical variation in Eucalyptus baxteri s.l. and the recognition of a new species, E. arenacea.Crossref | GoogleScholarGoogle Scholar |
Moore B, Wallis I, Palá-Paúl J, Brophy J, Willis R, Foley W (2004) Antiherbivore chemistry of Eucalyptus: cues and deterrents for marsupial folivores. Journal of Chemical Ecology 30, 1743–1769.
| Antiherbivore chemistry of Eucalyptus: cues and deterrents for marsupial folivores.Crossref | GoogleScholarGoogle Scholar | 15586672PubMed |
Myburg AA, Grattapaglia D, Tuskan GA, Hellsten U, Hayes RD, Grimwood J, Jenkins J, Lindquist E, Tice H, Bauer D, Goodstein DM, Dubchak I, Poliakov A, Mizrachi E, Kullan ARK, Hussey SG, Pinard D, van der Merwe K, Singh P, van Jaarsveld I, Silva-Junior OB, Togawa RC, Pappas MR, Faria DA, Sansaloni CP, Petroli CD, Yang X, Ranjan P, Tschaplinski TJ, Ye C, Li T, Sterck L, Vanneste K, Murat F, Soler M, San Clemente H, Saidi N, Cassan-Wang H, Dunand C, Hefer CA, Bornberg-Bauer E, Kersting AR, Vining K, Amarasinghe V, Ranik M, Naithani S, Elser J, Boyd AE, Liston A, Spatafora JW, Dharmwardhana P, Raja R, Sullivan C, Romanel E, Alves-Ferreira M, Kulheim C, Foley WJ, Carocha V, Paiva J, Kudrna D, Brommonschenkel SH, Pasquali G, Byrne M, Rigault P, Tibbits J, Spokevicius A, Jones RC, Steane DA, Vaillancourt RE, Potts BM, Joubert F, Barry K, Pappas GJ, Strauss SH, Jaiswal P, Grima-Pettenati J, Salse J, Van de Peer Y, Rokhsar DS, Schmutz J (2014) The genome of Eucalyptus grandis. Nature 510, 356–362.
| The genome of Eucalyptus grandis.Crossref | GoogleScholarGoogle Scholar | 24919147PubMed |
Newnham M, Ladiges P, Whiffin T (1986) Origin of the Grampians shining peppermint: a new subspecies of Eucalyptus willisii Ladiges, Humphries & Brooker. Australian Journal of Botany 34, 331–348.
| Origin of the Grampians shining peppermint: a new subspecies of Eucalyptus willisii Ladiges, Humphries & Brooker.Crossref | GoogleScholarGoogle Scholar |
Nicolle D (2015) Classification of the eucalypts (Angophora, Corymbia and Eucalyptus) Version 2. Available at http://www.dn.com.au/Classification-Of-The-Eucalypts.pdf [Verified 16 January 2019].
Nicolle D, French ME (2012) Two new mallee box species (Eucalyptus sect. Adnataria ser. Lucasianae; Myrtaceae) from the Pilbara region of western Australia. Nuytsia 22, 17–30.
NSW Office of Environment and Heritage (2011) New England Tableland Bioregion. Available at http://www.environment.nsw.gov.au/bioregions/NewEnglandTablelandBioregion.htm [Verified 16 January 2019]
Penfold AR, Morrison FR (1937) The occurrence of a number of varieties of Eucalyptus radiata (E. numerosa) as determined by chemical analyses of the essential oils. Part II. Journal of the Royal Society of New South Wales 20, 375–377.
Penfold AR, Willis JL (1953) Physiological forms of Eucalyptus citriodora Hooker. Nature 171, 883–884.
| Physiological forms of Eucalyptus citriodora Hooker.Crossref | GoogleScholarGoogle Scholar | 13054763PubMed |
Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155, 945–959.
Pritchard, JK, Wen, X, Falush, D (2010) Documentation for structure software: version 2.3. (University of Chicago: Chicago, IL, USA) Available at https://web.stanford.edu/group/pritchardlab/structure_software/release_versions/v2.3.4/structure_doc.pdf [Verified 12 February 2019]
Pryor LD (1953) Genetic control in Eucalyptus distribution. Proceedings of the Linnean Society of New South Wales 78, 8–18.
Pryor LD, Johnson LAS (1971) ‘A Classification of the Eucalypts.’ (Australian National University Press: Canberra, ACT, Australia)
Rohland N, Reich D (2012) Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture. Genome Research 22, 939–946.
| Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture.Crossref | GoogleScholarGoogle Scholar | 22267522PubMed |
Rule K (2011) Six new infraspecific taxa in Eucalyptus (Myrtaceae) for Victoria. Muelleria 29, 3–15.
Southwell IA, Stiff IA (1989) Ontogenetical changes in monoterpenoids of Melaleuca alternifolia leaf. Phytochemistry 28, 1047–1051.
| Ontogenetical changes in monoterpenoids of Melaleuca alternifolia leaf.Crossref | GoogleScholarGoogle Scholar |
Steane DA, Potts BM, McLean E, Collins L, Prober SM, Stock WD, Vaillancourt RE, Byrne M (2015) Genome-wide scans reveal cryptic population structure in a dry-adapted eucalypt. Tree Genetics & Genomes 11, 33
| Genome-wide scans reveal cryptic population structure in a dry-adapted eucalypt.Crossref | GoogleScholarGoogle Scholar |
Stimpson ML, Weston PH, Whalley RDB, Bruhl JJ (2016) A morphometric analysis of the Banksia spinulosa complex (Proteaceae) and its complex taxonomic implications. Australian Systematic Botany 29, 55–86.
| A morphometric analysis of the Banksia spinulosa complex (Proteaceae) and its complex taxonomic implications.Crossref | GoogleScholarGoogle Scholar |
Watson R, Ladiges PY, Griffin AR (1987) Variation in Eucalyptus cypellocarpa L.Johnson, and a new taxon from the Grampian Ranges and Anglesea, Victoria. Brunonia 10, 159–176.
| Variation in Eucalyptus cypellocarpa L.Johnson, and a new taxon from the Grampian Ranges and Anglesea, Victoria.Crossref | GoogleScholarGoogle Scholar |
Whiffin T, Bouchier A (1992) Chemical and morphological variation within a population of Eucalyptus radiata (Myrtaceae) exhibiting leaf volatile oil chemical forms. Australian Systematic Botany 5, 95–107.
| Chemical and morphological variation within a population of Eucalyptus radiata (Myrtaceae) exhibiting leaf volatile oil chemical forms.Crossref | GoogleScholarGoogle Scholar |
Wright S (1965) The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 19, 395–420.
| The interpretation of population structure by F-statistics with special regard to systems of mating.Crossref | GoogleScholarGoogle Scholar |