Assessing genetic structure in a rare clonal eucalypt as a basis for augmentation and introduction translocations
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  • 作者:Jane F. Sampson ; Margaret Byrne
  • 关键词:Re ; vegetation ; Conservation ; Clonal diversity ; Genetic diversity ; Seed source ; Fragmentation
  • 刊名:Conservation Genetics
  • 出版年:2016
  • 出版时间:April 2016
  • 年:2016
  • 卷:17
  • 期:2
  • 页码:293-304
  • 全文大小:679 KB
  • 参考文献:Arnaud-Haond S, Belkhir K (2007) Genclone 1.0: a new program to analyse genetics data on clonal organisms. Mol Ecol Notes 7:15–17CrossRef
    Arnaud-Haond S, Duarte CM, Alberto F, Serrão EA (2007) Standardizing methods to address clonality in population studies. Mol Ecol 16:5115–5139CrossRef PubMed
    Bradbury D, Grayling PM, Macdonald B, Hankinson M, Byrne M (2015) Clonality, interspecific hybridisation and inbreeding in a rare mallee eucalypt, Eucalyptus absita (Myrtaceae), and implications for conservation. Conserv Genet (in press)
    Breed MF, Steed MG, Otewell KM, Gardner MG, Lowe AJ (2013) Which provenance and where? Seed sourcing strategies for revegetation in a changing environment. Conserv Genet 14:1–10CrossRef
    Broadhurst LM (2011) Genetic diversity and population genetic structure in fragmented Allocasuarina verticillata (Allocasuarinaceae)—implications for restoration. Aust J Bot 59:770–780
    Broadhurst LM, Lowe A, Coates DJ, Cunningham SA, McDonald M, Vesk PA, Yates C (2008) Seed supply for broadscale restoration: maximising evolutionary potential. Evol Appl 1:587–597PubMed PubMedCentral
    Brondani R, Brondani C, Tarchini R, Grattapaglia D (1998) Development, characterisation and mapping of microsatellite markers in Eucalyptus grandis and E. urophylla. Theor Appl Genet 97:816–827CrossRef
    Byrne M (2008) Phylogeny, diversity and evolution of eucalypts. In: Sharma AK, Sharma A (eds) Plant Genome: Biodiversity and Evolution, vol 1E. Phanerogam- Angiosperm Oxford and IBH Publishing Company, New Delhi, pp 303–346
    Byrne M, Hopper SD (2008) Granite outcrops as ancient islands in old landscapes: evidence from the phylogeography and population genetics of Eucalyptus caesia in Western Australia. Biol J Linn Soc Lond 93:177–188CrossRef
    Byrne M, Marquez-Garcia MI, Uren T, Smith DS, Moran GF (1996) Conservation and genetic diversity of microsatellite loci in the genus Eucalyptus. Aust J Bot 44:331–341CrossRef
    Byrne M, Macdonald B, Coates DJ (1999) Divergence in the chloroplast genome and nuclear rDNA of the rare Western Australian plant Lambertia orbifolia Gardner (Proteaceae). Mol Ecol 8:1789–1796CrossRef PubMed
    Byrne M, Stone L, Millar MA (2011) Assessing genetic risk in revegetation. J Appl Ecol 48:1365–1373CrossRef
    Campagne P, Smouse PE, Varouchas G, Silvain JF, Leru B (2012) Comparing the van Oosterhout and Chybicki-Burczyk methods of estimating null allele frequencies for inbred populations. Mol Ecol Res 126:975–982CrossRef
    Chapuis MP, Estoup A (2007) Microsatellite null alleles and estimation of population differentiation. Mol Biol Evol 24:621–631CrossRef PubMed
    Chybicki IJ, Burczyk J (2009) Simultaneous estimation of null alleles and inbreeding coefficients. J Hered 100:106–113CrossRef PubMed
    Chybicki IJ, Burczyk J (2010) Nm+: software implementing parentage-based models for estimating gene dispersal and mating patterns in plants. Mol Ecol Res 10:1071–1075CrossRef
    Coates DJ, Sampson JF, Yates CJ  (2007)  Plant mating systems and assessing population persistence in fragmented landscapes.  Aust J Bot 55:239–249CrossRef
    Coates DJ, Mcarthur SL, Byrne M (2015) Significant genetic diversity loss following pathogen driven population extinction in the rare endemic Banksia brownii (Proteaceae). Biol Conserv (in review)
    Debenham C (1970) The Language of Botany. The Society for Growing Australian Plants, Sydney
    Department of Parks and Wildlife (1998–2013) Department of Parks and Wildlife, Rare Flora Report Forms; Eucalyptus cuprea. Species and Communities Branch, Kensington
    Dharmarajan G, Beatty WS, Rhodes OE (2013) Heterozygote deficiencies caused by a Wahlund effect: dispelling unfounded expectations. J Wildl Manag 77:226–234CrossRef
    Dorken ME, Eckert CG (2001) Severely reduced sexual reproduction in northern populations of a clonal plant, Decodon verticillatus (Lythraceae). J Ecol 89:339–350CrossRef
    Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19:11–15
    Earl DA, von Holdt BM (2012) STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conserv Genet Res 4:359–361CrossRef
    Eckert CG (2002) The loss of sex in clonal plants. Evol Ecol 15:501–520CrossRef
    Ellstrand NC, Roose ML (1987) Patterns of genotypic diversity in clonal plant-species. Am J Bot 74:123–131CrossRef
    Frankham R, Ballou JD, Eldridge MD, Lacy RC, Ralls K, Dudash MR, Fenster CB (2011) Predicting the probability of outbreeding depression. Conserv Biol 25:465–475CrossRef PubMed
    Gao L, Tang S, Zhuge L, Nie M, Zhu Z et al (2012) Spatial genetic structure in natural populations of Phragmites australis in a mosaic of saline habitats in the Yellow River Delta, China. PLoS One 7:e43334. doi:10.​1371/​journal.​pone.​0043334 CrossRef PubMed PubMedCentral
    Godefroid S, Piazza C, Rossi G et al (2011) How successful are plant species reintroductions? Biol Conserv 144:672–682CrossRef
    Griffin AR, Moran GF, Fripp YJ (1987) Preferential outcrossing in Eucalyptus regnans F. Muell Aust J Bot 35:465–475CrossRef
    Holmes GD, James EA, Hoffmann AA  (2008)  Limitations to reproductive output and genetic rescue in populations of the rare shrub Grevillea repens (Proteaceae).  Ann Bot  102:1031–1041CrossRef PubMed PubMedCentral
    Holmes GD, James EA, Hoffmann AA (2009) Divergent levels of genetic variation and ploidy among populations of the rare shrub, Grevillea repens (Proteaceae). Conserv Genet 10:827–837CrossRef
    IUCN (1987) IUCN position statement on translocation of living organisms: introductions, re-introductions and re-stocking
    Jakobsson M, Rosenberg NA (2007) CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801–1806CrossRef PubMed
    James SH, Kennington WJ (1993) Selection against homozygotes and resource allocation in the mating system of Eucalyptus camaldulensis Dehnh. Aust J Bot 41:381–391CrossRef
    Jost L (2008) G ST and its relatives do not measure differentiation. Mol Ecol 17:4015–4026CrossRef PubMed
    Kennington WJ, James SH (1997a) The effect of small population size on the mating system of a rare clonal mallee. Eucalyptus argutifolia Heredity 78:252–260CrossRef
    Kennington WJ, James SH (1997b) Contrasting patterns of clonality in two closely related mallee species from Western Australia, Eucalyptus argutifolia and E. obtusiflora (Myrtaceae). Aust J Bot 45:679–689CrossRef
    Leimu R, Fischer M (2008) A meta-analysis of local adaptation in plants. PLoS One 3:e4010CrossRef PubMed PubMedCentral
    Liemu R, Mutikainen P, Koricheva J, Fischer M (2006) How general are positive relationships between plant population size, fitness and genetic variation? J Ecol 94:942–952CrossRef
    Meirmans PG, Hedrick PW (2011) Assessing population structure: F ST and related measures. Mol Ecol Res 11:5–18CrossRef
    Mijangos JL, Pacioni C, Spencer PB, Craig MD (2015) Contribution of genetics to ecological restoration. Mol Ecol 24:22–37CrossRef PubMed
    Miller MA, Byrne M, Coates DJ (2010) The maintenance of disparate levels of clonality, genetic diversity and genetic differentiation in disjunct subspecies of the rare Banksia ionthocarpa. Mol Ecol 19:4217–4227CrossRef
    Myburg AA, Grattapaglia D, Tuskan GA, Hellsten U, Hayes RD, Grimwood J et al (2014) The genome of Eucalyptus grandis. Nature 510:356–362PubMed
    Nicolle D (2006) A classification and census of regenerative strategies in the eucalypts (Angophora, Corymbia and Eucalyptus-Myrtaceae), with special reference to obligate seeders. Aust J Bot 54:391–407CrossRef
    Peakall R, Smouse PE (2012) genelex 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics 28:2537–2539CrossRef PubMed PubMedCentral
    Pielou EC (1969) An introduction to mathematical ecology. Wiley- Interscience, New York
    Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure from multilocus genotype data. Genetics 155:945–959PubMed PubMedCentral
    Prober SM, Byrne M, McLean E, Steane DA, Potts BM, Vaillancourt RE, Stock W (2015) Climate-adjusted provenancing: a strategy for climate-resilient ecological restoration. Front Ecol Evol (in review)
    Pryor LD (1951) Controlled pollination of Eucalyptus. Proc Linn Soc NSW 76:135–139
    Putman AI, Carbone I (2014) Challenges in analysis and interpretation of microsatellite data for population genetic studies. Ecol Evol 4:4399–4428PubMed PubMedCentral
    Reed DH, Frankham R (2003) Correlation between fitness and genetic diversity. Conserv Biol 17:230–237CrossRef
    Reynolds LK, McGlathery KJ, Waycott M (2012) Genetic diversity enhances restoration success by augmenting ecosystem services. PLoS One 7:e38397CrossRef PubMed PubMedCentral
    Ritland K (2002) Extensions of models for the estimation of mating systems using n independent loci. Heredity 88:221–228CrossRef PubMed
    Rousset F (2008) GENEPOP’007: a complete re-implementation of the genepop software for Windows and Linux. Mol Ecol Res 8:103–106CrossRef
    Severns PM, Liston A, Wilson MV (2011) Habitat fragmentation, genetic diversity, and inbreeding depression in a threatened grassland legume: is genetic rescue necessary? Conserv Genet 12:881–893CrossRef
    Sgrò CM, Lowe AJ, Hoffmann AA (2011) Building evolutionary resilience for conserving biodiversity under climate change. Evol Appl 4:326–337CrossRef PubMed PubMedCentral
    Silvertown J (2008) The evolutionary maintenance of sexual reproduction: evidence from the ecological distribution of asexual reproduction in clonal plants. Int J Plant Sci 169:157–168CrossRef
    Smith S, Hughes J, Wardell-Johnson G (2003) High population differentiation and extensive clonality in a rare mallee eucalypt: Eucalyptus curtisii. Conserv Genet 4:289–300CrossRef
    Steane DA, Vaillancourt RE, Russell J et al (2001) Development and characterisation of microsatellite loci in Eucalyptus globulus (Myrtaceae). Silvae Genet 50:89–91
    Thomas E, Jalonen R, Loo J, Boshier D, Gallo L, Cavers S, Bordács Smith P, Bozzano M (2014) Genetic considerations in ecosystem restoration using native tree species. Forest Ecol Manag 333:66–75CrossRef
    van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538CrossRef
    Weeks AR, Sgro CM, Young AG et al (2011) Assessing the benefits and risks of translocations in changing environments: a genetic perspective. Evol Appl 4:709–725CrossRef PubMed PubMedCentral
    Yates CJ, Hobbs RJ (1997) Temperate eucalypt woodlands: a review of their status, processes threatening their persistence and techniques for restoration. Aust J Bot 45:949–973CrossRef
    Young AG, Hill JH, Murray BG, Peakall R (2002) Breeding system, genetic diversity and clonal structure in the sub-alpine forb Rutidosis leiolepis F. Muell. (Asteraceae). Biol Conserv 106:71–78CrossRef
  • 作者单位:Jane F. Sampson (1)
    Margaret Byrne (1)

    1. Science Division, Department of Parks and Wildlife, Locked Bag 104, Bentley Delivery Centre, Bentley, WA, 6983, Australia
  • 刊物类别:Biomedical and Life Sciences
  • 刊物主题:Biomedicine
    Human Genetics
    Animal Anatomy, Morphology and Histology
    Plant Sciences
    Evolutionary Biology
  • 出版者:Springer Netherlands
  • ISSN:1572-9737
文摘
Genetics can provide information that is critical for planning translocations for conservation, such as levels of diversity and divergence of target and source populations. For clonal plants, assessing population characteristics (size, diversity, mortality, gene flow) that influence conservation values also requires identification of different genetic individuals. We used 12 microsatellite markers to guide germplasm source recommendations for augmentation and introduction translocations to conserve the critically endangered Eucalyptus cuprea that occurs in fragmented populations in the semi-arid shrublands of Western Australia. Ramet clumps with identical multilocus genotypes were identified in all populations but clonal richness (R = 0 − 0.86) and heterogeneity (D = 0 − 0.98) varied among populations. Genetic diversity was low to moderate in all populations (mean H o = 0.61, mean A = 3.78) and did not differ significantly between localities. There was evidence of inbreeding in some populations but outcrossing (t m = 0.495) in the small number of families available for study (N = 4) and genotypic diversity of the larger extant populations suggest the generation of novel genotypes is a component of the reproductive strategy. Most diversity was within populations and differentiation among populations was moderate (F ST = 0.100) suggesting mixing of source population for translocation is unlikely to lead to outbreeding depression. Principal Co-ordinate and Bayesian analyses indicated the Northern population is distinct from Central/Southern populations. We recommend use of mixed germplasm to conserve the moderate diversity characterising larger remnant populations and to enable the production of recombinants through sexual reproduction. But given seed availability and the distinction of the Northern population, an initial precautionary approach to a translocation proposed for south of the geographical range may be to source germplasm from the Central/Southern locality.

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