Abstract
This study aimed to evaluate the genetic variability of Eremanthus erythropappus clones using morphological and molecular markers. Seventeen clones at 20 months of age were analyzed for eight morphological characteristics (leaf margin shape, leaf area, leaf length and width, petiole length, leaf apex and base and branch insertion angle on the main stem) and nine inter-simple sequence repeat (ISSR) primers. Four distinct groups were observed for the morphological characteristics according to the Mahalanobis distance matrix, and six distinct groups were formed based on the Jaccard coefficient for the molecular markers. Furthermore, the variability was evidenced by the statistical significance of all morphological characters, especially in relation to the size and shape of the leaves, with emphasis on the leaf blade width (LW) (ranging from 3.34 to 5.64 cm) and the margins leaves (entire: 64.7%, wavy: 23.5%, dentate: 11.8%). The molecular markers showed a high percentage of polymorphic bands (PPB = 72.72%). However, genetic diversity was low, based on the Nei (H* = 0.23) and Shannon (I* = 0.35) indices. Entanglement analysis revealed moderate associations among clusters, with consistency between pairs of clones that remained linked or within the same cluster in both dendrograms. These results provide important insights for future strategies aimed at improving the species, focusing on maintenance and genetic gains.
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References
Arriel DAA, Fajardo CG, Vieira FDA, Carvalho D (2023) Spacial genetic structure of sympatric populations of Eremanthus Species in Brazil. J Trop For Sci 35:56–65. https://www.jstor.org/stable/https://doi.org/10.2307/48708376
Auguie B, Antonov A (2017) Miscellaneous Functions for “Grid” Graphics. R package version 2.3, 2017. https://cran.r-project.org/web/packages/gridExtra/gridExtra. Accessed 09 Sept 2023
Avelar MLM, Silva Júnior VPD, Rosado LR, Gonçalves FMA, Pavan AJ, Melo LAD (2021) Caracterização genética no crescimento inicial de progênies de Eremanthus erythropappus (DC.) MacLeish em Aiuruoca, MG, Brasil. Hoehnea 48:1–6. https://doi.org/10.1590/2236-8906-14/2020
Barreira S, Sebbenn AM, Scolforo JRS, Kageyama PY (2006) Diversidade genética e sistema de reprodução em população nativa de Eremanthus erythropappus (DC.) MacLeish sob exploração. Scientia Forestalis 71:119–130
Burle ML, Oliveira, MSP (2010) Manual de curadores de germoplasma vegetal: Caracterização morfológica. Embrapa Recursos Genéticos e Biotecnologia, Brasília
Carmo FL, Hanna SA, Uchôa SBB, Angeli R, Bruch KL (2019) Cultivares – O que são, como se apropriar, como consultar. In: Santos WPC (ed) Conceitos e aplicações de propriedade intellectual. IFBA, Salvador, pp 349–399
Chen H, Guo A, Wang J, Gao J, Zhang S, Zheng J, Huang X, Xi J, Yi K (2020) Evaluation of genetic diversity within asparagus germplasm based on morphological traits and ISSR markers. Physiol Mol Biol Plants 26:305–315. https://doi.org/10.1007/s12298-019-00738-5
Chesnokov YV, Artemyeva AM (2015) Evaluation of the measure of polymorphism information of genetic diversity. Agric Biol 50:571–578. https://doi.org/10.15389/agrobiology.2015.5.571eng
Cruz CD (2016) Genes software-extended and integrated with the R, Matlab and Selegen. Acta Sci Agron 38:547–552. https://doi.org/10.4025/actasciagron.v38i4.32629
Cruz CD, Carneiro PCS, Regazzi AJ (2014) Modelos biométricos aplicados ao melhoramento genético, 3rd edn. UFV, Viçosa
Csárdi G, Nepusz T et al (2023) Igraph: network analysis and visualization. R package version 1.5.1, 2023. https://cran.r-project.org/web/packages/igraph/igraph.pdf. Accessed 09 Sept 2023
Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bull 19:11–15
Dutra RC, Ferraz SO, Pimenta DS, Sousa OV (2010) Caracterização morfoanatômica das folhas de Eremanthus erythropappus (DC.) MacLeisch. Asteraceae Rev Bras Farmacogn 20:818–824. https://doi.org/10.1590/S0102-695X2011005000003
Estopa RA, Souza AM, Moura MCO, Botrel MCG, Mendonça EG, Carvalho D (2006) Diversidade genética em populações naturais de candeia (Eremanthus erythropappus (DC.) MacLeish). ScientiaForestalis 70:97–106
Fang H, Nie W, Zhu P, Liang C, Deng S (2018) Genetic diversity in Callicarpa kwangtungensis Chun. based on morphological, biochemical and ISSR markers. J Appl Res Med Aromat Plants 10:41–48. https://doi.org/10.1016/j.jarmap.2018.06.001
Felix FC, Chagas KPT, Ferrari CS, Vieira FA, Pacheco MV (2020) Applications of ISSR markers in studies of genetic diversity of Pityrocarpa moniliformis. Rev Caatinga 33:1017–1024. https://doi.org/10.1590/1983-21252020v33n417rc
Ferreira, DF (2019) SISVAR: a computer analysis system to fixed effects split plot type designs. Rev Bras Biom 37:529–535. https://doi.org/10.28951/rbb.v37i4.450
Fonseca ALC, Magalhães TA, Melo LA, Oliveira LS, Brondani GE (2021) Rescue and vegetative propagation of Eremanthus erythropappus (DC.) MacLeish in natural stand. Braz J Biol 81:566–574. https://doi.org/10.1590/1519-6984.225119
Galdino APP, Brito JO, Garcia RF, Scolforo JRS (2006) Estudo sobre o rendimento e qualidade do óleo de candeia (Eremanthus ssp) e a influência das diferentes origens comerciais de sua madeira. Rev Bras De Plantas Medicinais 8:44–46
Galili T (2015) Dendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering. Bioinformatics 31:3718–3720. https://doi.org/10.1093/bioinformatics/btv428. Accessed 09 Sept 2023
Galili T, Benjamini Y, et al (2020) Extending ‘dendrogram’ Functionality in R. R package version 1.13.4, 2020. Available at: https://cran.r-project.org/web/packages/dendextend/dendextend. Accessed in: 9th Sept 2022
Ivetić V, Devetaković J, Nonić M, Stanković D, Šijačić-Nikolić M (2016) Genetic diversity and forest reproductive material – from seed source selection to planting. Iforest 9:801–812. https://doi.org/10.3832/ifor1577-009
Jaccard P (1908) Nouvelles recherches sur la distribution florale. Bull Soc Vaud Sc Nat 44:223–270. https://doi.org/10.5169/seals-268384
Karimizadeh R, Asghari A, Chinipardaz R, Sofalian O, Ghaffari A, Shahbazi K, Hosseinpour T, Ghojog H, Armion M (2019) Use of principal coordinate analysis for measuring GE interactions in rain-fed durum wheat genotypes. J Agric Sci 25:38–46. https://doi.org/10.15832/ankutbd.538993
Kassambara A (2020) ‘ggplot2’ Based Publication Ready Plots. R package version 0.4.0, 2020. https://cran.r-project.org/web/packages/ggpubr/ggpubr. Accessed 09 Sept 2023
Kassambara A, Mundt F (2020) Factoextra: Extract and visualize the results of multivariate data analyses. R package version 1.0.5, 2017. https://CRAN.R-project.org/package=factoextra. Accessed 09 Sept 2023
Lahoz I, Fernández JA, Migliaro D, Macua JI, Egea-Gilabert C (2011) Using molecular markers, nutritional traits and field performance data to characterize cultivated cardoon germplasm resources. Sci Hortic 127:188–197. https://doi.org/10.1016/j.scienta.2010.10.002
Lewontin RC (1972) The apportionment of human diversity. Evol Biol 6:381–398. https://doi.org/10.1007/978-1-4684-9063-3_14
Ligges U, Maechler M, Schnackenberg S (2023) 3D Scatter Plot. R package version 0.3.44, 2023. https://cran.r-project.org/web/packages/scatterplot3d/scatterplot3d.pdf. Accessed 09 Sept 2023
Lima EN, Araujo MEB, Bertini CHCM, Moura CFH, Crestani M (2015) Diversidade genética de clones de aceroleira avaliada por meio de marcadores moleculares ISSR. Comun Sci 6:174–180
Maechler M, Rousseeuw P, et al (2019) Finding Groups in Data: Cluster analysis extended Rousseeuw et al. R package version 2.1.0, 2019. https://cran.r-project.org/web/packages/cluster/cluster. Accessed 09 Sept 2023
Mantel N (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27:209–220
Martins IS, Pires IE, Oliveira MC (2002) Divergência genética em progênies de uma população de Eucalyptus camaldulensis Dehnh. Floresta e Ambiente 9:81–89
Melo LAD, Davide AC, Teixeira LAF (2012) Metodologia para resgate de matrizes e enraizamento de estacas de Eremanthus erythropappus. Cerne 18:631–638. https://doi.org/10.1590/S0104-77602012000400013
Mojena R (1977) Hierarchical grouping methods and stopping rules: an evaluation. Comput J 20:359–363. https://doi.org/10.1093/comjnl/20.4.359
Morais Júnior OPD, Melo PGS, Morais OPD, Colombari JM (2017) Variabilidade genética durante quatro ciclos de seleção recorrente em arroz. Pesqui Agropecu Bras 52:1033–1041. https://doi.org/10.1590/S0100-204X2017001100009
Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:586–590. https://doi.org/10.1093/genetics/89.3.583
Oksanen J, Blanchet FG, et al (2018) Vegan: Community Ecology Package. R package version 2.4–5, 2018. https://CRAN.R-project.org/package=vegan. Accessed 09 Sept 2023
Oliveira AD, Ribeiro ISA, Scolforo JRS, Mello JM, Junior FWA, Camolesi JF (2009) Market chain analysis of candeia timber (Eremanthus erythropappus). Cerne 15:257–264
Pádua JAR, Rocha LF, Brandao MM, Vieira FA, Carvalho D (2021) Priority areas for genetic conservation of Eremanthus erythropappus (DC.) MacLeish in Brazil. Genet Resour Crop Evol 68:2483–2494. https://doi.org/10.1007/s10722-021-01144-1
Pakseresht F, Talebi R, Karami E (2013) Comparative assessment of ISSR, DAMD and SCoT markers for evaluation of genetic diversity and conservation of landrace chickpea (Cicer arietinum L.) genotypes collected from north-west of Iran. Physiol Mol Biol Plants 19:563–574. https://doi.org/10.1007/s12298-013-0181-7
R Core Team (2016) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria
Ramalho AB, Rossi AAB, Dardengo JFE, Zortéa KÉM, Tiago AV, Martins KC (2016) Diversidade genética entre genótipos de Bertholletia excelsa por meio de marcadores moleculares ISSR. Floresta 46:207–214. https://doi.org/10.5380/rf.v46i2.41970
Reckiegel RB, Sheppard JP, Kahle HP, Larysch E, Spiecker H, Seifert T, Morhart C (2022) Virtual pruning of 3D trees as a tool for managing shading effects in agroforestry systems. Agroforest Syst 96:89–104. https://doi.org/10.1007/s10457-021-00697-5
Reis RVD, Oliveira EJD, Viana AP, Pereira TNS, Pereira MG, Silva MGDM (2011) Diversidade genética em seleção recorrente de maracujazeiro-amarelo detectada por marcadores microssatélites. Pesqui Agropecu Bras 46:51–57. https://doi.org/10.1590/S0100-204X2011000100007
Shannon CE, Weaver WA (1949) Mathematical model of communication. University of Illinois Press, Urbana
Silva JM, Aguiar AV, Mori ES, Moraes MLT (2012) Divergência genética entre progênies de Pinus caribaea var. Caribaea com base em caracteres quantitativos. Pesq Flor Bras 32:69–77. https://doi.org/10.4336/2012.pfb.32.69.69
Singh D (1981) The relative importance of traits affecting genetic divergence. Ind J Gen Plant Breed 41:237–245
Toppa EVB, Jadoski CJ (2013) O uso de marcadores moleculares no melhoramento genético de plantas. Sci Agrár Parana 12:1–5. https://doi.org/10.18188/sap.v12i1.4552
Turchetto-Zolet AC, Turchetto C, Zanella AM, Passaia G (2017) Marcadores Moleculares na Era genômica: Metodologias e Aplicações. Sociedade Brasileira de Genética, Ribeirão Preto, 181p
Vidal WN, Vidal MRR (2007) Botânica Organografia: Quadros Sinóticos Ilustrados de Fanerógamos. UFV, Viçosa
Wilke CO (2019) Streamlined Plot Theme and Plot Annotations for ‘ggplot2’. R package version 1.0.0, 2019. https://cran.r-project.org/web/packages/cowplot/cowplot. Accessed 09 Sept 2022
Yeh FC, Boyle TJB (1997) Population genetic analysis of co-dominant and dominant markers and quantitative traits. Belg Journ Bot 129:156–157
Acknowledgements
To the Fundação de Amparo à Pesquisa do Estado de Minas Gerais (Fapemig) and to the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) for the financial support. To the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior—Brazil (Capes) (Funding Code 001). To the Citroleo Indústria e Comércio de óleos Essenciais LTDA for making genetic material available. To the Universidade Federal de Lavras and to the Forestry and forest restoration study laboratory.
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This work was supported by the Fundação de Amparo à Pesquisa do Espírito Santo (Fapes), the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) and the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior—Brazil (Capes) (Funding Code 001).
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Janice Ferreira do Nascimento: Creator, performer and writing. Adelson Lemes da Silva Júnior: Performer and writing. Paulo Roberto Magistrali: Performer and writing. Rodolfo Soares de Almeida: Performer and writing. Dulcinéia de Carvalho: Performer and advisor. Lucas Amaral de Melo: Writing and advisor. Lavínia Barbosa Oliveira: Writing. Lucimara Cruz de Souza: Writing.
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do Nascimento, J.F., da Silva Júnior, A.L., Magistrali, P.R. et al. Variability in Eremanthus erythropappus (DC) MacLeish clones revealed by morphological and molecular markers. Genet Resour Crop Evol (2024). https://doi.org/10.1007/s10722-024-01953-0
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DOI: https://doi.org/10.1007/s10722-024-01953-0