New Geometric Models for Shape Quantification of the Dorsal View in Seeds of Silene Species
Status PubMed-not-MEDLINE Jazyk angličtina Země Švýcarsko Médium electronic
Typ dokumentu časopisecké články
PubMed
35406938
PubMed Central
PMC9002935
DOI
10.3390/plants11070958
PII: plants11070958
Knihovny.cz E-zdroje
- Klíčová slova
- cardioid, convexity, geometry, model, morphology, oval, seed shape, super-ellipse, symmetry,
- Publikační typ
- časopisecké články MeSH
The description of shape in Silene seeds is based on adjectives coined by naturalists in the 19th century. The expressions reniform, dorso plana, and dorso canaliculata were applied in reference to lateral or dorsal views of seeds, but the characters described can be submitted now to an analytical description by quantitative methods, allowing shape quantification and the comparison between species or populations. A quantitative morphological analysis is based on the comparison with geometric models that adjust to the shape of seeds. Morphological analysis of the dorsal view of Silene seeds based on geometric models is applied here to 26 seed populations belonging to 12 species. According to their dorsal views, the seeds are classified as convex and non-convex. New geometric models are presented for both types, including figures such as super-ellipses and modified ellipses. The values of J index (percent of similarity of a seed image with the model) are obtained in representative seed samples from diverse populations and species. The quantitative description of seed shape based on the comparison with geometric models allows the study of variation in shape between species and in populations, as well as the identification of seeds in Silene species. The method is of application to other plant species.
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D’Arcy W.T. On Growth and Form. 2nd ed. Cambridge University Press; Cambridge, UK: 1961. pp. 1–345.
Cervantes E., Martín-Gómez J.J., Saadaoui E. Updated methods for seed shape analysis. Scientifica. 2016;2016:5691825. doi: 10.1155/2016/5691825. PubMed DOI PMC
Cervantes E., Martín-Gómez J.J. Seed Shape Description and Quantification by Comparison with Geometric Models. Horticulturae. 2019;5:60. doi: 10.3390/horticulturae5030060. DOI
Cervantes E., Martín-Gómez J.J., Ardanuy R., de Diego J.G., Tocino A. Modeling the Arabidopsis seed shape by a cardioid: Efficacy of the adjustment with a scale change with factor equal to the Golden Ratio and analysis of seed shape in ethylene mutants. J. Plant Physiol. 2010;167:408–410. doi: 10.1016/j.jplph.2009.09.013. PubMed DOI
Cervantes E., Martín-Gómez J.J., Chan P.K., Gresshoff P.M., Tocino A. Seed shape in model legumes: Approximation by a cardioid reveals differences in ethylene insensitive mutants of Lotus japonicus and Medicago truncatula. J. Plant Physiol. 2012;169:1359–1365. doi: 10.1016/j.jplph.2012.05.019. PubMed DOI
Martín Gómez J.J., Tocino Á., Ardanuy R., de Diego J.G., Cervantes E. Dynamic analysis of Arabidopsis seed shape reveals differences in cellulose mutants. Acta Physiol. Plant. 2014;36:1585–1592. doi: 10.1007/s11738-014-1534-8. DOI
Saadaoui E., Martín-Gómez J.J., Cervantes E. Seed morphology in Tunisian wild populations of Capparis spinosa L. Acta Biol. Cracov. Bot. 2013;55:99–106.
Saadaoui E., Martín-Gómez J.J., Tlil E.N., Khaldi A., Cervantes E. Effect of climate in seed diversity of wild Tunisian Rhus tripartita (Ucria) Grande. J. Adv. Biol. Biotechnol. 2017;13:1–10. doi: 10.9734/JABB/2017/32786. DOI
Saadaoui E., Martín J.J., Bouazizi R., Ben Romdhane C., Grira M., Abdelkabir S., Larbi Khouja M., Cervantes E. Phenotypic variability and seed yield of Jatropha curcas L. introduced to Tunisia. Acta Bot. Mex. 2015;110:119–134. doi: 10.21829/abm110.2015.193. DOI
Martín-Gómez J.J., Saadaoui E., Cervantes E. Seed shape of castor bean (Ricinus communis L.) grown in different regions of Tunisia. J. Agric. Ecol. 2016;8:1–11.
Martín-Gómez J.J., Rewicz A., Goriewa-Duba K., Wiwart M., Tocino Á., Cervantes E. Morphological description and classification of wheat kernels based on geometric models. Agronomy. 2019;9:399. doi: 10.3390/agronomy9070399. DOI
Del Pozo D.G., Martín-Gómez J.J., Tocino Á., Cervantes E. Seed geometry in the Arecaceae. Horticulturae. 2020;6:64. doi: 10.3390/horticulturae6040064. DOI
Martín-Gómez J.J., Del Pozo D.G., Tocino Á., Cervantes E. Geometric models for seed shape description and quantification in the Cactaceae. Plants. 2021;10:2546. doi: 10.3390/plants10112546. PubMed DOI PMC
Cervantes E., Martín-Gómez J.J., Del Pozo D.G., Tocino A. Seed geometry in the Vitaceae. Plants. 2021;10:1695. doi: 10.3390/plants10081695. PubMed DOI PMC
Cervantes E., Martín-Gómez J.J. Seed shape quantification in the order Cucurbitales. Mod. Phytomorphol. 2018;12:1–13. doi: 10.5281/zenodo.1174871. DOI
Martín-Gómez J.J., Rewicz A., Cervantes E. Seed shape diversity in families of the order Ranunculales. Phytotaxa. 2019;425:193–207. doi: 10.11646/phytotaxa.425.4.1. DOI
Boissier E. Flora Orientalis. Volume 1. H. Georg; Geneva, Switzerland: 1867. pp. 567–656.
Rohrbach P. Monographic der Gattung Silene. Verlag von Engelmann; Leipzig, Germany: 1869. pp. 1–249.
Martín-Gómez J.J., Rewicz A., Rodriguez-Lorenzo J.L., Janousek B., Cervantes E. Seed morphology in Silene based on geometric models. Plants. 2020;9:1787. doi: 10.3390/plants9121787. PubMed DOI PMC
Juan A., Martín-Gómez J.J., Rodriguez-Lorenzo J.L., Janousek B., Cervantes E. New techniques for seed shape description in Silene species. Taxonomy. 2021;2:1–19. doi: 10.3390/taxonomy2010001. DOI
Arman M., Gholipour A. Seed morphology diversity in some Iranian endemic Silene (Caryophyllaceae) species and their taxonomic significance. Acta Biol. Szeged. 2013;57:31–37.
Atazadeh N., Keshavarzi M., Sheidai M., Gholipour A. Seed morphology of Silene commelinifolia Boiss. Complex (Caryophyllaceae Juss.) Mod. Phytomorphol. 2017;11:5–13.
Jeanmonod D. Révision de la section Siphonomorpha Otth du genre Silene L. (Caryophyllaceae) en Méditerranée occidentale. III: Agrégat italica et espèces affines. Candollea. 1984;39:549–639.
Keshavarzi M., Mahdavinejad M., Sheidai M., Gholipour A. Seed and pollen morphology of some Silene species in Iran. Phytol. Balc. 2015;21:7–12.
Perveen A. Seed morphology of the genus Silene: Caryophyllaceae from Pakistan and Kashmir. Int. J. Biol. Biotechnol. 2009;6:219–227.
Tabaripour R., Koohdar F., Sheidai M., Gholipour A. Intra-specific variations in Silene: Morphometry and micromorphometry analyses. Afr. J. Biotechnol. 2013;12:5208–5217.
Mebatsion H.K., Paliwal J., Jayas D.S. Evaluation of variations in the shape of grain types using principal components analysis of the elliptic Fourier descriptors. Comput. Electron. Agric. 2012;80:63–70. doi: 10.1016/j.compag.2011.10.016. DOI
Murru V., Grillo O., Santo A., Ucchesu M., Piazza C., Gaio A., Carta A., Bacchetta G. Seed morpho-colorimetric analysis on some Tyrrhenian species of the Silene mollissima aggregate (Caryophyllaceae) Flora. 2019;258:151445. doi: 10.1016/j.flora.2019.151445. DOI
Sakamoto L., Kajiya-Kanegae H., Noshita K., Takanashi H., Kobayashi M., Kudo T., Yano K., Tokunaga T., Tsutsumi N., Iwata H. Comparison of shape quantification methods for genomic prediction, and genome-wide association study of sorghum seed morphology. PLoS ONE. 2019;14:e0224695. doi: 10.1371/journal.pone.0224695. PubMed DOI PMC
Williams K., Munkvold J., Sorrells M. Comparison of digital image analysis using elliptic Fourier descriptors and major dimensions to phenotype seed shape in hexaploid wheat (Triticum aestivum L.) Euphytica. 2013;190:99–116. doi: 10.1007/s10681-012-0783-0. DOI
Papadopulos A.S.T., Chester M., Ridout K., Filatov D.A. Rapid Y degeneration and dosage compensation in plant sex chromosomes. Proc. Natl. Acad. Sci. USA. 2015;112:13021–13026. doi: 10.1073/pnas.1508454112. PubMed DOI PMC
Krasovec M., Chester M., Ridout K., Filatov D.A. The mutation rate and the age of the sex chromosomes in Silene latifolia. Curr. Biol. 2018;28:1832–1838.e4. doi: 10.1016/j.cub.2018.04.069. PubMed DOI
Schoch C.L., Ciufo S., Domrachev M., Hotton C.L., Kannan S., Khovanskaya R., Leipe D., Mcveigh R., O’Neill K., Robbertse B., et al. NCBI Taxonomy: A comprehensive update on curation, resources and tools. [(accessed on 17 January 2022)];Database. 2020 2020:baaa062. doi: 10.1093/database/baaa062. Available online: https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=37657. PubMed DOI PMC
Williams A.M., Itgen M.W., Broz A.K., Carter O.G., Sloan D.B. Long-read transcriptome and other genomic resources for the angiosperm Silene noctiflora. G3 Genes|Genomes|Genetics. 2021;11:jkab189. doi: 10.1093/g3journal/jkab189. PubMed DOI PMC
Bernasconi G., Antonovics J., Biere A., Charlesworth D., Delph L.F., Filatov D., Giraud T., Hood M.E., Marais G.A.B., McCauley D., et al. Silene as a model system in ecology and evolution. Heredity. 2009;103:5–14. doi: 10.1038/hdy.2009.34. PubMed DOI
Sloan D.B., Alverson A.J., Chuckalovcak J.P., Wu M., McCauley D.E., Palmer J.D., Taylor D.R. Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates. PLoS Biol. 2012;10:e1001241. doi: 10.1371/journal.pbio.1001241. PubMed DOI PMC
Abou A., Naga E., Serag M., Moustafa R. Adaptation of Silene succulenta Forssk. and Spergularia marina (L.) Bessler growing in the deltaic mediterranean coast of Egypt. Mansoura J. Biol. 2009;36:1–18.
Buide M.L., del Valle J.C., Pissatto M., Narbona E. Night life on the beach: Selfing to avoid pollinator competition between two sympatric Silene species. Ann. Bot. 2015;116:201–211. doi: 10.1093/aob/mcv078. PubMed DOI PMC
Talavera S. Silene L. In: Castroviejo S., Aedo C., Laínz M., Muñoz Garmendia F., Nieto Feliner G., Paiva J., Benedí C., editors. Flora ibérica. Volume 8. Real Jardín Botánico, CSIC; Madrid, Spain: 1997. pp. 149–152.
Morton J.K. Silene. In Flora of North America North of Mexico; Flora of North America Editorial Committee, eds. 1993+. 22+ vols. New York and Oxford. 2019. [(accessed on 28 January 2022)]. Available online: http://floranorthamerica.org/Silene.
Jafari F., Zarre S., Gholipour A., Eggens F., Rabler R.K., Oxelman B. A new taxonomic backbone for the infrageneric classification of the species-rich genus Silene (Caryophyllaceae) Taxon. 2020;69:337–368. doi: 10.1002/tax.12230. DOI
Rasband W.S. ImageJ. U.S. National Institutes of Health, Bethesda, MD, USA. [(accessed on 15 March 2022)];2018 Available online: http://imagej.nih.gov/ij/
Zdilla M.J., Hatfield S.A., McLean K.A., Cyrus L.M., Laslo J.M., Lambert H.W. Circularity, solidity, axes of a best fit ellipse, aspect ratio, and roundness of the foramen ovale: A morphometric analysis with neurosurgical considerations. J. Craniofac. Surg. 2016;27:222–228. doi: 10.1097/SCS.0000000000002285. PubMed DOI PMC
Cervantes E., Martín-Gómez J.J., Espinosa-Roldán F.E., Muñoz-Organero G., Tocino Á., Cabello-Sáenz de Santamaría F. Seed Morphology in Key Spanish Grapevine Cultivars. Agronomy. 2021;11:734. doi: 10.3390/agronomy11040734. DOI
R Core Team . R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing; Vienna, Austria: 2020.
Campbell G., Skillings J.H. Nonparametric Stepwise Multiple Comparison Procedures. J. Am. Stat. Assoc. 1985;80:998–1003. doi: 10.1080/01621459.1985.10478216. DOI
Sokal R.R., Braumann C.A. Significance Tests for Coefficients of Variation and Variability Profiles. Syst. Zool. 1980;29:50. doi: 10.2307/2412626. DOI
Infraspecific Variation in Silene Seed Tubercles
Curvature Analysis of Seed Silhouettes in Silene L
The Outline of Seed Silhouettes: A Morphological Approach to Silene (Caryophyllaceae)