Skip to main content
Log in

Use of AFLPs to detect hybrids that confuse species boundaries between the lesser known African taxa in Solanum Merolloids section (Solanaceae)

  • Research Article
  • Published:
Genetic Resources and Crop Evolution Aims and scope Submit manuscript

Abstract

This study was designed to assess whether or not existed interspecific hybrids between the two lesser known African taxa in Solanum Merolloids section Solanum; S. tardremotum and S. florulentum that confused their taxonomy. Hybridization is one of the factors that blur boundary between closely related species. It is an indication that there is semi-permeable boundary through which genes are flowing across. In the African species of section Solanum it has been hypothesized that interspecific hybridization is one of the factors complicating the delimitation of species though this claim has never been examined systematically. Solanum tarderemotum and S. florulentum were all described by Bitter from Tanzania. Through history the two taxa have been considered separate species, different species mixed with hybrids and recently the boundary of S. tarderemotum has been expanded to include S. florulentum s. str. and materials thought to be hybrids. DNA was isolated from 63 individuals belonging to 22 accessions and two amplified fragment length polymorphism (AFLP) primer combinations; EcoRI + AAC/MseI + CAC and EcoRI + ACC/MseI + CAT used. Clustering used PAST software. Five clusters were generated, S. tarderemotum s. str. and S. florulentum s. str., fell in different clusters. The two taxa shared only 41% of their bands which was less that what was shared between them and their supposed hybrids in two of the three remaining clusters. Some individuals from certain accessions segregated in different clusters. Intermediary and segregation indicates exists hybrids in midst of good species S. tarderemotum and S. florulentum and this could be the reason of the confused species delimitation.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1

Similar content being viewed by others

Data availability

Dataset generated and/or analyzed during the current study are available from the corresponding author on reasonable request.

References

  • Arnold ML (2006) Evolution through genetic exchange. Oxford University Press, Oxford

    Google Scholar 

  • Bensch S, Helbig AJ, Salomon M, Seibold I (2002) Amplified Fragment Length Polymorphism analysis identifies hybrids between two species of warblers. Mol Ecol 11:471–481

    Article  Google Scholar 

  • Besansky NJ, Krzywinski J, Lehmann T, Simard F, Kern M, Mukabayire O, Fontenille D, Touré Y, Sagnon NF (2003) Semipermeable species boundaries between Anopheles gambiae and Anopheles arabiensis: Evidence from multilocus DNA sequence variation. Proceedings of the National Academy of Sciences of the United States of America. 100,10818–10823; https://doi.org/10.1073/pnas.1434337100.

  • Bitter G (1912) Solana nova vel minus cognita. I Reprt Spec Nov Regn Veg 10:529–565

    Google Scholar 

  • Bohs L (2005) Major clades in Solanum based on ndhF sequences. In: Keating RC, Hollowell VC, Croat TB (edn.) A festschrift for William G. D’Arcy: the legacy of a taxonomist, Monogr. syst. bot. Mo. Bot. Gard. (104):27–49.

  • Camargo A & Sites J Jr (2013) Species delimitation: A decade after Renaissance. Do:https://doi.org/10.5772/52664.

  • Chetelat RT, Qin X, Tan M, Burkart-Waco D, Moritama Y, Huo X, Wills T, Pertuzé R (2019) Introgression lines of Solanum sitiens, a wild nightshade of the Atacama Desert, in the genome of cultivated tomato. Plant J 100(4):836–850

    Article  CAS  PubMed  Google Scholar 

  • Cracraft J (2002) The seven great questions of systematic biology: an essential foundation for conservation and the sustainable use of biodiversity. Ann Missouri Bot Gard 89:127–144

    Article  Google Scholar 

  • Dehmer KJ, Hammer K (2004) Taxonomic status and geographic provenance of Germplasm accessions in Solanum nigrum L. complex: AFLP data. Genet Resour Crop Evol 51:551–558

    Article  CAS  Google Scholar 

  • Dupont L, Porco D, Symondson WCO, Roy V (2016) Hybridization relics complicate barcode-based identification of species in earthworms. Mol Ecol Resour 16:883–894. https://doi.org/10.1111/1755-0998.12517

    Article  CAS  PubMed  Google Scholar 

  • Edmonds JM and Chweya J A (1997) Black nightshades. Solanum nigrum L. and related species. Institute of Plant Genetics and Crop Plant Research Gatersleben /International Plant Genetic Reources Institute, Rome, Italy.

  • Edmonds JM (1972) A synopsis of the taxonomy of Solanum sect. Solanum (Maurella) in South America. Kew Bull. 27(1): 95–114.

  • Edmonds JM (2005) Solanum L. section Solanum. In: G. V. Pope and E. S. Martin (ed.), Flora Zambesiaca 8:81–86. Royal Botanic Gardens, Kew.

  • Edmonds JM 2006. (section Solanum) in: Hedberg I, Kelbessa E, Edwards S, Demissew S, Persson E. Flora of Ethiopia and Eritrea Vol. 5 Gentianaceae to Cyclocheilaceae, Addis Ababa and Uppsala.

  • Edmonds JM (2012) in Beentje HJ (ed) Flora of Tropical East Africa Solanaceae. Kew Royal Botanical Gardens.

  • Gili M, Monaghan MT, Spaak P (2004) Amplified Fragment Length Polymorphism (AFLP) Reveals Species-Specific Markers in the Daphnia Galeata-Hyalina Species Complex. Hydrobiologia 526:63–71

    Article  Google Scholar 

  • Glombik M, Bačovský V, Hobza R, Kopecký D. Competition of Parental Genomes in Plant Hybrids (2020) Front Plant Sci. 2020 Feb 25;11:200. doi: https://doi.org/10.3389/fpls.2020.00200.

  • Gobert V, Colson M, Taberlet MS (2002) Hybridization in the section Mentha (Lamiaceae) inferred from AFLP markers. Am J Bot 89:2017–2023

    Article  CAS  PubMed  Google Scholar 

  • Gosh S, Majumder PB, Mandi SS (2011) Species-specific AFLP markers for identification of Zingiber officinale, Z. montanum and Z. zerumbet (Zingiberaceae). Genet Mol Res 10:218–229. https://doi.org/10.4238/vol10-1gmr1154

    Article  CAS  Google Scholar 

  • Grant V (1981) Plant Speciation. Columbia University Press, New York NY, USA

    Book  Google Scholar 

  • Grzebelus D, Senalik D, Agosz B, Simon PW, Michalik B (2001) The use of aflp markers for the identification of Carrot breeding lines and f1 hybrids. Plant Breed 120:526–528

    Article  CAS  Google Scholar 

  • Harrison RG, Larson EL (2014) Hybridization, introgression, and nature of species boundaries. J Hered 105:795–809

    Article  PubMed  Google Scholar 

  • Hickerson MJ, Meyer CP, Moritz C (2006) DNA barcoding will often fail to discover new animal species over broad parameter space. Syst Biol 55:729–739

    Article  PubMed  Google Scholar 

  • Jacoby A (2003) Genetic variability in the Solanum nigrum complex and related species in South Africa. University of the free state Bloemfontein, Bloemfontein, Doctor of Philosophy

    Google Scholar 

  • Johnston EC, Forsman ZH, Flot JF, Schmidt-Roach S, Pinzón JH, Knapp IS, Toonen RJ (2017) A genomic glance through the fog of plasticity and diversification in Pocillopora. Sci Rep 2017(7):5991

    Article  ADS  Google Scholar 

  • Joly S, Bruneau A (2007) Delimiting Species Boundaries in Rosa Sect. Cinnamomeae (Rosaceae) in Eastern North America. Syst Bot 32:819–836. https://doi.org/10.1043/06-69.1

    Article  Google Scholar 

  • Knapp S (2001) Is morphology dead in the Solanum taxonomy? In: van den Berg RG, Barendse GWM, van der Weerden GM, Mariani C (ed.) Solanaceae V: Advances in Taxonomy and Utilization. University Press, Nijmegen.

  • Labate AJ and Robertson LD (2012) Evidence of cryptic introgression in tomato (Solanum lycopersicum L.) based on wild tomato species alleles. BMC Plant Biology 2012, 12:133 http://www.biomedcentral.com/1471-2229/12/133.

  • Larson EL, White TA, Ross C, Harrison RG (2014) Gene flow and the maintenance of species boundaries. Mol Ecol 23:1668–1678

    Article  PubMed  Google Scholar 

  • Lopez-Camal A, Tovar-Sanchez E (2014) Genetic, morphological and chemical pattern of plant hybridization. Rev Chil De Hist Nat 87:16

    Article  Google Scholar 

  • Lorenz-Lemke AP, Mäder G, Muschner VC, Stehmann JR, Bonatto SL, Salzano FM, Freita LB (2006) Diversity and natural hybridization in a highly endemic species of Petunia (Solanaceae): a molecular and ecological analysis. Mol Ecol 15:4487–4497

    Article  CAS  PubMed  Google Scholar 

  • Mallet J (2005) Hybridization as an invasion of the genome. Trends Ecol Evol 20(5):229–237. https://doi.org/10.1016/j.tree.2005.02.010

    Article  PubMed  Google Scholar 

  • Mallet J (2008) Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation. Philos. Trans. Royal Soc. Series b, Biological Sciences 363:2971–2986. https://doi.org/10.1098/rstb.2008.0081

    Article  Google Scholar 

  • Manoko MLK (2018) The power of coefficients and methods of coding in delimiting species using phenetic approach: the case of African Solanum section Solanum sensu Edmonds. Tanz J Sci 44(1):37–51

    Google Scholar 

  • Manoko MLK, van den Berg RG, Feron RMC, van der Weerden GM, Mariani C (2007) AFLP markers support separation of Solanum nodiflorum from Solanum americanum sensu stricto (Solanaceae). Plant Syst Evol 267:1–11

    Article  Google Scholar 

  • Manoko MLK, van der Weerden GM, van den Berg RG, Mariani C (2012) A new tetraploid species of Solanum sect. Solanum (Solanaceae) from Tanzania. PhytoKeys: 16,65–74. DOI: https://doi.org/10.3897/phytokeys.16.2884.

  • Manoko MLK (2007) A systematic study of African Solanum L. section Solanum (Solanaceae). PhD. Thesis, The Netherlands.

  • Marques I, Loureiro J, Draper D, Castro M, S. Castro S, (2018) How much do we know about the frequency of hybridisation and polyploidy in the Mediterranean region? Plant Biology Special Issue 20(S1):21–37

    Google Scholar 

  • McFadden CS, Haverkort-Yeh R, Reynolds AM, Halàsz A, Quattrini AM, Forsman ZH, Toonen RJ (2017) Species boundaries in the absence of morphological ecological or geographical differentiation in the Red Sea octocoral genus Ovabunda (Alcyonacea: Xeniidae). Mol Phylogenet Evol 112:174–184

    Article  PubMed  Google Scholar 

  • Miller JT and Spooner DM (1996) Introgression of Solanum chacoense (Solanum sect. Petota): Upland populations reexamined. Syst. Bot. 28(4):461–475.

  • Mra´z P, Chrtek J, Fehrer J. (2011) Interspecific hybridization in the genus Hieracium s. str.: evidence for bidirectional gene flow and spontaneous allopolyploidization. Plant Syst Evol 293:237–245. https://doi.org/10.1007/s00606-011-0441-3

    Article  Google Scholar 

  • Mwai GM, Schippers RR (2004) Solanum tarderemotum Bitter. In: Grubben GJH, Denton OA (eds) Plant Resources of Tropical Africa 2. PROTA Foundation, Wageningen, Netherlands, Backhuys Publishers, Leiden, Netherlands /CTA Wageningen, Netherlands, Vegetables, pp 498–501

    Google Scholar 

  • Naciri YH and Linder P (2015) Species delimitation and relationships: The dance of the seven veils. Taxon 64:3–16. https://doi.org/10.12705/641.24.

  • Nadeau NJ, Martin SH, Kozak KM, Salazar C, Dasmahapatra KK, Davey JW, Baxter SW, Mallet BML, J, Jiggins CD, (2013) Genome-wide patterns of divergence and gene flow across a butterfly radiation. Mol Ecol 22:814–826

    Article  CAS  PubMed  Google Scholar 

  • Nicholls JA, Challis RJ, Mutun SMutun GA. (2012) Mitochondrial barcodes are diagnostic of shared refugia but not species in hybridizing oak gallwasps. Mol Ecol 21(16):4051–4062. https://doi.org/10.1111/j.1365-294X.2012.05683.x

    Article  PubMed  Google Scholar 

  • Olet EA (2004) Taxonomy of Solanum L. section Solanum in Uganda PhD thesis, Agricultural University of Norway.

  • Paris CA, Wagner FS, Wagner WH Jr (1989) Cryptic Species, Species Delimitation, and Taxonomic Practice in the Homosporous Ferns. Am Fern J 79(2):46–54

    Article  Google Scholar 

  • Pooler MR, Riedel LGH, Bentz SE, Townsend AM (2002) Molecular markers used to verify interspecific Hybridization between Hemlock (Tsuga) species. J Am Soc Hortic 127:623–627

    Article  CAS  Google Scholar 

  • Rademaker JL, Hoste B, Louws FJ, Kersters K, Swings J, Vauterin L, Vauterin P, de Bruijn FJ (2000) Comparison of AFLP and rep-PCR genomic fingerprinting with DNA-DNA homology studies: Xanthomonas as a model system. Int J Syst Evol Microbiol 50(2):665–677. https://doi.org/10.1099/00207713-50-2-665

    Article  CAS  PubMed  Google Scholar 

  • Reck-Kortmann MG, Mäder G, Rodrigues LA, Ruas CF, Freitas LB (2017) AFLP markers contribute to species delimitation and evolutionary understanding of the recent genus Petunia (Solanaceae). Bot J Linn 183:413–428. https://doi.org/10.1093/botlinnean/bow015

    Article  Google Scholar 

  • Rieseberg LH (1997) Hybrid origins of plant species. Annu Rev Ecol Evol Syst 28:359–389

    Article  Google Scholar 

  • Rodionov AV, Amosova EA, Zhurbenko PM, Mikhailova YV, Punina EO, Shneyer VS, Loskutov IG, Muravenko OV (2019) Genetic Consequences of interspecific hybridization, its role in speciation and phenotypic diversity of Plants. Russ J Genet 55:278–294

    Article  CAS  Google Scholar 

  • Santos CAF, Simon PW (2002) Some AFLP amplicons are highly conserved DNA sequences mapping to the same linkage groups in two F2 populations of carrot. Genet Mol Biol 25:195–201

    Article  CAS  Google Scholar 

  • Särkinen T, Poczai P, Barboza GE, van der Weerden GM, Baden M, Knapp S (2018) A revision of the Old World Black Nightshades (Morelloid clade of Solanum L., Solanaceae) PhytoKeys 106:1–223 (2018) doi: https://doi.org/10.3897/phytokeys.106.2199.

  • Schippers RR (2004) Légumes Africains Indigènes: Présentation des espèces cultivées. Margraf Publishers GmbH, Scientific books, Weikersheim

    Google Scholar 

  • Schnittler M, Horn K, Kaufmann R, Rimgailė-Voicik R, Klahr A, Bog M, Fuchs J, Bennerte HW (2019) Genetic diversity and hybrid formation in Central European club-mosses (Diphasiastrum, Lycopodiaceae) – New insights from cp microsatellites, two nuclear markers and AFLP. Mol Phylogenet Evol 131:181–192

    Article  CAS  PubMed  Google Scholar 

  • Schulte K, Silvestro D, Kiehlmann E, Vesely S, Novoa P, Zizka G (2010) Detection of recent hybridization between sympatric Chilean Puya species (Bromeliaceae) using AFLP markers and reconstruction of complex relationships. Mol Phylogenet Evol 57(3):1105–1119

    Article  CAS  PubMed  Google Scholar 

  • Shasany AK, Darokar MP, Dhawan S, Gupta AK, Gupta S, Shukla AK, Patra NK, Khanuja SP (2005) Use of RAPD and AFLP markers to identify inter- and intraspecific hybrids of Mentha. J Hered 96(5):542–549. https://doi.org/10.1093/jhered/esi091. (Epub 2005 Aug 31 PMID: 16135712)

    Article  CAS  PubMed  Google Scholar 

  • Soltis PS, Soltis DE (2009) The Role of Hybridization in Plant Speciation. Annu Rev Plant Biol 60:561–588. https://doi.org/10.1146/annurev.arplant.043008.092039

    Article  CAS  PubMed  Google Scholar 

  • Spooner DM (2016) Species delimitations in plants: lessons learned from potato taxonomy by a practicing taxonomist. J Syst Evol 54(3):191–203

    Article  Google Scholar 

  • Spooner DM, van den Berg RG (1992) An analysis of recent taxonomic concepts in wild potatoes (Solarium sect. Petota). Genet Resour Crop Evol 39:23–37

    Article  Google Scholar 

  • Tu VT, Hassanin A, Furey NM, Son NT, Csorba G (2018) Four species in one: multigene analyses reveal phylogenetic patterns within Hardwicke’s woolly bat, Kerivoula hardwickii-complex (Chiroptera, Vespertilionidae) in Asia. Hystrix It J Mamm 29:111–121

    Google Scholar 

  • Turchetto C, Schintzler CK, Freitas LB (2019) Species boundaries and extensive hybridization and introgression in Petunia. Acta Bot Brasilica. https://doi.org/10.1590/0102-33062019abb0124

    Article  Google Scholar 

  • Turland NJ, Wiersema JH, Barrie FR, Greuter W, Hawksworth DL, Herendeen PS, Knapp S, Kusber WH, Li DZ, Marhold K, May TW, McNeill J, Monro AM, Prado J, Price MJ, Smith GF (eds.) 2018. International Code of Nomenclature for algae, fungi, and plants (Shenzhen Code) adopted by the Nineteenth International Botanical Congress Shenzhen, China, July 2017. Regnum Vegetabile 159. Glashütten: Koeltz Botanical Books. DOI https://doi.org/10.12705/Code.2018.

  • Uthicke S, Purcell S, Blockmans B (2005) Natural hybridization does not dissolve species boundaries in commercially important sea cucumbers. Biol J Linn Soc 85:261–270

    Article  Google Scholar 

  • Valencia-Montoya WA, Elfekih S, North HL, Meier JI, Warren IA, Tay WT, Gordon KHJ, Specht A, Paula-Moraes SV, Rane R, Walsh TK, Jiggins CD (2019). Adaptive Introgression across Semipermeable Species Boundaries between Local Helicoverpa Zea and Invasive Helicoverpa Armigera Moths. https://doi.org/10.1101/2019.12.15.877225

    Article  Google Scholar 

  • Van droogenbroeck B, Kyndt T, Romeijn-peeters E, Van thuyne W, Goetghebeur P, Romero- Vasconcellea Species (Caricaceae) from Southern Ecuador Revealed by Chloroplast, Mitochondrial and Nuclear DNA Markers. Annals of Botany 97:793–805. doi: https://doi.org/10.1093/aob/mcl038.

  • Vela D, Guerreiro MPG, Fontdevila A (2011) Adaptation of the AFLP technique as a new tool to detect genetic instability and transposition in interspecific hybrids. Biotechnique 50:4 Reports https://doi.org/10.2144/000113655.

  • Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407–4414

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Waugh R, Bonar N, Baird E, Bhomas B, Graner A, Hayes P, Powell W (1997) Homology of AFLP products in three mapping populations of barley. Mol Gen Genet 255:311–321

    Article  CAS  PubMed  Google Scholar 

  • Weber AA, Stöhr S, Species AC (2017) Delimitation in the presence of strong incomplete lineage sorting and hybridization. BioRxiv. https://doi.org/10.1101/240218

    Article  Google Scholar 

  • Weese T, Bohs L (2007) A three-gene phylogeny of the genus Solanum (Solanaceae). Syst Bot 33:445–463. https://doi.org/10.1600/036364407781179671

    Article  Google Scholar 

  • Whitney KD, Ahern JR, Campbell LG, Albert LP, King MS (2010) Patterns of hybridization in plants. Perspect Plant Ecol Evol Syst 12(3):175–182. https://doi.org/10.1016/j.ppees.2010.02.002

    Article  Google Scholar 

  • Zhao YF, Ma ZX, Xie WG, Huang LK (2014) Morphology and genetic characteristics of hybrid combinations of Dactylis glomerata. Genet Mol Res 13:2491–2503

    Article  CAS  PubMed  Google Scholar 

  • Zhou YF, Abbott RJ, Jiang YZ, Du FK, Mil RI (2010) Gene flow and species delimitation: a case study of two pine species with overlapping distributions in southeast China. Evolution 64:2342–2352

    CAS  PubMed  Google Scholar 

Download references

Acknowledgements

My sincere thanks to ENVIRON Project conducted between University of Dar es Salaam and Radboud University Nijmegen for supporting the study. Richard Feron a Techncian at Experiemntal Botany Laboratory asisited with AFLP analysis.

Funding

The author Declare that data for this publication was generated during a PhD study that was supported by a project conducted between the University of Dar es Salaam and Radboud University Nijmegen.

Author information

Authors and Affiliations

Authors

Contributions

I am the sole author of the publication. A person who assited with PCR  is thanked.

Corresponding author

Correspondence to Mkabwa L. K. Manoko.

Ethics declarations

Competing interests

As the sole author I declare to have no relevant financial or non financial interts to disclose.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Rights and permissions

Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Manoko, M.L.K. Use of AFLPs to detect hybrids that confuse species boundaries between the lesser known African taxa in Solanum Merolloids section (Solanaceae). Genet Resour Crop Evol 71, 1113–1123 (2024). https://doi.org/10.1007/s10722-023-01680-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10722-023-01680-y

Keywords

Navigation