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Genetic diversity among local mango (Mangifera indica L.) germplasm using morphological, biochemical and chloroplast DNA barcodes analyses

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Abstract

Background

In this study, the genetic diversity of local mango (Mangifera indica L.) germplasm including 14 genotypes were evaluated by using morphological, biochemical markers and DNA barcoding technique. Morphological characterization is the first step towards utilizing these germplasm in crop improvement studies. The advanced chloroplast based DNA barcode method can be utilized to assess the genetic diversity and phylogenetic structure in such populations.

Methods

The study was carried out during 2018–2019 years to evaluate local mango germplasm including 14 diverse genotypes based on a number of morphological and biochemical traits and chloroplast DNA barcoding as well. The experiment was laid out in one way ANOVA design with fourteen germplasm indicated with indigenous collection number.

Results

Among local mango germplasm, IC 589756 was found to be the most promising with respect to high magnitudes of fruit length, fruit width, fruit weight, pulp weight, soluble solid content (SSC)/Acidity ratio, pH and low acidity followed by IC 589746 exhibiting the highest pulp percentage and SSC accompanied with lowest stone weight and stone percent as compared to the other genotypes. Further, the dendrogram and cluster analyses based on sequencing of chloroplast marker i.e., trnH- psbA and trnCD depicted the relationship among mango genotypes and clearly clustered them into two main clusters at a similarity coefficient 0.035 and 0.150, respectively. The first cluster includes only one genotype and cluster-II contains 13 genotypes.

Conclusions

Particularly results revealed that DNA barcoding of local mango germplasm can assist not only in molecular identification but also help in elucidation of their phylogenetic relationship and thus important in maintaining biodiversity inventories.

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Data availability

The data that support the findings of this study are available from the first author, [SA], upon reasonable request. The mango germplasm used in the study may be obtained from ARS, Banswara, MPUAT, upon reasonable request.

Abbreviations

IC:

Indigenous collection

SSC:

Soluble Solid Content

BLAST:

Basic local alignment search tool

MEGA:

Molecular Evolutionary Genetic Analysis

UPGMA:

Unweighted pair group method with arithmetic mean

References

  1. Ahmad R, Anjum MA, Malik W (2019) Characterization and evaluation of mango germplasm through morphological, biochemical, and molecular markers focusing on fruit production: an overview. Mol Biotechnol 61(8):631. https://doi.org/10.1007/s12033-018-0129-9

    Article  CAS  PubMed  Google Scholar 

  2. Zhang C, Xie D, Bai T, Luo X, Zhang F, Ni Z, Chen Y (2020) Diversity of a large collection of natural populations of mango (Mangifera indica Linn.) revealed by agro-morphological and quality traits. Diversity 12:1–17. https://doi.org/10.3390/d12010027

    Article  Google Scholar 

  3. Huang CY, Kuo CH, Wu CH, Kuan AW, Guo HR, Lin YH, Wang PK (2018) Free radical scavenging, anti-inflammatory, and antibacterial activities of water and ethanol extracts prepared from compressional puffing pretreated mango (Mangifera indica L.) peels. J Food Qual. https://doi.org/10.1155/2018/1025387

    Article  Google Scholar 

  4. Chen QB (2013) Perspectives on the mango industry in mainland China. In: Proceedings of the IX International Mango Symposium, Sanya, China, pp 25–36

  5. Normand F, Lauri P, Legave JM (2015) Climate change and its probable effects on mango production and cultivation. Acta Hortic. 1075:21–32. https://doi.org/10.17660/ActaHortic.2015.1075.1

    Article  Google Scholar 

  6. Gecer MK, Ozkan G, Sagbas HI, Ilhan G, Gundogdu M, Ercisli S (2020) Some Important Horticultural Properties of Summer Apple Genotypes from Coruh Valley in Turkey. Int J Fruit Sci 20:S1406–S1416. https://doi.org/10.1080/15538362.2020.1796888

    Article  Google Scholar 

  7. Skender A, Kurtovic M, Drkenda P, Becirspahic D, Ebrahimi A (2020) Phenotypic variability of autochthonous walnut (Juglans regia L.) genotypes in northwestern Bosnia and Herzegovina. Turk J Agric For 44:517–525. https://doi.org/10.3906/tar-1902-59

    Article  Google Scholar 

  8. Kyaing MS, Soe ANY, Myint MM, Htway HTP, Yi KP, Phyo SSM, Hlaing NNS (2019) Morphological and molecular analysis of Indigenous Myanmar mango (Mangifera indica L.) land races around Kyaukse district. J Plant Biotechnol 46:61–70. https://doi.org/10.5010/JPB.2019.46.2.061

    Article  Google Scholar 

  9. Karihaloo JL, Dwivedi YK, Archak S, Gaikwad AB (2003) Analysis of genetic diversity of Indian mango cultivars using RAPD markers. J Hortic Sci Biotech 78:285–289. https://doi.org/10.1080/14620316.2003.11511619

    Article  CAS  Google Scholar 

  10. Kashkush K, Jinggui F, Tomer E, Hillel J, Lavi U (2001) Cultivar identification and genetic map of mango (Mangifera indica). Euphytica 122:129–136. https://doi.org/10.1023/A:1012646331258

    Article  CAS  Google Scholar 

  11. Sagar SP, Sirsha M, Ashok PG, Keshav HP, Bhimarao PP, Narayan DJ, Vidya SG (2007) Genetic diversity analysis of mango cultivars using inter simple sequence repeat markers. Curr Sci 93:1135–1141 www.jstor.org/stable/24099175

  12. Dillon NL, Bally ISE, Wright CL, Hucks L, Innes DJ, Dietzgen RG (2013) Genetic diversity of the Australian national mango genebank. Scientia Hort 150:213–226. https://doi.org/10.1016/j.scienta.2012.11.003

    Article  Google Scholar 

  13. Ravishankar KV, Mani BH, Anand L, Dinesh MR (2011) Development of new microsatellite markers from mango (Mangifera indica) and cross-species amplification. Am J Bot 98(4):96–99. https://doi.org/10.3732/ajb.1000263

    Article  Google Scholar 

  14. Sherman A, Rubinstein M, Eshed R, Benita M, Ish-Shalom M, Sharabi-Schwager M, Rozen A, Saada D, Cohen Y, Ophir R (2015) Mango (Mangifera indica L.) germplasm diversity based on single nucleotide polymorphisms derived from the transcriptome. BMC Plant Biol 15:277. https://doi.org/10.1186/s12870-015-0663-6

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Loera-Sánchez M, Studer B, Kölliker R (2020) DNA barcode trnH-psbA is a promising candidate for efficient identification of forage legumes and grasses. BMC Res Notes 13:35. https://doi.org/10.1186/s13104-020-4897-5

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  16. Kaur G, Joshi A, Jain D, Choudhary R, Vyas D (2016) Diversity analysis of green gram (Vigna radiata (L.)) through morphological and molecular markers. Turk J Agric For 40:229–240. https://doi.org/10.3906/tar-1508-59

    Article  Google Scholar 

  17. Dwivedi SL, Ceccarelli S, Blair MW, Upadhyaya HD, Are AK, Ortiz R (2016) Landrace germplasm for improving yield and abiotic stress adaptation. Trends Plant Sci 21:31–42. https://doi.org/10.1016/j.tplants.2015.10.012

    Article  CAS  PubMed  Google Scholar 

  18. Sennhenn A, Prinz K, Gebauer J, Whitbread A, Jamnadass R, Kehlenbeck K (2014) Identification of mango (Mangifera indica L.) landraces from Eastern and Central Kenya using a morphological and molecular approach. Genet Resour Crop Evol 61:7–22. https://doi.org/10.1007/s10722-013-0012-2

    Article  Google Scholar 

  19. IPGRI 2006 Descriptors for Mango (Mangifera indica L.). International Plant Genetic Resources Institute, Rome, Italy, pp 36–44.

  20. AOAC 1995 Official method of analysis of Association of Official Analytic Chemist, Washington, DC 16:37.

  21. Rohlf FJ (2004) NTSYS-pc.Numerical taxonomy andmultivariateanalysissystem.Exeter software, Setauket.

  22. Kang Y, Deng Z, Zang R, Long W (2017) DNA barcoding analysis and phylogenetic relationships of tree species in tropical cloud forests. Sci Rep 7:12564. https://doi.org/10.1038/s41598-017-13057-0

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  23. Mantel NA (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27:209–220

    CAS  PubMed  Google Scholar 

  24. Rajwana IA, Khan IA, Malik AU, Saleem BA, Khan AS, Ziaf K, Anwar R, Amin M (2011) Morphological and biochemical markers for varietal characterization and quality assessment of potential indigenous mango (Mangifera indica) germplasm. Int J AgricBiol 13(2):151–158

    Google Scholar 

  25. Anu A, Prasad BD, Kumar R, Kumar P, Patel V, Jha RN (2015) Clonal variabilitystudies in ‘langra’ mango (Mangifera indica L.) using morphological, biochemical and molecular markers. Int J Agric Environ Biotechnol 8(3):567–581. https://doi.org/10.5958/2230-732X.2015.00063.7

    Article  Google Scholar 

  26. Jilani MS, Bibi F, Waseem K, Khan MA (2010) Evaluation of physico-chemicalcharacteristics of mango (Mangifera indica L.) cultivars grown in DI KHAN. J Agric Res 48(2):201–207

    Google Scholar 

  27. Bhamini K, Kumar A, Jaiswal US, Ahmad Md, Rani R (2018) Morphological characterization of mango (Mangifera indica L.) germplasm using DUS testing. Int J Curr Microbiol Appl Sci 7:2944–2959. https://doi.org/10.20546/ijcmas.2018.705.343

    Article  CAS  Google Scholar 

  28. Gupta RK, Brahmachari VS (2004) Effect of foliar application of urea, potassium nitrate and NAA on fruit retention, yield and quality of mango cv. Bombai Orissa J Hort 32(2):7–9

    Google Scholar 

  29. Anila R, Radha T (2003) Physico-chemicalanalysis of mango varieties under Kerala conditions. J Trop Agric 41:20–22

    Google Scholar 

  30. Singh B, Jain D, Joshi A, Namrata DNS, Chauhan S, Mittal J, Singh A (2020) Molecular diversity analysis and metabolic profiling of seed oil in Lepidium sativum L. genotype. Plant Mol Biol Rep 38:641–654. https://doi.org/10.1007/s11105-020-01223-0

    Article  CAS  Google Scholar 

  31. Paliwal P, Jain D, Joshi A, Ameta KD, Chaudhary R, Singh A (2020) Diversity analysis of sweet potato (Ipomoea batatas [L.] Lam) genotypes using morphological, biochemical and molecular markers. Indian J Exp Biol 58: 276–285. http://nopr.niscair.res.in/handle/123456789/54257

  32. Liu E, Yang C, Liu J, Jin S, Harijati N, Hu Z, Diao Y, Zhao L (2019) Comparative analysis of complete chloroplast genome sequences of four major Amorphophallus species. Sci Rep 9(1):809. https://doi.org/10.1038/s41598-018-37456-z

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  33. Gao Y, Yin S, Yang H, Wu L, Yan Y (2017) Genetic diversity and phylogenetic relationships of seven Amorphophallus species in southwestern China revealed by chloroplast DNA sequences. Mitochondrial DNA Part A 29(5):679–686. https://doi.org/10.1080/24701394.2017.1350855

    Article  CAS  Google Scholar 

  34. Lee SJ, Shin YW, Lee SW (2017) Molecular markers based on chloroplast and nuclear ribosomal DNA regions which distinguish Korean-specific ecotypes of the medicinal plant Cudrania tricuspidata Bureau. J Plant Biotechnol 44(3):235–242. https://doi.org/10.5010/JPB.2017.44.3.235

    Article  Google Scholar 

  35. Rungis D, Laivins M, Gailite A, Korica A, Lazdina D, Skipars V, Veinberga I (2017) Genetic analysis of Latvian Salix albaL and hybrid populations using nuclear and chloroplast DNA markers. iForest 10:422–429. https://doi.org/10.3832/ifor2004-009

    Article  Google Scholar 

Download references

Acknowledgements

The authors are highly thankful to the Agricultural Research Station, Banswara (Rajasthan) for mango germplasm.

Author information

Authors and Affiliations

  1. Department of Horticulture, Rajasthan College of Agriculture, Maharana Pratap University of Agriculture and Technology, Udaipur, Rajasthan, 313001, India

    Sanjay Kumar & Ram Avtar Kaushik

  2. Department of Molecular Biology and Biotechnology, Rajasthan College of Agriculture, Maharana Pratap University of Agriculture and Technology, Udaipur, Rajasthan, 313001, India

    Devendra Jain

  3. College of Fisheries, Maharana Pratap University of Agriculture and Technology, Udaipur, Rajasthan, 313001, India

    Ved Prakash Saini

  4. Department of Entomology, Rajasthan College of Agriculture, Maharana Pratap University of Agriculture and Technology, Udaipur, Rajasthan, 313001, India

    S. Ramesh Babu

  5. Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi, 110012, India

    Ravish Choudhary

  6. Department of Horticulture, Agricultural Faculty, Ataturk University, 25240, Erzurum, Turkey

    Sezai Ercisli

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  1. Sanjay Kumar
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Contributions

SA, RAK, DJ and RB wrote the manuscript and interpreted the data. RAK and DJ designed the methodology of the research. VPS and RC helped in the interpreted the data and performed the statistical analysis. VPS helped in the methodology and provided the technical support for designing and conducting research. SE proofreaded the Ms.

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Correspondence to Devendra Jain.

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Kumar, S., Kaushik, R.A., Jain, D. et al. Genetic diversity among local mango (Mangifera indica L.) germplasm using morphological, biochemical and chloroplast DNA barcodes analyses. Mol Biol Rep 49, 3491–3501 (2022). https://doi.org/10.1007/s11033-022-07186-7

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