:: Volume 7, Issue 1 (Spring and Summer 2022) ::
FOP 2022, 7(1): 13-26 Back to browse issues page
Investigation of the relationship between Honeysuckle species (Lonicera spp.) in Iran using DNA barcoding and morphological markers
Najmeh Fattahi Dehkordi , Masoud Ghaemi Ghehsareh * , Behrooz Shiran
Shahrekord University
Abstract:   (1418 Views)
The genus Lonicera belongs to the Caprifoliaceae and in Persian, it is called Plakhor, Shung, or Honeysuckle. Understanding inter-species relationships based on morphological and biochemical characteristics sometimes have conflicting results. In this study, morphological markers, and DNA of nuclear and chloroplast barcodes (including ITS and matK) along with several other sequences from NCBI gene bank database were used to identify, differentiate and determine the phylogenetic relationships of 12 Lonicera species in Iran. Genomic DNA was extracted using existing kits and PCR reaction was performed to amplify the two gene regions and finally the purified samples were sequenced. Cluster analysis based on morphological characteristics divided the species into two large groups, the first group consisting of L. sempervirens and the second group consisting of 11 other species. The closest genetic relationship was observed between L. floribunda and L. nummulariifolia and the least similarity was related to L. sempervirens and L. caprifolium. Principle component analysis (PCAs) of morphological data showed that the first three principal components explaining 71.1% of total variation. The first principal component is controlled by fluffy stem cover, leaflet shape, leaf margin, leaflet tip shape, flower color, fluffy leaf cover, leaf base and fruit color, petiole length and internode distance explaining 38.8% of variation. Based on molecular studies, the length of the matK region was about 1110-1135 nucleotides. Parsimony analysis of this area showed 944 protected sites, 109 variable sites and 19 Parsimony sites. In the phylogenetic tree created by the matK region, all species were isolated except two species, L. korolkovii and L. maackii, and were placed in separate branches. The genetic diversity and distance between species were observed in the matK region with a genetic distance of 0.00 to 0.057. This study could not provide a satisfactory answer from ITS primers. Therefore, the matK region was identified as the best region in terms of the ability to show genetic diversity between species due to its maximum diversity and easy reproduction, which can be used in future research.
Keywords: Morphological marker, Barcode regions, Molecular phylogeny, Lonicera, matK
Full-Text [PDF 1021 kb]   (180 Downloads)    
Type of Study: Research | Subject: Special
Received: 2022/02/22 | Accepted: 2022/04/7 | Published: 2022/09/30
References
1. Alian, M. (2013). Phylogenetic analysis of Stachys L. species in Central Zagros region of Iran using sequencing of ribosomal ITS DNA ITS trnL-trnF chloroplasts. PhD Thesis, University of Shahrekord, Iran. (In Persian).
2. Arzanlo, M., Dokhanchi, H., Davari, M., Khodaveisi, S., Badali, H. (2013). DNA Barcoding: New Horizons in Molecular Identification of Pathogenic Fungi (Review Article). Journal of Kurdistan University of Medical Sciences, 18, 113-126 (In Persian).
3. Castro, C., Hernandez, A., Alvarado, L., Flores, D. (2015). DNA barcodes in fig cultivars (Ficus carcia) uses ITS regions of ribosomal DNA, the trnH-psbA spacer and the matK coding sequence. American Jonrual of Plant Sciences, 6(01), 95-102. [DOI:10.4236/ajps.2015.61011]
4. Chen, W.C., Liou, S.S., Tzeng, T.F., Lee, S.L., Liu, I.M. (2012). Wound repair and anti-inflammatory potential of Lonicera japonica in excision wound induced rats. BMC Complementary and Alternative Medicine, 12(1), 1-9. [DOI:10.1186/1472-6882-12-226]
5. Desalle, R.O.B. (2006). Species discovery versus species identification in DNA barcoding efforts: response to Rubinoff. Conservation Biology, 20(5), 1545- 547. [DOI:10.1111/j.1523-1739.2006.00543.x]
6. Drabkova, L., Kirschner, J., Vlček, Č., Pačes, V. (2004). TrnL-trnF intergenic spacer and trnL intron define major clades within Luzula and Juncus (Juncaceae): importance of structural mutations. Journal of Molecular Evolution, 59(1), 1-10. [DOI:10.1007/s00239-004-2598-7]
7. Dunning, L.T., Savolainen, V. (2010). Broad-scale amplification of matK for DNA barcoding. Botanical Journal of the Linnean Society, 164(1), 1-9. [DOI:10.1111/j.1095-8339.2010.01071.x]
8. Fatahi, N., Ghasemi ghehsare, M., Shiran, B., Siampoor, M. (2021). The investigation of chloroplast marker psbA-trnH and trnL-F in determining the relationships between species of Lonicera spp. In: Third International and Fourth National Congress of Flowers and Ornamental Plants of Iran. (In Persian).
9. Feng, S., Jing, Y., Wang, S., Jiang, M., Chen, Z., Ying, Q., Wang, H. (2015). Molecular identification of Dendrobium species (Orchidaceae) based on the DNA barcode ITS2 region and its application for phylogenetic study. International Journal of Molecular Sciences, 16(9), 21975-21988. [DOI:10.3390/ijms160921975]
10. Ghasemi Ghehsareh, M., Kafi, M. (2015). Scientific and Practical Floriculture. Moallef Press. 296p. (In Persian).
11. Hajibabaei, M., Singer, G.A., Hebert, P.D., Hickey, D.A. (2007). DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trend in Genetics, 23(4), 167-172. [DOI:10.1016/j.tig.2007.02.001]
12. Hebert, P.D., Ratnasingham, S., De Waard, J.R. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Biological Sciences, 270, 96-99. [DOI:10.1098/rsbl.2003.0025]
13. Hong-Jin, D.O.N.G., Hua, P.E.N.G. (2014). Relationships within the Lonicera macrantha complex based on morphological and molecular data. Plant Diversity and Resources, 36(2), 133-142.
14. Ipek, M., Ipek, A., Simon, P.W. (2014). Testing the utility of matK and ITS DNA regions for discrimination of Allium species. Turkish Journal Botanical, 38(2), 203-212. [DOI:10.3906/bot-1308-46]
15. Jalili, S., Hamdi, S.M.M., Oraghiardebili, Z. (2017) Anatomical characteristics of the leaves and stems of 9 species of the genus Lonicera from Caprifoliaceae family in Iran. Journal of Plant Research (Iranian Journal of Biology), 29(4), 751-765. (In Persian).
16. Johnson, L. A., Chan, L. M. Weese, Weese, L. D., Mcmurry, S. (2008). Nuclear and cpDNA sequences combined provide strong inference of higher phylogenetic relationships in the phlox family (Polemoniaceae). Molecular Phylogenetics and Evolution, 48(3), 997-1012. [DOI:10.1016/j.ympev.2008.05.036]
17. Hartmann, H. T., Kester, D. E. (2011). Hartmann and Kester's Plant Propagation: Principles and Practices. Pearson Prentice Hall. 922p.
18. Khatamsaz, M. (1995). Flora of Iran, No. 13, Caprifiliaceae. Research Instutute og Forest and Rangelands. 32p. (In Persian).
19. Kovach, W. L. (1999). MVSP-A multivariate statistical Package for Windows, ver. 3.1. Kovach Computing Services, Pentraeth, Wales, UK. 137p.
20. Lahaye, R., Van der Bank, M., Bogarin, D., Warner, J., Pupulin, F., Gigot, G., Maurin, O., Duthoit, S., Barraclough, T.G., Savolainen, V. (2008). DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences, 105(8), 2923-2928. [DOI:10.1073/pnas.0709936105]
21. Mabberley, D.J. (2008). Mabberley's Plant-book: A Portable Dictionary of Plants, their Classification and Uses. Cambridge University Press. 1040P.
22. Pang, X., Song, J. Zhu, Y., Xie, C., Chen, S. (2010). Using DNA barcoding to identify species within euphorbiaceae. Planta Medica, 76(15), 1784-1786. [DOI:10.1055/s-0030-1249806]
23. Qing Ren, B., Guo xiang, X., Duan chen, Z. (2010). Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources, 10(4), 594-605. [DOI:10.1111/j.1755-0998.2009.02815.x]
24. Schöttler, M.A., Flügel, C., Thiele, W., Stegemann, S., Bock, R. (2007). The plastome-encoded PsaJ subunit is required for efficient photosystem I excitation, but not for plastocyanin oxidation in tobacco. Biochemical Journal, 403(2), 251-260. [DOI:10.1042/BJ20061573]
25. Sun, Z., Gao, T. Yao, H., Shi, L., Zhu. Y., Chen, S. (2011). Identification of Lonicera japonica and its related species using the DNA barcoding method. Planta Medica, 77(03), 301-306 [DOI:10.1055/s-0030-1250324]
26. Taberlet, P., Coissac, E., Pompanon, F., Gielly, L. Miquel, C. (2007). Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Research, 35(3), 3-14. [DOI:10.1093/nar/gkl938]
27. Tamura, K., Dudley, J., Nei, M., Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24(8), 1596-1599. [DOI:10.1093/molbev/msm092]
28. Theis, N., Donoghue, M.J., Li, J. (2008). Phylogenetics of the Caprifolieae and Lonicera (Dipsacales) based on nuclear and chloroplast DNA sequences. Systematic Botany, 33(4), 776-783. [DOI:10.1600/036364408786500163]
29. Wang, M., Zhao, H.X., Wang, L., Wang, T., Yang, R.W., Wang, X.L., Zhou, Y.H., Ding, C.B., Zhang, L. (2013). Potential use of DNA barcoding for the identification of Salvia based on cpDNA and nrDNA sequences. Gene, 528(2), 206-215. [DOI:10.1016/j.gene.2013.07.009]
30. White, T.J., Bruns, T., Lee, S., Taylor, J. (1990). Amplification and Direct Sequencing of Fungal Ribosomal RNA Gens for Phylogenetics. In: Innis M.A. et al. (eds.), PCR Protocols: A Guide to Methods and Applications. Academic Press. New York, pp. 315-322 [DOI:10.1016/B978-0-12-372180-8.50042-1]
31. Yao, P.C., Gao, H.Y., Wei, Y.N., Zhang, J.H. Chen, X.Y., Li, H.Q. (2017). Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: a case study for increased sample size. Plos One, 12(9), 0185311. [DOI:10.1371/journal.pone.0185311]
32. Alian, M. (2013). Phylogenetic analysis of Stachys L. species in Central Zagros region of Iran using sequencing of ribosomal ITS DNA ITS trnL-trnF chloroplasts. PhD Thesis, University of Shahrekord, Iran. (In Persian).
33. Arzanlo, M., Dokhanchi, H., Davari, M., Khodaveisi, S., Badali, H. (2013). DNA Barcoding: New Horizons in Molecular Identification of Pathogenic Fungi (Review Article). Journal of Kurdistan University of Medical Sciences, 18, 113-126 (In Persian).
34. Castro, C., Hernandez, A., Alvarado, L., Flores, D. (2015). DNA barcodes in fig cultivars (Ficus carcia) uses ITS regions of ribosomal DNA, the trnH-psbA spacer and the matK coding sequence. American Jonrual of Plant Sciences, 6(01), 95-102. [DOI:10.4236/ajps.2015.61011]
35. Chen, W.C., Liou, S.S., Tzeng, T.F., Lee, S.L., Liu, I.M. (2012). Wound repair and anti-inflammatory potential of Lonicera japonica in excision wound induced rats. BMC Complementary and Alternative Medicine, 12(1), 1-9. [DOI:10.1186/1472-6882-12-226]
36. Desalle, R.O.B. (2006). Species discovery versus species identification in DNA barcoding efforts: response to Rubinoff. Conservation Biology, 20(5), 1545- 547. [DOI:10.1111/j.1523-1739.2006.00543.x]
37. Drabkova, L., Kirschner, J., Vlček, Č., Pačes, V. (2004). TrnL-trnF intergenic spacer and trnL intron define major clades within Luzula and Juncus (Juncaceae): importance of structural mutations. Journal of Molecular Evolution, 59(1), 1-10. [DOI:10.1007/s00239-004-2598-7]
38. Dunning, L.T., Savolainen, V. (2010). Broad-scale amplification of matK for DNA barcoding. Botanical Journal of the Linnean Society, 164(1), 1-9. [DOI:10.1111/j.1095-8339.2010.01071.x]
39. Fatahi, N., Ghasemi ghehsare, M., Shiran, B., Siampoor, M. (2021). The investigation of chloroplast marker psbA-trnH and trnL-F in determining the relationships between species of Lonicera spp. In: Third International and Fourth National Congress of Flowers and Ornamental Plants of Iran. (In Persian).
40. Feng, S., Jing, Y., Wang, S., Jiang, M., Chen, Z., Ying, Q., Wang, H. (2015). Molecular identification of Dendrobium species (Orchidaceae) based on the DNA barcode ITS2 region and its application for phylogenetic study. International Journal of Molecular Sciences, 16(9), 21975-21988. [DOI:10.3390/ijms160921975]
41. Ghasemi Ghehsareh, M., Kafi, M. (2015). Scientific and Practical Floriculture. Moallef Press. 296p. (In Persian).
42. Hajibabaei, M., Singer, G.A., Hebert, P.D., Hickey, D.A. (2007). DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trend in Genetics, 23(4), 167-172. [DOI:10.1016/j.tig.2007.02.001]
43. Hebert, P.D., Ratnasingham, S., De Waard, J.R. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Biological Sciences, 270, 96-99. [DOI:10.1098/rsbl.2003.0025]
44. Hong-Jin, D.O.N.G., Hua, P.E.N.G. (2014). Relationships within the Lonicera macrantha complex based on morphological and molecular data. Plant Diversity and Resources, 36(2), 133-142.
45. Ipek, M., Ipek, A., Simon, P.W. (2014). Testing the utility of matK and ITS DNA regions for discrimination of Allium species. Turkish Journal Botanical, 38(2), 203-212. [DOI:10.3906/bot-1308-46]
46. Jalili, S., Hamdi, S.M.M., Oraghiardebili, Z. (2017) Anatomical characteristics of the leaves and stems of 9 species of the genus Lonicera from Caprifoliaceae family in Iran. Journal of Plant Research (Iranian Journal of Biology), 29(4), 751-765. (In Persian).
47. Johnson, L. A., Chan, L. M. Weese, Weese, L. D., Mcmurry, S. (2008). Nuclear and cpDNA sequences combined provide strong inference of higher phylogenetic relationships in the phlox family (Polemoniaceae). Molecular Phylogenetics and Evolution, 48(3), 997-1012. [DOI:10.1016/j.ympev.2008.05.036]
48. Hartmann, H. T., Kester, D. E. (2011). Hartmann and Kester's Plant Propagation: Principles and Practices. Pearson Prentice Hall. 922p.
49. Khatamsaz, M. (1995). Flora of Iran, No. 13, Caprifiliaceae. Research Instutute og Forest and Rangelands. 32p. (In Persian).
50. Kovach, W. L. (1999). MVSP-A multivariate statistical Package for Windows, ver. 3.1. Kovach Computing Services, Pentraeth, Wales, UK. 137p.
51. Lahaye, R., Van der Bank, M., Bogarin, D., Warner, J., Pupulin, F., Gigot, G., Maurin, O., Duthoit, S., Barraclough, T.G., Savolainen, V. (2008). DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences, 105(8), 2923-2928. [DOI:10.1073/pnas.0709936105]
52. Mabberley, D.J. (2008). Mabberley's Plant-book: A Portable Dictionary of Plants, their Classification and Uses. Cambridge University Press. 1040P.
53. Pang, X., Song, J. Zhu, Y., Xie, C., Chen, S. (2010). Using DNA barcoding to identify species within euphorbiaceae. Planta Medica, 76(15), 1784-1786. [DOI:10.1055/s-0030-1249806]
54. Qing Ren, B., Guo xiang, X., Duan chen, Z. (2010). Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources, 10(4), 594-605. [DOI:10.1111/j.1755-0998.2009.02815.x]
55. Schöttler, M.A., Flügel, C., Thiele, W., Stegemann, S., Bock, R. (2007). The plastome-encoded PsaJ subunit is required for efficient photosystem I excitation, but not for plastocyanin oxidation in tobacco. Biochemical Journal, 403(2), 251-260. [DOI:10.1042/BJ20061573]
56. Sun, Z., Gao, T. Yao, H., Shi, L., Zhu. Y., Chen, S. (2011). Identification of Lonicera japonica and its related species using the DNA barcoding method. Planta Medica, 77(03), 301-306 [DOI:10.1055/s-0030-1250324]
57. Taberlet, P., Coissac, E., Pompanon, F., Gielly, L. Miquel, C. (2007). Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Research, 35(3), 3-14. [DOI:10.1093/nar/gkl938]
58. Tamura, K., Dudley, J., Nei, M., Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24(8), 1596-1599. [DOI:10.1093/molbev/msm092]
59. Theis, N., Donoghue, M.J., Li, J. (2008). Phylogenetics of the Caprifolieae and Lonicera (Dipsacales) based on nuclear and chloroplast DNA sequences. Systematic Botany, 33(4), 776-783. [DOI:10.1600/036364408786500163]
60. Wang, M., Zhao, H.X., Wang, L., Wang, T., Yang, R.W., Wang, X.L., Zhou, Y.H., Ding, C.B., Zhang, L. (2013). Potential use of DNA barcoding for the identification of Salvia based on cpDNA and nrDNA sequences. Gene, 528(2), 206-215. [DOI:10.1016/j.gene.2013.07.009]
61. White, T.J., Bruns, T., Lee, S., Taylor, J. (1990). Amplification and Direct Sequencing of Fungal Ribosomal RNA Gens for Phylogenetics. In: Innis M.A. et al. (eds.), PCR Protocols: A Guide to Methods and Applications. Academic Press. New York, pp. 315-322 [DOI:10.1016/B978-0-12-372180-8.50042-1]
62. Yao, P.C., Gao, H.Y., Wei, Y.N., Zhang, J.H. Chen, X.Y., Li, H.Q. (2017). Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: a case study for increased sample size. Plos One, 12(9), 0185311. [DOI:10.1371/journal.pone.0185311]
63. Alian, M. (2013). Phylogenetic analysis of Stachys L. species in Central Zagros region of Iran using sequencing of ribosomal ITS DNA ITS trnL-trnF chloroplasts. PhD Thesis, University of Shahrekord, Iran. (In Persian).
64. Arzanlo, M., Dokhanchi, H., Davari, M., Khodaveisi, S., Badali, H. (2013). DNA Barcoding: New Horizons in Molecular Identification of Pathogenic Fungi (Review Article). Journal of Kurdistan University of Medical Sciences, 18, 113-126 (In Persian).
65. Castro, C., Hernandez, A., Alvarado, L., Flores, D. (2015). DNA barcodes in fig cultivars (Ficus carcia) uses ITS regions of ribosomal DNA, the trnH-psbA spacer and the matK coding sequence. American Jonrual of Plant Sciences, 6(01), 95-102. [DOI:10.4236/ajps.2015.61011]
66. Chen, W.C., Liou, S.S., Tzeng, T.F., Lee, S.L., Liu, I.M. (2012). Wound repair and anti-inflammatory potential of Lonicera japonica in excision wound induced rats. BMC Complementary and Alternative Medicine, 12(1), 1-9. [DOI:10.1186/1472-6882-12-226]
67. Desalle, R.O.B. (2006). Species discovery versus species identification in DNA barcoding efforts: response to Rubinoff. Conservation Biology, 20(5), 1545- 547. [DOI:10.1111/j.1523-1739.2006.00543.x]
68. Drabkova, L., Kirschner, J., Vlček, Č., Pačes, V. (2004). TrnL-trnF intergenic spacer and trnL intron define major clades within Luzula and Juncus (Juncaceae): importance of structural mutations. Journal of Molecular Evolution, 59(1), 1-10. [DOI:10.1007/s00239-004-2598-7]
69. Dunning, L.T., Savolainen, V. (2010). Broad-scale amplification of matK for DNA barcoding. Botanical Journal of the Linnean Society, 164(1), 1-9. [DOI:10.1111/j.1095-8339.2010.01071.x]
70. Fatahi, N., Ghasemi ghehsare, M., Shiran, B., Siampoor, M. (2021). The investigation of chloroplast marker psbA-trnH and trnL-F in determining the relationships between species of Lonicera spp. In: Third International and Fourth National Congress of Flowers and Ornamental Plants of Iran. (In Persian).
71. Feng, S., Jing, Y., Wang, S., Jiang, M., Chen, Z., Ying, Q., Wang, H. (2015). Molecular identification of Dendrobium species (Orchidaceae) based on the DNA barcode ITS2 region and its application for phylogenetic study. International Journal of Molecular Sciences, 16(9), 21975-21988. [DOI:10.3390/ijms160921975]
72. Ghasemi Ghehsareh, M., Kafi, M. (2015). Scientific and Practical Floriculture. Moallef Press. 296p. (In Persian).
73. Hajibabaei, M., Singer, G.A., Hebert, P.D., Hickey, D.A. (2007). DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trend in Genetics, 23(4), 167-172. [DOI:10.1016/j.tig.2007.02.001]
74. Hebert, P.D., Ratnasingham, S., De Waard, J.R. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Biological Sciences, 270, 96-99. [DOI:10.1098/rsbl.2003.0025]
75. Hong-Jin, D.O.N.G., Hua, P.E.N.G. (2014). Relationships within the Lonicera macrantha complex based on morphological and molecular data. Plant Diversity and Resources, 36(2), 133-142.
76. Ipek, M., Ipek, A., Simon, P.W. (2014). Testing the utility of matK and ITS DNA regions for discrimination of Allium species. Turkish Journal Botanical, 38(2), 203-212. [DOI:10.3906/bot-1308-46]
77. Jalili, S., Hamdi, S.M.M., Oraghiardebili, Z. (2017) Anatomical characteristics of the leaves and stems of 9 species of the genus Lonicera from Caprifoliaceae family in Iran. Journal of Plant Research (Iranian Journal of Biology), 29(4), 751-765. (In Persian).
78. Johnson, L. A., Chan, L. M. Weese, Weese, L. D., Mcmurry, S. (2008). Nuclear and cpDNA sequences combined provide strong inference of higher phylogenetic relationships in the phlox family (Polemoniaceae). Molecular Phylogenetics and Evolution, 48(3), 997-1012. [DOI:10.1016/j.ympev.2008.05.036]
79. Hartmann, H. T., Kester, D. E. (2011). Hartmann and Kester's Plant Propagation: Principles and Practices. Pearson Prentice Hall. 922p.
80. Khatamsaz, M. (1995). Flora of Iran, No. 13, Caprifiliaceae. Research Instutute og Forest and Rangelands. 32p. (In Persian).
81. Kovach, W. L. (1999). MVSP-A multivariate statistical Package for Windows, ver. 3.1. Kovach Computing Services, Pentraeth, Wales, UK. 137p.
82. Lahaye, R., Van der Bank, M., Bogarin, D., Warner, J., Pupulin, F., Gigot, G., Maurin, O., Duthoit, S., Barraclough, T.G., Savolainen, V. (2008). DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences, 105(8), 2923-2928. [DOI:10.1073/pnas.0709936105]
83. Mabberley, D.J. (2008). Mabberley's Plant-book: A Portable Dictionary of Plants, their Classification and Uses. Cambridge University Press. 1040P.
84. Pang, X., Song, J. Zhu, Y., Xie, C., Chen, S. (2010). Using DNA barcoding to identify species within euphorbiaceae. Planta Medica, 76(15), 1784-1786. [DOI:10.1055/s-0030-1249806]
85. Qing Ren, B., Guo xiang, X., Duan chen, Z. (2010). Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources, 10(4), 594-605. [DOI:10.1111/j.1755-0998.2009.02815.x]
86. Schöttler, M.A., Flügel, C., Thiele, W., Stegemann, S., Bock, R. (2007). The plastome-encoded PsaJ subunit is required for efficient photosystem I excitation, but not for plastocyanin oxidation in tobacco. Biochemical Journal, 403(2), 251-260. [DOI:10.1042/BJ20061573]
87. Sun, Z., Gao, T. Yao, H., Shi, L., Zhu. Y., Chen, S. (2011). Identification of Lonicera japonica and its related species using the DNA barcoding method. Planta Medica, 77(03), 301-306 [DOI:10.1055/s-0030-1250324]
88. Taberlet, P., Coissac, E., Pompanon, F., Gielly, L. Miquel, C. (2007). Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Research, 35(3), 3-14. [DOI:10.1093/nar/gkl938]
89. Tamura, K., Dudley, J., Nei, M., Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24(8), 1596-1599. [DOI:10.1093/molbev/msm092]
90. Theis, N., Donoghue, M.J., Li, J. (2008). Phylogenetics of the Caprifolieae and Lonicera (Dipsacales) based on nuclear and chloroplast DNA sequences. Systematic Botany, 33(4), 776-783. [DOI:10.1600/036364408786500163]
91. Wang, M., Zhao, H.X., Wang, L., Wang, T., Yang, R.W., Wang, X.L., Zhou, Y.H., Ding, C.B., Zhang, L. (2013). Potential use of DNA barcoding for the identification of Salvia based on cpDNA and nrDNA sequences. Gene, 528(2), 206-215. [DOI:10.1016/j.gene.2013.07.009]
92. White, T.J., Bruns, T., Lee, S., Taylor, J. (1990). Amplification and Direct Sequencing of Fungal Ribosomal RNA Gens for Phylogenetics. In: Innis M.A. et al. (eds.), PCR Protocols: A Guide to Methods and Applications. Academic Press. New York, pp. 315-322 [DOI:10.1016/B978-0-12-372180-8.50042-1]
93. Yao, P.C., Gao, H.Y., Wei, Y.N., Zhang, J.H. Chen, X.Y., Li, H.Q. (2017). Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: a case study for increased sample size. Plos One, 12(9), 0185311. [DOI:10.1371/journal.pone.0185311]
94. Alian, M. (2013). Phylogenetic analysis of Stachys L. species in Central Zagros region of Iran using sequencing of ribosomal ITS DNA ITS trnL-trnF chloroplasts. PhD Thesis, University of Shahrekord, Iran. (In Persian).
95. Arzanlo, M., Dokhanchi, H., Davari, M., Khodaveisi, S., Badali, H. (2013). DNA Barcoding: New Horizons in Molecular Identification of Pathogenic Fungi (Review Article). Journal of Kurdistan University of Medical Sciences, 18, 113-126 (In Persian).
96. Castro, C., Hernandez, A., Alvarado, L., Flores, D. (2015). DNA barcodes in fig cultivars (Ficus carcia) uses ITS regions of ribosomal DNA, the trnH-psbA spacer and the matK coding sequence. American Jonrual of Plant Sciences, 6(01), 95-102. [DOI:10.4236/ajps.2015.61011]
97. Chen, W.C., Liou, S.S., Tzeng, T.F., Lee, S.L., Liu, I.M. (2012). Wound repair and anti-inflammatory potential of Lonicera japonica in excision wound induced rats. BMC Complementary and Alternative Medicine, 12(1), 1-9. [DOI:10.1186/1472-6882-12-226]
98. Desalle, R.O.B. (2006). Species discovery versus species identification in DNA barcoding efforts: response to Rubinoff. Conservation Biology, 20(5), 1545- 547. [DOI:10.1111/j.1523-1739.2006.00543.x]
99. Drabkova, L., Kirschner, J., Vlček, Č., Pačes, V. (2004). TrnL-trnF intergenic spacer and trnL intron define major clades within Luzula and Juncus (Juncaceae): importance of structural mutations. Journal of Molecular Evolution, 59(1), 1-10. [DOI:10.1007/s00239-004-2598-7]
100. Dunning, L.T., Savolainen, V. (2010). Broad-scale amplification of matK for DNA barcoding. Botanical Journal of the Linnean Society, 164(1), 1-9. [DOI:10.1111/j.1095-8339.2010.01071.x]
101. Fatahi, N., Ghasemi ghehsare, M., Shiran, B., Siampoor, M. (2021). The investigation of chloroplast marker psbA-trnH and trnL-F in determining the relationships between species of Lonicera spp. In: Third International and Fourth National Congress of Flowers and Ornamental Plants of Iran. (In Persian).
102. Feng, S., Jing, Y., Wang, S., Jiang, M., Chen, Z., Ying, Q., Wang, H. (2015). Molecular identification of Dendrobium species (Orchidaceae) based on the DNA barcode ITS2 region and its application for phylogenetic study. International Journal of Molecular Sciences, 16(9), 21975-21988. [DOI:10.3390/ijms160921975]
103. Ghasemi Ghehsareh, M., Kafi, M. (2015). Scientific and Practical Floriculture. Moallef Press. 296p. (In Persian).
104. Hajibabaei, M., Singer, G.A., Hebert, P.D., Hickey, D.A. (2007). DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trend in Genetics, 23(4), 167-172. [DOI:10.1016/j.tig.2007.02.001]
105. Hebert, P.D., Ratnasingham, S., De Waard, J.R. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Biological Sciences, 270, 96-99. [DOI:10.1098/rsbl.2003.0025]
106. Hong-Jin, D.O.N.G., Hua, P.E.N.G. (2014). Relationships within the Lonicera macrantha complex based on morphological and molecular data. Plant Diversity and Resources, 36(2), 133-142.
107. Ipek, M., Ipek, A., Simon, P.W. (2014). Testing the utility of matK and ITS DNA regions for discrimination of Allium species. Turkish Journal Botanical, 38(2), 203-212. [DOI:10.3906/bot-1308-46]
108. Jalili, S., Hamdi, S.M.M., Oraghiardebili, Z. (2017) Anatomical characteristics of the leaves and stems of 9 species of the genus Lonicera from Caprifoliaceae family in Iran. Journal of Plant Research (Iranian Journal of Biology), 29(4), 751-765. (In Persian).
109. Johnson, L. A., Chan, L. M. Weese, Weese, L. D., Mcmurry, S. (2008). Nuclear and cpDNA sequences combined provide strong inference of higher phylogenetic relationships in the phlox family (Polemoniaceae). Molecular Phylogenetics and Evolution, 48(3), 997-1012. [DOI:10.1016/j.ympev.2008.05.036]
110. Hartmann, H. T., Kester, D. E. (2011). Hartmann and Kester's Plant Propagation: Principles and Practices. Pearson Prentice Hall. 922p.
111. Khatamsaz, M. (1995). Flora of Iran, No. 13, Caprifiliaceae. Research Instutute og Forest and Rangelands. 32p. (In Persian).
112. Kovach, W. L. (1999). MVSP-A multivariate statistical Package for Windows, ver. 3.1. Kovach Computing Services, Pentraeth, Wales, UK. 137p.
113. Lahaye, R., Van der Bank, M., Bogarin, D., Warner, J., Pupulin, F., Gigot, G., Maurin, O., Duthoit, S., Barraclough, T.G., Savolainen, V. (2008). DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences, 105(8), 2923-2928. [DOI:10.1073/pnas.0709936105]
114. Mabberley, D.J. (2008). Mabberley's Plant-book: A Portable Dictionary of Plants, their Classification and Uses. Cambridge University Press. 1040P.
115. Pang, X., Song, J. Zhu, Y., Xie, C., Chen, S. (2010). Using DNA barcoding to identify species within euphorbiaceae. Planta Medica, 76(15), 1784-1786. [DOI:10.1055/s-0030-1249806]
116. Qing Ren, B., Guo xiang, X., Duan chen, Z. (2010). Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources, 10(4), 594-605. [DOI:10.1111/j.1755-0998.2009.02815.x]
117. Schöttler, M.A., Flügel, C., Thiele, W., Stegemann, S., Bock, R. (2007). The plastome-encoded PsaJ subunit is required for efficient photosystem I excitation, but not for plastocyanin oxidation in tobacco. Biochemical Journal, 403(2), 251-260. [DOI:10.1042/BJ20061573]
118. Sun, Z., Gao, T. Yao, H., Shi, L., Zhu. Y., Chen, S. (2011). Identification of Lonicera japonica and its related species using the DNA barcoding method. Planta Medica, 77(03), 301-306 [DOI:10.1055/s-0030-1250324]
119. Taberlet, P., Coissac, E., Pompanon, F., Gielly, L. Miquel, C. (2007). Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Research, 35(3), 3-14. [DOI:10.1093/nar/gkl938]
120. Tamura, K., Dudley, J., Nei, M., Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24(8), 1596-1599. [DOI:10.1093/molbev/msm092]
121. Theis, N., Donoghue, M.J., Li, J. (2008). Phylogenetics of the Caprifolieae and Lonicera (Dipsacales) based on nuclear and chloroplast DNA sequences. Systematic Botany, 33(4), 776-783. [DOI:10.1600/036364408786500163]
122. Wang, M., Zhao, H.X., Wang, L., Wang, T., Yang, R.W., Wang, X.L., Zhou, Y.H., Ding, C.B., Zhang, L. (2013). Potential use of DNA barcoding for the identification of Salvia based on cpDNA and nrDNA sequences. Gene, 528(2), 206-215. [DOI:10.1016/j.gene.2013.07.009]
123. White, T.J., Bruns, T., Lee, S., Taylor, J. (1990). Amplification and Direct Sequencing of Fungal Ribosomal RNA Gens for Phylogenetics. In: Innis M.A. et al. (eds.), PCR Protocols: A Guide to Methods and Applications. Academic Press. New York, pp. 315-322 [DOI:10.1016/B978-0-12-372180-8.50042-1]
124. Yao, P.C., Gao, H.Y., Wei, Y.N., Zhang, J.H. Chen, X.Y., Li, H.Q. (2017). Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: a case study for increased sample size. Plos One, 12(9), 0185311. [DOI:10.1371/journal.pone.0185311]

XML   Persian Abstract   Print

Rights and permissions
Creative Commons License This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.
Volume 7, Issue 1 (Spring and Summer 2022) Back to browse issues page