A renaissance in herbal medicine identification: From morphology to DNA

Biotechnology Advances

Volumn 32, Issue 7, 2014, Pages 1237-1244

  Chen, Shilin ^a,b   Pang, Xiaohui ^a   Song, Jingyuan ^a   Shi, Linchun ^a   Yao, Hui ^a   Han, Jianping ^a   Leon, Christine ^c  

^a INSTITUTE OF MEDICINAL PLANT DEVELOPMENT   (China)

^b INSTITUTE OF CHINESE MATERIA MEDICA   (China)

^c ROYAL BOTANIC GARDENS   (United Kingdom)

Author keywords

Adverse reactions; DNA barcode; ITS2; Plant authentication; PsbA trnH; Safety

Indexed keywords

ACCIDENT PREVENTION; BAR CODES; MEDICINE; MORPHOLOGY; PLANT EXTRACTS;

ADVERSE REACTIONS; ARISTOLOCHIC ACID; DNA BARCODE; HERBAL MEDICINES; ITS2; MEDICINAL PLANTS; PSBA-TRNH; SPECIES SPECIFICS;

DNA;

PLANT DNA;

CLASSIFICATION; DNA BARCODING; GENETICS; HERBAL MEDICINE; MEDICINAL PLANT; STANDARDS;

DNA BARCODING, TAXONOMIC; DNA, PLANT; HERBAL MEDICINE; PLANTS, MEDICINAL;

EID: 84922065098     PISSN: 07349750     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biotechadv.2014.07.004     Document Type: Review

References (89)

1. Arlt V.M., Stiborova M., Schmeiser H.H. Aristolochic acid as a probable human cancer hazard in herbal remedies: a review. Mutagenesis 2002, 17:265-277.
2. Blaxter M. Molecular systematics: counting angels with DNA. Nature 2003, 421:122-124.
3. Bridson D.M., Forman L. The herbarium handbook 1992, Royal Botanic Gardens Kew, London.
4. Buchheim M.A., Keller A., Koetschan C., Förster F., Merget B., Wolf M. Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. PLoS One 2011, 6:e16931.
5. CBOL Plant Working Group A DNA barcode for land plants. Proc Natl Acad Sci U S A 2009, 106:12794-12797.
6. Chase M.W., Salamin N., Wilkinson M., Dunwell J.M., Kesanakurthi R.P., Haidar N., et al. Land plants and DNA barcodes: short-term and longterm goals. Phil Trans R Soc B 2005, 360:1889-1895.
7. Chase M.W., Cowan R.S., Hollingsworth P.M., van den Berg C., Madriñán S. A proposal for a standardised protocol to barcode all land plants. Taxonomy 2007, 56:295-299.
8. Chen S.L. DNA barcoding of Chinese medicinal materials 2012, People's Medical Publishing House, Beijing.
9. Chen S., Yao H., Han J., Liu C., Song J., Shi L., et al. Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PLoS One 2010, 5:e8613.
10. Chen X.C., Liao B.S., Song J.Y., Pang X.H., Han J.P., Chen S.L. A fast SNP identification and analysis of intraspecific variation in the medicinal Panax species based on DNA barcoding. Gene 2013, 530:39-43.
11. Cheng X., Su X., Chen X., Zhao H., Bo C., Xu J., et al. Biological ingredient analysis of traditional Chinese medicine preparation based on high-throughput sequencing: the story for Liuwei Dihuang Wan. Sci Rep 2014, 4:5147.
12. China Plant BOL Group Comparative analysis of a large dataset indicates that ITS should be incorporated into the core barcode for seed plants. Proc Natl Acad Sci U S A 2011, 108:19641-19646.
13. Coghlan M.L., Haile J., Houston J., Murray D.C., White N.E., Moolhuijzen P., et al. Deep sequencing of plant and animal DNA contained within traditional Chinese medicines reveals legality issues and health safety concerns. PLoS Genet 2012, 8:e1002657.
14. Commission IP Indian Pharmacopoeia 2010, The Indian Pharmacopoeia Commission, Ghaziabad. 2010th ed.
15. de Boer H.J., Ouarghidi A., Martin G., Abbad A., Kool A. DNA barcoding reveals limited accuracy of identifications based on folk taxonomy. PLoS One 2014, 9(1):e84291.
16. Debelle F.D., Vanherweghem J.L., Nortier J.L. Aristolochic acid nephropathy: a worldwide problem. Kidney Int 2008, 74:158-169.
17. European Pharmacopoeia Commission European Pharmacopoeia 2013, Directorate for the Quality of Medicines & HealthCare of the Council of Europe (EDQM), Strasbourg. 8th ed.
18. Fazekas A.J., Burgess K.S., Kesanakurti P.R., Graham S.W., Newmaster S.G., Husband B.C., et al. Multiple multilocus DNA barcodes from the plastid genome discriminate plant species equally well. PLoS One 2008, 3:e2802.
19. Gao T., Yao H., Song J., Liu C., Zhu Y., Ma X., et al. Identification of medicinal plants in the family Fabaceae using a potential DNA barcode ITS2. J Ethnopharmacol 2010, 130:116-121.
20. Gao T., Yao H., Song J.Y., Zhu Y.J., Liu C., Chen S.L. Evaluating the feasibility of using candidate DNA barcodes in discriminating species of the large Asteraceae family. BMC Evol Biol 2010, 10:324.
21. Gold L.S., Slone T.H. Aristolochic acid, an herbal carcinogen, sold on the web after FDA alert. N Engl J Med 2003, 349:1576-1577.
22. Grollman A.P., Shibutani S., Moriya M., Miller F., Wu L., Moll U., et al. Aristolochic acid and the etiology of endemic (Balkan) nephropathy. Proc Natl Acad Sci U S A 2007, 104:12129-12134.
23. Gu W., Song J., Cao Y., Sun Q., Yao H., Wu Q., et al. Application of the ITS2 region for barcoding medicinal plants of Selaginellaceae in pteridophyta. PLoS One 2013, 8:e67818.
24. Guo H., Mao H., Pan G., Zhang H., Fan G., Li W., et al. Antagonism of Cortex Periplocae extract-induced catecholamines secretion by Panax notoginseng saponins in cultured bovine adrenal medullary cells by drug combinations. J Ethnopharmacol 2013, 147:447-455.
25. Hajibabaei M., deWaard J.R., Ivanova N.V., Ratnasingham S., Dooh R.T., Kirk S.L., et al. Critical factors for assembling a high volume of DNA barcodes. Phil Trans R Soc B 2005, 360:1959-1967.
26. Han J.P., Song J.Y., Liu C., Chen J., Qian J., Zhu Y.J., et al. Identification of Cistanche species (Orobanchaceae) based on sequences of the plastid psbA-trnH intergenic region. Acta Pharma Sin 2010, 45:126-130.
27. Han J.P., Shi L.C., Chen X.C., Lin Y.L. Comparison of four DNA barcodes in identifying certain medicinal plants of Lamiaceae. J Syst Evol 2012, 50:227-234.
28. Han J.P., Zhu Y.J., Chen X.C., Liao B.S., Yao H., Song J.Y., et al. The Short ITS2 sequence serves as an efficient taxonomic sequence tag in comparison with the full-length ITS. BioMed Res Int 2013, 741476.
29. He J., Wong K.L., Shaw P.C., Wang H., Li D.Z. Identification of the medicinal plants in Aconitum L. by DNA barcoding technique. Planta Med 2010, 76:1622-1628.
30. Hebert P.D.N., Gregory T.R. The promise of DNA barcoding for taxonomy. Syst Biol 2005, 54:852-859.
31. Hebert P.D.N., Cywinska A., Ball S.L., de Waard J.R. Biological identifications through DNA barcodes. Proc R Soc Lond B 2003, 270:313-321.
32. Hoang M.L., Chen C.H., Sidorenko V.S., He J., Dickman K.G., Yun B.H., et al. Mutational signature of aristolochic acid exposure as revealed by whole-exome sequencing. Sci Transl Med 2013, 5:197ra102.
33. Hollingsworth P.M. Refining the DNA barcode for land plants. Proc Natl Acad Sci U S A 2011, 108:19451-19452.
34. Hollingsworth P.M., Graham S.W., Little D.P. Choosing and using a plant DNA barcode. PLoS One 2011, 6:e19254.
35. Hou D.Y., Song J.Y., Shi L.C., Ma X.C., Xin T.Y., Han J.P., et al. Stability and accuracy assessment of identification of traditional Chinese materia medica using DNA barcoding: a case study on Flos Lonicerae Japonica. BioMed Res Int 2013, 549037.
36. Hou D.Y., Song J.Y., Yao H., Han J.P., Pang X.H., Shi L.C., et al. Molecular identification of Corni Fructus and its adulterants by ITS/ITS2 sequences. Chin J Nat Med 2013, 11(2):121-127.
37. Japanese Pharmacopoeia Editorial Committee Japanese Pharmacopoeia 2011, The Ministry of Health, Labour and Welfare, Tokyo. 16th ed.
38. Keller A., Schleicher T., Schultz J., Müller T., Dandekar T., Wolf M. 5.8S-28S rRNA interaction and HMM-based ITS2 annotation. Gene 2009, 430:50-57.
39. Kool A., de Boer H.J., Krüger A., Rydberg A., Abbad A., Björk L., et al. Molecular identification of commercialized medicinal plants in southern Morocco. PLoS One 2012, 7:e39459.
40. Kress W.J., Erickson D.L. A two-locus global DNA barcode for land plants: the coding rbcL gene complements the non-coding trnH-psbA spacer region. PLoS One 2007, 2:e508.
41. Kress W.J., Erickson D.L. DNA barcodes: genes, genomics, and bioinformatics. Proc Natl Acad Sci U S A 2008, 105:2761-2762.
42. Kress W.J., Wurdack K.J., Zimmer E.A., Weigt L.A., Janzen D.H. Use of DNA barcodes to identify flowering plants. Proc Natl Acad Sci U S A 2005, 102:8369-8374.
43. Kumar S., Hahn F.M., McMahan C.M., Cornish K., Whalen M.C. Comparative analysis of the complete sequence of the plastid genome of Parthenium argentatum and identification of DNA barcodes to differentiate Parthenium species and lines. BMC Plant Biol 2009, 9:131.
44. Lahaye R., van der Bank M., Bogarin D., Warner J., Pupulin F. DNA barcoding the floras of biodiversity hotspots. Proc Natl Acad Sci U S A 2008, 105:2923-2928.
45. Lewis C.J., Alpert S. Letter to Health Care Professionals on FDA concerned about botanical products, including dietary supplements, containing aristolochic acid 2000, US Food and Drug Administration, Centre for Food Safety and Applied Nutrition, Office of nutritional Product, Labelling and Dietary Supplements.
46. Li Y., Ruan J., Chen S., Song J., Luo K., Lu D., et al. Authentication of Taxillus chinensis using DNA barcoding technique. J Med Plants Res 2010, 4:2706-2709.
47. Li M., Cao H., But P.P.H., Shaw P.C. Identification of herbal medicinal materials using DNA barcodes. J Syst Evol 2011, 49:271-283.
48. Li M., Au K.Y., Lam H., Cheng L., Jiang R.W., But P.P., et al. Identification of Baiying (Herba Solani Lyrati) commodity and its toxic substitute Xungufeng (Herba Aristolochiae Mollissimae) using DNA barcoding and chemical profiling techniques. Food Chem 2012, 135:1653-1658.
49. Li X., Yang Y., Henry R.J., Rossetto M., Wang Y., Chen S. Plant DNA barcoding: from gene to genome. Biol Rev 2014, 10.1111/brv.12104.
50. Liu C., Liang D., Gao T., Pang X., Song J., Yao H., et al. PTIGS-IdIt, a system for species identification by DNA sequences of the psbA-trnH intergenic spacer region. BMC Bioinforma 2011, 12:S4.
51. Liu Z., Chen S., Song J., Zhang S., Chen K. Application of deoxyribonucleic acid barcoding in Lauraceae plants. Pharmacogn Mag 2012, 8:4-11.
52. Liu Y., Zhang L., Liu Z., Luo K., Chen S., Chen K. Species identification of Rhododendron (Ericaceae) using the chloroplast deoxyribonucleic acid psbA-trnH genetic marker. Pharmacogn Mag 2012, 8:29-36.
53. Lo S.H., Wong K.S., Arlt V.M., Phillips D.H., Lai C.K., Poon W.T., et al. Detection of Herba Aristolochia Mollissemae in a patient with unexplained nephropathy. Am J Kidney Dis 2005, 45:407-410.
54. Lou S.K., Wong K.L., Li M., But P.P.H., Tsui S.K.W., Shaw P.C. An integrated web medicinal materials DNA database: MMDBD (Medicinal Materials DNA Barcode Database). BMC Genomics 2010, 11:402.
55. Luo K., Chen S., Chen K., Song J., Yao H., Ma X., et al. Assessment of candidate plant DNA barcodes using the Rutaceae family. Sci China Ser C 2010, 53:701-708.
56. Ma X.Y., Xie C.X., Liu C., Song J.Y., Yao H., Luo K., et al. Species identification of medicinal Pteridophytes by a DNA barcode marker, the chloroplast psbA-trnH intergenic region. Biol Pharm Bull 2010, 33:1919-1924.
57. Marshall E. Taxonomy: will DNA bar codes breathe life into classification?. Science 2005, 307:1037.
58. Miller S.E. DNA barcoding and the renaissance of taxonomy. Proc Natl Acad Sci U S A 2007, 104:4775-4776.
59. Naciri Y., Caetano S., Salamin N. Plant DNA barcodes and the influence of gene flow. Mol Ecol Resour 2012, 12:575-580.
60. National Pharmacopoeia Committee Chinese Pharmacopoeia 2010, China Medical Science Press, Beijing. 2010th ed.
61. Newmaster S.G., Fazekas A.J., Ragupathy S. DNA barcoding in land plants: evaluation of rbcL in a multigene tiered approach. Can J Bot 2006, 84:335-341.
62. Newmaster S.G., Fazekas A.J., Steeves R.A.D., Janovec J. Testing candidate plant barcode regions in the Myristicaceae. Mol Ecol Resour 2008, 8:480-490.
63. Newmaster S.G., Grguric M., Shanmughanandhan D., Ramalingam S., Ragupathy S. DNA barcoding detects contamination and substitution in North American herbal products. BMC Med 2013, 11:222.
64. Pang X.H., Song J.Y., Zhu Y.J., Xie C.X., Chen S.L. Using DNA barcoding to identify species within Euphorbiaceae. Planta Med 2010, 76:1784-1786.
65. Pang X.H., Song J.Y., Zhu Y.J., Xu H.X., Huang L.F., Chen S.L. Applying plant DNA barcodes for Rosaceae species identification. Cladistics 2011, 27:165-170.
66. Pang X., Liu C., Shi L., Liu R., Liang D., Li H., et al. Utility of the trnH-psbA intergenic spacer region and its combinations as plant DNA barcodes: a meta-analysis. PLoS One 2012, 7:e48833.
67. Pang X.H., Shi L.C., Song J.Y., Chen X.C., Chen S.L. Use of the potential DNA barcode ITS2 to identify herbal materials. J Nat Med 2013, 67:571-575.
68. Parveen I., Singh H.K., Raghuvanshi S., Pradhan U.C., Babbar S.B. DNA barcoding of endangered Indian Paphiopedilum species. Mol Ecol Resour 2012, 12:82-90.
69. Poczai P., Hyvonen J. Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects. Mol Biol Rep 2010, 37:1897-1912.
70. Poon S.L., Pang S.T., McPherson J.R., Yu W., Huang K.K., Guan P., et al. Genome-wide mutational signatures of aristolochic acid and its application as a screening tool. Sci Transl Med 2013, 5:197ra101.
71. Ratnasingham S., Hebert P.D.N. BOLD: the barcode of life data system. Mol Ecol Notes 2007, 7:355-364.
72. Saleh S.S., Alameddine M.S., Natafgi N.M., Mataria A., Sabri B., Nasher J., et al. The path towards universal health coverage in the Arab uprising countries Tunisia, Egypt, Libya, and Yemen. Lancet 2014, 383:368-381.
73. Schindel D.E., Miller S.E. DNA barcoding a useful tool for taxonomists. Nature 2005, 435:17.
74. Shi L.C., Zhang J., Han J.P., Song J.Y., Yao H., Zhu Y.J., et al. Testing the potential of proposed DNA barcodes for species identification of Zingiberaceae. J Syst Evol 2011, 49:261-266.
75. Song J., Yao H., Li Y., Li X., Lin Y., Liu C., et al. Authentication of the family Polygonaceae in Chinese pharmacopoeia by DNA barcoding technique. J Ethnopharmacol 2009, 124:434-439.
76. Song J., Shi L., Li D., Sun Y., Niu Y., Chen Z., et al. Extensive pyrosequencing reveals frequent intra-genomic variations of internal transcribed spacer regions of nuclear ribosomal DNA. PLoS One 2012, 7:e43971.
77. Sun Z.Y., Chen S.L. Identification of cortex herbs using the DNA barcode nrITS2. J Nat Med 2013, 67:296-302.
78. Sun Z., Gao T., Yao H., Shi L., Zhu Y., Chen S. Identification of Lonicera japonica and its related species using the DNA barcoding method. Planta Med 2011, 77:301-306.
79. Techen N., Parveen I., Pan Z., Khan I.A. DNA barcoding of medicinal plant material for identification. Curr Opin Biotechnol 2014, 25:103-110.
80. The Korea Food and Drug Administration The Korean Pharmacopoeia 2012, KFDA press, Seoul. 10th ed.
81. U.S.Pharmacopeial Convention U.S. Pharmacopeia 36/National Formulary 31 2013, U.S. Pharmacopeial Convention Incorporation, Rockville, MD.
82. Vanherweghem J.L., Depierreux M., Tielemans C., Abramowicz D., Dratwa M., Jadoul M., et al. Rapidly progressive interstitial renal fibrosis in young women: association with slimming regimen including Chinese herbs. Lancet 1993, 341:387-391.
83. Wolf M., Chen S., Song J., Ankenbrand M., Müller T. Compensatory base changes in ITS2 secondary structures correlate with the biological species concept despite intragenomic variability in ITS2 sequences - a proof of concept. PLoS One 2013, 8:e66726.
84. Xiang L., Song J., Xin T., Zhu Y., Shi L., Xu X., et al. DNA barcoding the commercial Chinese caterpillar fungus. FEMS Microbiol Lett 2013, 347:156-162.
85. Xin T.Y., Yao H., Gao H.H., Zhou X., Ma X., Xu C., et al. Super food Lycium barbarum (Solanaceae) traceability via an internal transcribed spacer 2 barcode. Food Res Int 2013, 54:1699-1704.
86. Yang Y., Zhai Y., Liu T., Zhang F., Ji Y. Detection of Valeriana jatamansi as an adulterant of medicinal Paris by length variation of chloroplast psbA-trnH region. Planta Med 2011, 77:87-91.
87. Yao H., Song J.Y., Ma X.Y., Liu C., Li Y., Xu H.X., et al. Identification of Dendrobium species by a candidate DNA barcode sequence: the chloroplast psbA-trnH intergenic region. Planta Med 2009, 75:667-669.
88. Yao H., Song J., Liu C., Luo K., Han J., Li Y., et al. Use of ITS2 region as the universal DNA barcode for plants and animals. PLoS One 2010, 5:e13102.
89. Zuo Y., Chen Z., Kondo K., Funamoto T., Wen J., Zhou S. DNA barcoding of Panax species. Planta Med 2011, 77:182-187.