Genetic diversity analysis in piper species (Piperaceae) using RAPD markers

Molecular Biotechnology

Volumn 46, Issue 1, 2010, Pages 72-79

  Sen, Sandeep ^a   Skaria, Reby ^a   Muneer, P M Abdul ^a,b  

^a Mar Athanasios College for Advanced Studies   (India)

^b UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

Author keywords

Genetic variation; PCR; Piper; Polymorphism; RAPD markers

Indexed keywords

COMPARATIVE ANALYSIS; GENE DIVERSITY; GENETIC DISTANCES; GENETIC DIVERSITY; GENETIC VARIATION; GERMPLASMS; HETEROZYGOSITY; PIPERACEAE; RANDOM AMPLIFIED POLYMORPHIC DNAS; RAPD MARKERS;

OILS AND FATS; POLYMORPHISM;

GENES;

DNA FRAGMENT; PRIMER DNA; TAQ POLYMERASE;

ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; DNA FINGERPRINTING; DNA FRAGMENTATION; GENE AMPLIFICATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC VARIABILITY; GERMPLASM; HETEROZYGOSITY; INDIA; NONHUMAN; PIPERACEAE; RANDOM AMPLIFIED POLYMORPHIC DNA;

BASE PAIRING; GENETIC MARKERS; GENETIC VARIATION; PEDIGREE; PHYLOGENY; PIPER; RANDOM AMPLIFIED POLYMORPHIC DNA TECHNIQUE; SPECIES SPECIFICITY;

PIPER ARGYROPHYLLUM; PIPER BETLE; PIPER CHABA; PIPER HYMENOPHYLLUM; PIPER LONGUM; PIPER NIGRUM; PIPERACEAE;

EID: 77955431401     PISSN: 10736085     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12033-010-9281-6     Document Type: Article

References (56)

1. Kubitzki, K., Rohwer, J. G., & Brittrich, V. (1993). Flowering plants. Dycotyledons, Magnoliid, Hamamelid and Caryophyliid families. Berlin: Springer.
2. DG Frodin 2004 History and concepts of big plant genera Taxon 53 753 776 10.2307/4135449
3. B Barret 1994 Medicinal plants of Nicaragua's Atlantic Coast Economic Botany 48 8 20
4. MD Colvard GA Cordell R Villalobos G Sancho DD Soejarto W Pestle TL Echeverri KM Perkowitz J Michel 2006 Survey of medical ethnobotanicals for dental and oral medicine conditions and pathologies Journal of Ethnopharmacology 107 134 142 10.1016/j.jep.2006.04.005 (Pubitemid 44038822)
5. 1-induced micronuclei and cell cycle alterations in lung and bone marrow cells and their modulation by Piper argyrophyllum extract Teratogenesis, Carcinogenesis, and Mutagenesis 18 249 261 10.1002/(SICI)1520-6866(1998)18:5<249::AID-TCM5>3.0.CO;2-R 1:CAS:528:DyaK1MXnt1Gn (Pubitemid 29019512)
6. AK Prasad V Kumar P Arya S Kumar R Rajesh Dabur N Naresh Singh AK Chhillar GL Sharma B Ghosh J Wengel CE Olsen VS Parmar 2005 Investigations toward new lead compounds from medicinally important plants Pure and Applied Chemistry 77 1 25 40 10.1351/pac200577010025 1:CAS:528:DC%2BD2MXisVWmsrY%3D (Pubitemid 40321876)
7. AK Aggarwal DM Tripathi R Sahai N Gupta RP Saxena M Singh RN Mishra CB Dubey KC Saxena 1997 Management of giardiasis by a herbal drug 'Pippali Rasayana': A clinical study Journal of Ethnopharmacology 56 233 236 10.1016/S0378-8741(97)00037-8 (Pubitemid 27271819)
8. U Parthasarathy KV Saji K Jayarajan VA Parthasarathy 2006 Biodiversity of Piper in South India-application of GIS and cluster analysis Current Science 91 5 652 658
9. Dyer, L. A., & Palmer, A. N. (2004). Piper: A model genus for studies of evolution, chemical ecology and trophic interactions. Boston: Kluwer.
10. MA Jaramillo R Callejas C Davidson JF Smith AC Stevens EJ Tepe 2008 A phylogeny of the tropical genus Piper using ITS and the chloroplast intron psbJ-petA Systematic Botany 33 4 647 660 10.1600/036364408786500244
11. LHO Wadt C Ehringhaus P Yoshio PY Kageyama 2004 Genetic diversity of "Pimenta longa" genotypes (Piper spp., Piperaceae) of the Embrapa Acre germplasm collection Genetics and Molecular Biology 27 74 82 10.1590/S1415-47572004000100013 1:CAS:528:DC%2BD2cXkt1Sht78%3D
12. T Pradeepkumar JL Karihaloo S Archak 2001 Molecular characterization of Piper nigrum L. cultivars using RAPD markers Current Science 81 3
13. Nazeem, P. A., Keshavachandran, R., Babu, T. D., Achuthan, C. R., Girija, D., & Peter, K. V. (2007). Assessment of genetic variability in Black Pepper (Piper nigrum L.) varieties through RAPD and AFLP analyses. In R. Keshavachandran, P. A. Nazeem, D. Girija, P. S. John, & K. V. Peter (Eds.), Recent trends in horticultural biotechnology (pp. 485-490). New Delhi, India: New India Publishing Agency.
14. PN Ravindran R Balakrishnan K Nirmalbabu 1992 Numerical taxonomy of South Indian Piper L. (Piperaceae) cluster analysis Rheedea 2 55 61
15. AK Sharma NK Bhattacharya 1959 Chromosome studies on two genera of family Piperaceae Genetica 29 256 289 10.1007/BF01535714
16. A Sebastian VS Sujatha 1996 Isoenzyme variation and species relationship in the genus Piper Journal of Tropical Agriculture 34 136 137 1:CAS:528:DyaK1cXnvFShur8%3D
17. MK Morell R Peakall R Appels LR Preston HL Lloyd 1995 DNA profiling technique for plant variety identification Australian Journal of the Experimental Agriculture 35 807 819 10.1071/EA9950807
18. JM Rodriguez T Berke L Engle J Nienhuis 1999 Variation among and within Capsicum species revealed by RAPD markers Theoretical Applied Genetics 99 147 156 10.1007/s001220051219 1:CAS:528:DyaK1MXlvFGltLw%3D (Pubitemid 29377325)
19. J Welsh M McClelland 1990 Fingerprinting genomes using PCR with arbitrary primers Nucleic Acids Research 18 7213 7218 10.1093/nar/18.24.7213 1:CAS:528:DyaK3MXls12jsQ%3D%3D
20. JGK Williams AR Kubelik KJ Livak JA Reafalski SV Tingey 1990 DNA polymorphisms amplified by arbitrary primers are useful as genetic markers Nucleic Acids Research 18 6531 6535 10.1093/nar/18.22.6531 1:CAS:528: DyaK3MXjslWmsA%3D%3D
21. AG Clark CMS Lanigan 1993 Prospects for estimating nucleotide divergence with RAPDs Molecular Biology and Evolution 10 1096 1111 1:CAS:528: DyaK3sXmsVahsLY%3D
22. KY Chalmers AC Newton R Waugh W Powell 1994 Evaluation of the extent of genetic variation in mahoganies (Meliaceae) using RAPD markers Theoretical Applied Genetics 89 504 508
23. C Plomion N Bahrman CE Durel DMO Malley 1995 Genome mapping in Pinus pinaster (Maritime pine) using RAPD and protein marker Heredity 74 661 668 10.1038/hdy.1995.90 1:CAS:528:DyaK2MXmslCqt7g%3D
24. R Chaveerach H Kunitakeb S Nuchadomrongc N Sattayasaic H Komatsud 2002 RAPD patterns as a useful tool to differentiate Thai Piper from morphologically alike Japanese Piper Science Asia 28 221 225 10.2306/scienceasia1513-1874.2002. 28.221 1:CAS:528:DC%2BD3sXjvFOlsw%3D%3D
25. BK Chikkaswamy CR Pramanik JN Varadara A Pramanik LH Ramesh M Shivasankar RV Sivarasam 2007 Determination of genetic variation in Piper using 4C nuclear DNA and RAPD markers Cytologia 72 243 249 10.1508/cytologia.72.243 1:CAS:528:DC%2BD1cXhtFKls7Y%3D (Pubitemid 350126398)
26. SA Ranade A Verma M Gupta N Kumar 2002 RAPD profile analysis of Betle Vine Cultivars Biologia Plantarum 45 523 527 10.1023/A:1022364823330 1:CAS:528:DC%2BD38XotFyjurc%3D
27. Ravindran, P. N. (2000). Black Pepper, Piper nigrum (553 pp). Amsterdam, The Netherlands: Harwood Academic.
28. Nayar, T. S., Beegam, A. R., Mohanan, N., & Rajkumar, G. (2006). Flowering plants of Kerala, A hand book.
29. Sambrook, J., Fritsch, E. F., & Maniatis, T. (1989). Molecular cloning: a laboratory manual (2nd ed., Vol. 1-3). Cold Spring Habor, New York: Cold Spring Harbor Laboratory press.
30. M Lynch BG Milligan 1994 Analysis of population genetic structure with RAPD markers Molecular Ecology 3 91 99 10.1111/j.1365-294X.1994.tb00109.x 1:STN:280:DyaK2c3ptVKltw%3D%3D
31. Yeh, F. C., Yang, R. C., & Boyle, T. (1999). POPGENE 32-version 1.31. Population genetics software. http://www.ualberta.ca/~fyeh/fyeh/.
32. Nei, M. (1987). Molecular evolutionary genetics. New York: Columbia University Press.
33. Sneath, P. H. A., & Sokal, R. R. (1973). Numerical taxonomy (573 pp). San Francisco, CA: W.H. Freeman and Co.
34. Felsenstein, J. (1993). PHYLIP (Phylogeny Inference Package), version 3.5, Distributed by the author. University of Washington, Seattle.
35. M Nei 1978 Estimation of average heterozygosity and genetic distance from a small number of individuals Genetics 89 583 590 1:STN:280: DC%2BC3crpt1Kqtg%3D%3D
36. PR Choudhury H Tanveer GP Dixit 2006 Identification and detection of genetic relatedness among important varieties of pea (Pisum sativum L.) grown in India Genetica 130 2 183 191 10.1007/s10709-006-9005-9
37. S Wright 1951 The genetical structure of populations Annals of Eugenics 15 324 354
38. YJ Wu Y Chen J Wang CX Zhu BL Xu 2006 RAPD analysis of Jasmine rice specific genomic structure Genome 49 716 719 10.1139/G06-018 1:CAS:528:DC%2BD28XpvVeitbk%3D (Pubitemid 44379489)
39. PMA Muneer A Gopalakrishnan KK Musammilu KK Lal V Mohindra VS Basheer WS Lakra 2008 Genetic variation and population structure of endemic yellow catfish, Horabagrus brachysoma (Bagridae) among three populations of Western Ghat region using RAPD and microsatellite markers Molecular Biology Reports 36 1779 1791 10.1007/s11033-008-9381-6
40. S Archak JL Karihaloo A Jain 2002 RAPD markers reveal narrowing genetic base of Indian tomato cultivars Current Science 82 1139 1143
41. T Pradeepkumar JL Karihaloo S Archak A Baldev 2003 Analysis of genetic diversity in Piper nigrum L. using RAPD markers Genetic Resources and Crop Evolution 50 469 475 10.1023/A:1023917809042 1:CAS:528:DC%2BD3sXktFyrtbw%3D (Pubitemid 37435340)
42. G Caetano-Anollés 1993 Amplifying DNA with arbitrary oligonucleotide primers Genome Research 3 85 94 10.1101/gr.3.2.85
43. RP Adams LH Rieseberg 1998 The effects of non-homology in RAPD bands on similarity and multivariate statistical ordination in Brassica and Helianthus Theoretical and Applied Genetics 97 1-2 323 326 10.1007/s001220050902 1:CAS:528:DyaK1cXlslais7s%3D (Pubitemid 28371700)
44. GA Penner A Bush R Wise W Kim L Domier K Kasha A Laroche G Scoles SJ Molnar G Fedak 1993 Reproducibility of random amplified polymorphic DNA (RAPD) analysis among laboratories Genome Research 12 341 345 10.1101/gr.2.4.341
45. SG Rajput KJ Wable KM Sharma PD Kubde SA Mulay 2006 Reproducibility testing of RAPD and SSR markers in tomato African Journal of Biotechnology 5 2 108 112 1:CAS:528:DC%2BD28XhsF2rtLk%3D
46. N Bhuyan BK Borah RN Sarma 2007 Genetic diversity analysis in traditional lowland rice (Oryza sativa L.) of Assam using RAPD and ISSR markers Current Science 93 967 972
47. G Caetno-Anolles BJ Bassam PM Gresshoff 1991 DNA amplification fingerprinting: A strategy for genome analysis Plant Molecular Biology Reporter 9 294 307 10.1007/BF02672006
48. HL Ko DC Cowan RJ Henry GC Graham AB Blakeney LG Lewin 1994 Random amplified polymorphic DNA analysis of Australian rice (Oryza sativa L.) varieties Euphytica 80 179 189 10.1007/BF00039649 1:CAS:528:DyaK2MXltlCqt7k%3D
49. C Callejas MD Ochando 2002 Phylogenetic relationships among Spanish Barbus species (Pisces, Cyprinidae) shown by RAPD Heredity 89 36 43 10.1038/sj.hdy.6800091 1:CAS:528:DC%2BD38XkslKnurw%3D (Pubitemid 34788798)
50. C Grandclement G Thomas 1996 Detection and analysis of QTLs based on RAPD markers for polygenic resistance to Plasmodiophora brassicae Woron in Brassica oleracea L Theoretical and Applied Genetics 93 1-2 86 90 10.1007/BF00225731
51. V Chagué JC Mercier M Guénard A de Courcel F Vedel 1997 Identification of RAPD markers linked to a locus involved in quantitative resistance to TYLCV in tomato by bulked segregant analysis Theoretical and Applied Genetics 95 4 671 677 10.1007/s001220050611 (Pubitemid 27433972)
52. R Sharma RA Aggarwal R Kumar T Mohapatra RP Sharma 2002 Construction of an RAPD linkage map and localization of QTLs for oleic acid level using recombinant inbreds in mustard (Brassica juncea) Genome 45 3 467 472 10.1139/g02-001 1:CAS:528:DC%2BD38Xks1yjtbc%3D (Pubitemid 34443852)
53. MA Khan C Durel B Duffy D Drouet M Kellerhals C Gessler A Patocchi 2007 Development of molecular markers linked to the 'Fiesta' linkage group 7 major QTL for fire blight resistance and their application for marker-assisted selection Genome 50 6 568 577 10.1139/G07-033 1:CAS:528:DC%2BD2sXhtVWgu73J (Pubitemid 47309789)
54. I Paran RW Michelmore 1993 Development of reliable PCR based markers linked to downy mildew resistance genes in lettuce Theoretical and Applied Genetics 85 985 993 10.1007/BF00215038 1:CAS:528:DyaK3sXktVWru70%3D
55. SO Parka DP Coynea JR Steadmanb KM Crosbyc MA Brickd 2004 RAPD and SCAR markers linked to the Ur-6 Andean gene controlling specific rust resistance in common bean Crop Science 44 1799 1807 10.2135/cropsci2004.1799
56. P Janila B Sharma 2008 RAPD and SCAR markers for powdery mildew resistance gene er in pea Plant Breeding 123 3 271 274 10.1111/j.1439-0523.2004. 00963.x