determination of genetic diversity between eggplant and its wild ...

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TABLE OF CONTENTS LIST OF FIGURES .......................................................................................................viii LIST OF TABLES............................................................................................................ x CHAPTER 1. INTRODUCTION .................................................................................. 1 1.1. Diversity and Systematics..................................................................... 1 1.2. Genetic Diversity and Molecular Systematics...................................... 3 1.2.1. Molecular Techniques .................................................................... 4 1.2.1.1. AFLP...................................................................................... 5 1.2.1.2. SSR ........................................................................................ 7 1.3. Solanaceae Family ............................................................................. 11 1.3.1. Genus Solanum............................................................................. 13 1.3.2. Eggplant (Solanum melongena).................................................... 14 1.4. Eggplant Genetic Diversity................................................................. 19 1.5. Studies of Genetic Diversity in Eggplant .......................................... 24 CHAPTER 2. MATERIALS AND METHODS.......................................................... 30 2.1. Materials ............................................................................................. 30 2.1.1. Plant Material ............................................................................... 30 2.1.2.Sample DNAs ................................................................................ 35 2.1.2.1. Extraction............................................................................. 35 2.1.2.2. Quantity Checking ............................................................... 35 2.2. Methods .............................................................................................. 37 2.2.1. AFLP............................................................................................. 37 2.2.2. SSR ............................................................................................... 39 2.2.2.1. Design and Checking of the SSR Primers ........................... 39 2.2.2.2. SSR Protocol........................................................................ 40 CHAPTER 3. RESULTS AND DISCUSSION OF AFLP DATA .............................. 43 3.1. Results................................................................................................. 43 3.1.1. Pre-Experiments and Their Results .............................................. 43 vi
3.1.2. Analysis and results of the AFLP Data......................................... 46 3.2. Discussion .......................................................................................... 50 CHAPTER 4. RESULTS AND DISCUSSION OF SSR DATA................................. 52 4.1. Results................................................................................................. 52 4.1.1. Pre-Experiments and Their Results .............................................. 52 4.1.2. Analysis and Results of the SSR Data.......................................... 61 4.2. Discussion........................................................................................... 67 CHAPTER 5. CONCLUSION AND FUTURE PERSPECTIVE................................ 69 REFERENCES ............................................................................................................... 71 vii
Page 1 and 2: DETERMINATION OF GENETIC DIVERSITY
Page 3 and 4: ACKNOWLEDGEMENTS I want to present
Page 5: ÖZET PATLICAN VE YABAN TÜRLER ARA
Page 9 and 10: Figure 3.1. An example of AFLP stud
Page 11 and 12: 1.1. Diversity and Systematics CHAP
Page 13 and 14: are drawn (Li 1997 and Raven et al.
Page 15 and 16: y DNA-based methods and recombinant
Page 17 and 18: 1.2.1.2. SSR Figure 1.3. The protoc
Page 19 and 20: cDNA, all of which in fact were syn
Page 21 and 22: 1.4. Solanaceae Family The Solanace
Page 23 and 24: Figure 1.7. An example of a phyloge
Page 25 and 26: 1998, Daunay et al. 1999 and Kashya
Page 27 and 28: and Chavan 1998 and Kashyap et al.
Page 29 and 30: Collonnier et al. 2001). Chlorine,
Page 31 and 32: Figure 1.11. Plant species used in
Page 33 and 34: Figure 1.12. Phylogenetic classific
Page 35 and 36: Gottlieb 1995 and Kaur et al. 2004)
Page 37 and 38: Jones et al. 1997). Digestion point
Page 39 and 40: informative for both plants and ver
Page 41 and 42: Table 2.1. Turkish eggplants charac
Page 43 and 44: Table 2.2. Eggplant and its wild re
Page 45 and 46: 2.1.2.Sample DNAs 2.1.2.1. Extracti
Page 47 and 48: Table 2.5. Wild Eggplants Nanodrop
Page 49 and 50: Other modifications in this step we
Page 51 and 52: 41 Table 2.7. Repeat motifs and seq
Page 53 and 54: 3.1. Results CHAPTER 3 RESULTS AND
Page 55 and 56: Figure 3.1. An example of AFLP stud
Page 57 and 58:
47 Figure 3.3. Dendrogram showing c
Page 59 and 60:
49 8 16 18 22 23 33 37 40 42 43 44
Page 61 and 62:
and Levin et al. 2006). Intraspecie
Page 63 and 64:
Table 4.1. Repeat motifs, numbers o
Page 65 and 66:
55 Table 4.2. SSR primers repeat mo
Page 67 and 68:
57 SGN EST Identifier Number of Uni
Page 69 and 70:
After design of the primers and the
Page 71 and 72:
CA, USA). 1:5, 1:10, 1:20, and 1:30
Page 73 and 74:
63 Figure.4.4. Dendrogram showing s
Page 75 and 76:
65 Dim-2 0.40 0.20 -0.01 -0.21 8 4
Page 77 and 78:
4.2. Discussion According to the st
Page 79 and 80:
CHAPTER 5 CONCLUSION AND FUTURE PER
Page 81 and 82:
REFERENCES Bremer, B., Bremer, K.,
Page 83 and 84:
Karihaloo, J.L., Gottlieb, L.D., 19
Page 85 and 86:
Raven, P.H., Evert, R.F., Eichhorn,
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