Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms:
Gespeichert in:
| 1. Verfasser: | |
|---|---|
| Format: | Abschlussarbeit Buch |
| Sprache: | English |
| Veröffentlicht: |
2012
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| Schlagworte: | |
| Online-Zugang: | Volltext https://nbn-resolving.org/urn:nbn:de:bvb:91-diss-20120417-1094895-1-1 Inhaltsverzeichnis |
| Beschreibung: | 101 Bl. graph. Darst. |
Internformat
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| 245 | 1 | 0 | |a Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms |c Yongle Li |
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Datensatz im Suchindex
| _version_ | 1804149328578609152 |
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| adam_text | IMAGE 1
CONTENTS
CONTENTS 1. INTRODUCTION 7
1.1 CULTIVATION AND USES O F RYE 8
1.2 GENETIC DIVERSITY O F RYE 10
1.3 FROST TOLERANCE IN PLANTS 11
1.4 ASSOCIATION STUDIES AND LINKAGE DISEQUILIBRIUM 13
1.5 OBJECTIVES O F THIS STUDY 17
2. MATERIAL AND METHODS 18
2.1 PLANT MATERIAL 18
2.2 PHENOTYPIC DATA ASSESSMENT 18
2.3 PHENOTYPIC DATA ANALYSES 19
2.3.1 CONTROLLED PLATFORM 20
2.3.2 SEMI-CONTROLLED PLATFORM 20
2.3.3 FIELD PLATFORM 21
2.4 CANDIDATE GENE SELECTION AND PRIMER DESIGN 21
2.5 AMPLIFICATION O F CANDIDATE GENES AND DNA SEQUENCING 23
2.6 SEQUENCE ANALYSES 23
2.7 SSR GENOTYPING AND GENETIC DIVERSITY ANALYSES 24
2.8 ESTIMATION O F POPULATION STRUCTURE AND KINSHIP 25
2.9 LINKAGE DISEQUILIBRIUM 26
2.10 SNP-FT ASSOCIATION ANALYSES 27
2.11 HAPLOTYPE-FT ASSOCIATION AND EPISTASIS 28
3. RESULTS 30
3.1 PHENOTYPIC VARIATION IN THE THREE PHENOTYPING PLATFORMS 30
3.2 GENETIC DIVERSITY 35
3.2.1 ASSESSING GENETIC DIVERSITY O F THE FIVE RYE POPULATIONS USING SSR
MARKERS 35
3.2.2 SEQUENCE POLYMORPHISMS AND GENETIC DIVERSITY IN CANDIDATE GENES 36
3.2.3 GENETIC VARIATION WITHIN AND BETWEEN POPULATIONS 40
3.3 POPULATION STRUCTURE AND KINSHIP 41
3.4 DECAY O F LINKAGE DISEQUILIBRIUM 43
3.5 ASSOCIATION ANALYSES 46
3.5.1 SNP-FT ASSOCIATIONS 46
3.5.2 HAPLOTYPE-FT ASSOCIATIONS 50
1
HTTP://D-NB.INFO/102690255X
IMAGE 2
CONTENTS
3.5.3 COMPLEX EPISTASIS CONTRIBUTING TO FROST TOLERANCE 53
3.5.4 SNP BY ENVIRONMENT INTERACTIONS 54
4. DISCUSSION 55
4.1 A DIVERSE GERMPLASM COLLECTION FOR WINTER RYE ASSOCIATION STUDIES 55
4.1.1 COMPARING GENETIC DIVERSITY O F THE FIVE WINTER RYE POPULATIONS TO
OTHER SPECIES 55
4.1.2 GENETIC DIFFERENTIATION BETWEEN THE PETKUS AND EASTERN EUROPEAN
POPULATIONS 57
4.1.3 S ELECTION PATTERN AND DECLINE O F LD 57
4.2 ASSOCIATION ANALYSES 58
4.2.1 BIOLOGICAL IMPLICATIONS O F CANDIDATE GENES WITH SIGNIFICANT
ASSOCIATIONS 58
4.2.2 EFFECT SIZES O F SNP-FT ASSOCIATIONS 61
4.2.3 CORRELATIONS O F SNP-FT ASSOCIATIONS BETWEEN PLATFORMS 61
4.2.4 CONTEXT-DEPENDENT EFFECTS O F ASSOCIATION ANALYSES 62
4.2.5 COMPARISON BETWEEN SNP- AND HAPLOTYPE-FT ASSOCIATION ANALYSES 64
4.2.6 MULTIPLE TESTING IN ASSOCIATION ANALYSES 65
4.3 OUTLOOK 66
5. SUMMARY 69
6. ACKNOWLEDGEMENTS 71
7. REFERENCES 72
8. ADDITIONAL TABLES AND FIGURES 83
9. CURRICULUM VITAE 100
10. LIST O F PUBLICATIONS 101
2
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| spelling | Li, Yongle Verfasser aut Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms Yongle Li 2012 101 Bl. graph. Darst. txt rdacontent n rdamedia nc rdacarrier München, Techn. Univ., Diss., 2012 Roggenzüchtung (DE-588)4381138-3 gnd rswk-swf Frostresistenz (DE-588)4136406-5 gnd rswk-swf Allel (DE-588)4271150-2 gnd rswk-swf Genanalyse (DE-588)4200230-8 gnd rswk-swf Roggen (DE-588)4178338-4 gnd rswk-swf Phänotyp (DE-588)4248244-6 gnd rswk-swf (DE-588)4113937-9 Hochschulschrift gnd-content Roggen (DE-588)4178338-4 s Frostresistenz (DE-588)4136406-5 s Phänotyp (DE-588)4248244-6 s Genanalyse (DE-588)4200230-8 s Allel (DE-588)4271150-2 s Roggenzüchtung (DE-588)4381138-3 s b DE-604 Erscheint auch als Online-Ausgabe urn:nbn:de:bvb:91-diss-20120417-1094895-1-1 http://mediatum.ub.tum.de/node?id=1094895 Verlag kostenfrei Volltext https://nbn-resolving.org/urn:nbn:de:bvb:91-diss-20120417-1094895-1-1 Resolving-System DNB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=025162855&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Li, Yongle Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms Roggenzüchtung (DE-588)4381138-3 gnd Frostresistenz (DE-588)4136406-5 gnd Allel (DE-588)4271150-2 gnd Genanalyse (DE-588)4200230-8 gnd Roggen (DE-588)4178338-4 gnd Phänotyp (DE-588)4248244-6 gnd |
| subject_GND | (DE-588)4381138-3 (DE-588)4136406-5 (DE-588)4271150-2 (DE-588)4200230-8 (DE-588)4178338-4 (DE-588)4248244-6 (DE-588)4113937-9 |
| title | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms |
| title_auth | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms |
| title_exact_search | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms |
| title_full | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms Yongle Li |
| title_fullStr | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms Yongle Li |
| title_full_unstemmed | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms Yongle Li |
| title_short | Association analysis of frost tolerance in rye (Secale cereale L.) using candidate gene polymorphisms and phenotypic data from controlled, semi-controlled, and field phenotyping platforms |
| title_sort | association analysis of frost tolerance in rye secale cereale l using candidate gene polymorphisms and phenotypic data from controlled semi controlled and field phenotyping platforms |
| topic | Roggenzüchtung (DE-588)4381138-3 gnd Frostresistenz (DE-588)4136406-5 gnd Allel (DE-588)4271150-2 gnd Genanalyse (DE-588)4200230-8 gnd Roggen (DE-588)4178338-4 gnd Phänotyp (DE-588)4248244-6 gnd |
| topic_facet | Roggenzüchtung Frostresistenz Allel Genanalyse Roggen Phänotyp Hochschulschrift |
| url | http://mediatum.ub.tum.de/node?id=1094895 https://nbn-resolving.org/urn:nbn:de:bvb:91-diss-20120417-1094895-1-1 http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=025162855&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT liyongle associationanalysisoffrosttoleranceinryesecalecerealelusingcandidategenepolymorphismsandphenotypicdatafromcontrolledsemicontrolledandfieldphenotypingplatforms |