Genetic analyses of late Pleistocene cave bears (Ursus spelaeus):
Gespeichert in:
| 1. Verfasser: | |
|---|---|
| Format: | Buch |
| Sprache: | English |
| Veröffentlicht: |
2002
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| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | Leipzig, Univ., Diss., 2002 |
| Beschreibung: | 93 Bl. Ill., graph. Darst. |
Internformat
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Datensatz im Suchindex
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CONTENTS
1. INTRODUCTION AND AIMS OF THIS THESIS. 1
1.1. RELIABILITY OF ANCIENT DNA SEQUENCES
. 1
1.2. THE EUROPEAN CAVE BEAR (URSUS SPELAEUS) AS A MODEL FOR DIACHRONICAL
STUDIES ON THE EVOLUTION AND MIGRATION OF ANIMALS USING ANCIENT
DNA. 4
2. MATERIALS AND METHODS. 8
2.1. MATERIALS
. 8
2.1.1. SAMPLES. 8
2.1.2. SEQUENCES. 8
2.1.3. CHEMICALS. 8
2.1.4. ENZYMES. 9
2.1.5. NUCLEOTIDES AND OLIGONUCLEOTIDES. 10
2.1.6. TECHNICAL EQUIPMENT. 11
2.1.7. BUFFERS. 11
2.2. METHODS
. 13
2.2.1. DNA SEQUENCE RETRIEVAL. 13
2.2.1.1. DNA ISOLATION FROM ANCIENT BONE SPECIMEN. 13
2.2.1.2. PREPARATION OF SILICA. 14
2.2.1.3. ANCIENT DNA AMPLIFICATION. 14
2.2.1.4. CLONING OF PCR PRODUCTS. 14
2.2.1.5. SEQUENCING. 15
2.2.1.6. BASE CALLING AND SEQUENCE ALIGNMENT. 16
2.2.1.7. SINGLE PRIIHER EXTENSIONS. 16
2.2.1.8. QUANTITATION. 17
2.2.1.9. URACIL-N-GLYCOSYLASE TREATMENT. 17
2.2.1.10 DATING. 18
2.2.2. ANALYSIS. 18
2.2.2.1. MEAN PAIRWISE SEQUENCE DIFFERENCE. 18
2.2.2.2. TESTING FOR EXPANSION. 18
2.2.2.3. TIME TO THE MOST RECENT COMMON ANCESTOR (MRCA). 19
2.2.2.4. TREE RECONSTRUCTIONS. 20
2.2.2.5. ANALYSIS OF MOLECULAR VARIANCE. 21
2.2.2.6. SCORING OF SINGLETON SUBSTITUTIONS. 21
2.2.2.7. ESTIMATION OF DEAMINATION RATES. 22
BIBLIOGRAFISCHE INFORMATIONEN
HTTP://D-NB.INFO/966280466
CONTENTS
2.2.2.8. DEAMINATION HOTSPOTS. 22
3. RESULTS. 24
3.1 EFFECT OF CYTOSINE DEAMINATION ON THE ACCURACY
OF ANCIENT DNA SEQUENCES
. 24
3.1.1. PATTERNS OF NUCLEOTIDE SUBSTITUTIONS. 24
3.1.2. QUANTITATION. 29
3.1.3. SUBSTITUTIONS ON ONE DNA STRAND. 30
3.1.4. EFFECT OF URACIL N-GLYCOSYLASE TREATMENT. 31
3.1.5. POSITIONAL DISTRIBUTION OF MISINCORPORATIONS. 32
3.2. GENETIC DIVERSITY OF LATE PLEISTOCENE CAVE BEARS
. 33
3.2.1. DNA SEQUENCE RETRIEVAL AND DATING. 33
3.2.1.1. DNA SEQUENCE RETRIEVAL. 33
3.2.1.2. DATING. 38
3.2.2. PHYLOGENETIC RELATIONSHIP OF BROWN BEARS AND CAVE BEARS. 39
3.2.3. PHYLOGENETIC RELATIONSHIP OF SMALL CAVE BEARS. 41
3.2.4. TIME TO THE MOST RECENT COMMON ANCESTOR (MRCA). 47
3.2.5. INTRASPECIFIC MTDNA DIVERSITY IN CAVE BEARS. 48
3.2.6. GENETIC DIVERSITY WITHIN CAVES. 51
3.2.7. PHYLOGEOGRAPHIC PATTERN. 52
4. DISCUSSION. 55
4.1. ACCURACY OF DNA SEQUENCE RETRIEVAL
. 55
4.1.1. TYPES OF MISCODING DAMAGE. 55
4.1.2. INFLUENCE ON BIOLOGICAL CONCLUSIONS DRAWN FROM
ANCIENT DNA SEQUENCES. 58
4.2. GENETIC DIVERSITY OF THE EXTINCT CAVE BEAR (U. SPELAEUS)
. 63
4.2.1. GENERAL CONSIDERATIONS. 63
4.2.1.1. RELIABILITY OF SEQUENCING RESULTS. 63
4.2.1.2. DIACHRONICAL STUDIES OF MTDNA DIVERSITY. 64
4.2.1.3. DATING OF GENETIC EVENTS. 66
4.2.2. SUBDIVIDED POPULATIONS, PLEISTOCENE REFUGIA
OR DIFFERENT SPECIES?. 67
CONTENTS
4.2.3. MIGRATION VS. PARALLEL EVOLUTION. 72
4.2.4. A "SPECIES FLOCK" OF LATE PLEISTOCENE CAVE BEARS?. 74
5. SUMMARY. 76
6. BIBLIOGRAPHY. 78
7. ABBREVIATIONS.1. 90
8. ACKNOWLEDGEMENTS. 92
9. CURRICULUM VITAE. 93 |
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| indexdate | 2024-11-22T17:35:56Z |
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| language | English |
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| physical | 93 Bl. Ill., graph. Darst. |
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| spelling | Hofreiter, Michael 1973- Verfasser (DE-588)124374433 aut Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) vorgelegt von Michael Hofreiter 2002 93 Bl. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Leipzig, Univ., Diss., 2002 Mitochondrium (DE-588)4124939-2 gnd rswk-swf DNS-Sequenz (DE-588)4150352-1 gnd rswk-swf Höhlenbär (DE-588)4128442-2 gnd rswk-swf Jungpleistozän (DE-588)4302514-6 gnd rswk-swf Phylogenie (DE-588)4076110-1 gnd rswk-swf (DE-588)4113937-9 Hochschulschrift gnd-content Jungpleistozän (DE-588)4302514-6 s Höhlenbär (DE-588)4128442-2 s Phylogenie (DE-588)4076110-1 s Mitochondrium (DE-588)4124939-2 s DNS-Sequenz (DE-588)4150352-1 s DE-604 DNB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=010205748&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Hofreiter, Michael 1973- Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) Mitochondrium (DE-588)4124939-2 gnd DNS-Sequenz (DE-588)4150352-1 gnd Höhlenbär (DE-588)4128442-2 gnd Jungpleistozän (DE-588)4302514-6 gnd Phylogenie (DE-588)4076110-1 gnd |
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| title | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) |
| title_auth | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) |
| title_exact_search | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) |
| title_full | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) vorgelegt von Michael Hofreiter |
| title_fullStr | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) vorgelegt von Michael Hofreiter |
| title_full_unstemmed | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) vorgelegt von Michael Hofreiter |
| title_short | Genetic analyses of late Pleistocene cave bears (Ursus spelaeus) |
| title_sort | genetic analyses of late pleistocene cave bears ursus spelaeus |
| topic | Mitochondrium (DE-588)4124939-2 gnd DNS-Sequenz (DE-588)4150352-1 gnd Höhlenbär (DE-588)4128442-2 gnd Jungpleistozän (DE-588)4302514-6 gnd Phylogenie (DE-588)4076110-1 gnd |
| topic_facet | Mitochondrium DNS-Sequenz Höhlenbär Jungpleistozän Phylogenie Hochschulschrift |
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