Rapidly evolving genes and genetic systems:
Gespeichert in:
Format: | Buch |
---|---|
Sprache: | English |
Veröffentlicht: |
Oxford
Oxford Univ. Press
2012
|
Ausgabe: | 1. ed. |
Schlagworte: | |
Online-Zugang: | Inhaltsverzeichnis Klappentext |
Beschreibung: | XIX, 288 S. Ill., graph. Darst. |
ISBN: | 9780199642281 9780199642274 |
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Datensatz im Suchindex
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adam_text |
Ever since the pioneering work of Darwin and Wallace, evolutionary biologists have at¬
tempted to understand the evolutionary dynamics of genetic systems. A range of the¬
ories on evolutionary rates—from static to gradual to punctuated to quantum—have
been developed, primarily by comparing morphological changes over geological time-
scales as described in the fossil record. Recent studies, however, are beginning to
change the way that we view evolutionary patterns and processes. New paleontologic-
al, experimental, molecular, and genomic investigations are providing a tremendous
amount of novel data and fresh perspectives, offering valuable insights on the rates of
evolutionary change, particularly in fast-evolving genetic systems.
Rapidly Evolving Genes and Genetic Systems captures these recent exciting develop¬
ments across a broad range of morphological, molecular, cellular, developmental, and
genetic investigations in both natural and experimental populations over a diversity of
life forms. The book provides a fascinating series of case studies that exemplify rapid
evolution and describe the diversity of rapidly evolving genes and genetic systems,
emphasizing the extremely important roles that they play in adaptation, speciation,
and the generation and maintenance of a diversity of biological traits and properties.
This exciting collection showcases the latest research of more than
50
eminent evolu¬
tionary biologists. It will be suitable for senior undergraduate students, graduate stu¬
dents, researchers, and for all those interested in the study of evolution.
Contents
Foreword
xiv
Richard Lewontin
Preface
xvi
List of Contributors
xvii
1
Introduction
1
Rama S. Singh, Jianping Xu, and Rob
].
Kulathinal
1.1
A gradualist history
1
1.2
Mechanisms or rapid and episodic change
2
1.2.1
Unconstrained neutral space
2
1.2.2
Horizontal gene transfer
3
1.2.3
Developmental
macromutations
3
1.2.4
Evolution by gene regulation
3
1.2.5
Coevolutionary forces
4
1.2.6
Sexual selection and sexual arms races
4
1.2.7
Population demography and genetic revolutions
5
1.2.8
Adaptive radiation
5
1.3
Punctuated equilibrium within a microevolution framework
5
1.4
Tempo, mode, and the genomic landscape
6
1.5
'Rapidly evolving genes and genetic systems': a brief overview
7
1.6
Future prospects
8
Part I From Theory to Experiment
2
Theoretical perspectives on rapid evolutionary change
13
Sarah P. Otto
2.1
Introduction
13
2.2
When is strong selection strong?
13
2.3
Does strong selection differ in kind from weak selection?
16
2.4
Concluding thoughts
20
3
Recombination reshuffles the
genotypie
deck, thus accelerating the rate
of evolution
23
Mutai
Albu,
Amir
R.
Kermany, and
Donai
A. Hickey
3.1
Introduction
23
3.2
Simulating selection on multilocus genotypes
24
3.3
Discussion
27
3.4
Conclusions
29
vi
CONTENTS
4
Heterogeneity in neutral divergence across genomic regions induced by
sex-specific hybrid incompatibility
31
Seiji Kumagai and Mara/ K. Uyenoyama
4.1
Introduction
31
4.1.1
Detecting incompatibility factors
31
4.1.2
Within-species polymorphisms for incompatibility factors with
sex-limited transmission
31
4.2
Genealogical migration rate
32
4.2.1
Definition
32
4.2.2
Non-sex-specific incompatibility
33
4.2.3
Sex-specific incompatibility
33
4.3
Applications
33
4.3.1
Mitochondrial introgression
33
4.3.2
Interpreting region-specific Fst
35
4.4
Conclusions
37
5
Rapid evolution in experimental populations of major life forms
40
Jumping Xu
5.1
Introduction
40
5.2
Features of experimental evolution
41
5.3
Types of experimental evolution
42
5.3.1
Directional selection
42
5.3.2
Adaptation
42
5.3.3
Mutation accumulation
42
5.4
Rapid change and divergence among mutation accumulation
population lines
43
5.4.1
Microbial growth rate
43
5.4.2
Other microbial traits
45
5.4.3
Plants and animals
45
5.5
Adaptation and directional selection experiments
47
5.5.1
Adaptation of
E. coli
populations
47
5.5.2
Adaptation of viral populations
47
5.5.3
Adaptation and directional selection in fruit flies
48
5.5.4
Adaptation in yeast
48
5.5.5
Directional selection in mammals
48
5.5.6
Correlated changes between traits
49
5.5.7
Acquisition of novel phenotypes
49
5.6
Genomic analysis of experimental evolution populations
50
5.7
Conclusions and perspectives
50
Part II Rapidly Evolving Genetic Elements
6
Rapid evolution of low complexity sequences and single
amino
acid repeats across eukaryotes
55
Wilfried
Haerty and G. Brian Golding
6.1
Introduction
55
6.2
Rapid evolution of low complexity sequences
55
6.2.1
Mutational processes
56
CONTENTS
vii
6.3 Rapid
divergence
of LCRs and their impact on surrounding sequences
57
6.3.1
LCRs as indicators of regions of lowered purifying
selective pressures
57
6.3.2
Mutagenic effect of LCRs
58
6.4
Low complexity sequences under selection
59
6.4.1
Deleterious effects of LCR size variation
59
6.4.2 DNA
composition
59
6.4.3
LCR distribution
60
6.4.4
Phenotypic effects of LCR size variation
60
6.4.5
Selection for low information content
61
6.5
Perspectives
61
7
Fast rates of evolution in bacteria due to horizontal gene transfer
64
Weilong Hao
7.1
Introduction
64
7.2
Quantifying horizontal gene transfer
65
7.3
Understanding the variation of gene gain and loss
66
7.4
Horizontal gene transfer in duplicated genes
67
7.5
Pseudogenization of horizontally transferred genes
67
7.6
Mobile sequences and gene movement
68
7.7
Gene exchange goes fine-scale
69
7.8
Conclusions
69
8
Rapid evolution of animal
mŕtochondrial
DNA 73
Xuhua Xia
8.1
Introduction
73
8.2
Mitochondrial replication, strand bias, and evolutionary rates
74
8.3
The change in genetic code and evolutionary rate
77
8.4
The change in tRNA genes and evolutionary rate
79
8.5
Conclusions
81
9
Rapid evolution of centromeres and centromeric/kinetochore proteins
83
Kevin C. Roach, Benjamin D. Ross, and Harmit S. Malik
9.1
Centromeres in'the fast lane'
83
9.2
Rapidly evolving centromeric histones
83
9.3
Bewildering centromeric
DNA
complexity and evolution
85
9.4
The 'centromere paradox': conflict, not coevolution
87
9.5
Support for the centromere drive model
89
9.6
Taxonomic
differences in susceptibility to centromere drive
89
9.7
Rapid evolution of other centromeric proteins
90
9.8
Centromere drive and postzygotic isolation between species
91
9.9
Future directions
91
10
Rapid evolution via chimeric genes
94
Rebekah L. Rogers and Daniel L, Hartl
10.1
Introduction
94
10.2
Mechanisms of formation
94
10.3
Selection
96
Viii CONTENTS
10.4
Genomic
stability
96
10.5
Function 97
10.6
Non-coding
DNA 98
10.7
Future directions
99
11
Evolutionary interactions between sex chromosomes and
autosomes
101
Manyuan
Long, Maria D. Vibranovski, and Yong E. Zhang
11.1
Introduction
101
11.2
Gene traffic between sex chromosome and
autosomes
102
11.2.1
Gene traffic in
Drosophila
102
11.2.2
Gene traffic in mammals
103
11.2.3
The cause and consequence of gene traffic
104
11.3
The generality of gene traffic out of the X in the genus
Drosophila
105
11.3.1
Gene traffic in Drosophilidae and RNA-based and DNA-based
duplication
105
11.3.2
Independent tests of gene traffic
105
11.4
Mechanisms underlying gene traffic out of the X: the detection of meiotic
sex chromosome inactivation
107
11.4.1
Evolutionary genetic models
107
11.4.2
Molecular mechanistic models
107
11.5
The X-recruitment of young male-biased genes and gene traffic out of the
X chromosome
108
11.5.1
Age-dependence in
Drosophila
109
11.5.2
Age-dependence in mammals
110
11.5.3
The slow enrichment of
Х
-linked female genes HO
11.6
Concluding remarks 111
12
Evolutionary signatures in non-coding
DNA 115
Dara
G.
Torgerson and Ryan D. Hernandez
12.1
Introduction
115
12.2
Challenges to studying the evolution of non-coding
DNA 116
12.2.1
Identifying functional non-coding
DNA 116
12.2.2
Estimating the neutral evolutionary rate
117
12.2.3
Limitations of identifying rapid evolution in non-coding
DNA 117
12.3
Patterns of evolution in non-coding
DNA 117
12.3.1
Selection in conserved non-coding sequences?
118
12.3.2
Detecting selection in promoters and TFBSs
120
12.3.3
Emerging trends in microRNA binding sites
121
12.3.4
Coding versus non-coding
121
12.4
Future prospects
122
Part III Sex- and Reproduction-Related Genetic Systems
13
Evolution of sperm-egg interaction
127
Melody R. Palmer and Willie]. Swanson
13.1
Introduction
127
13.2
Evolution at each step of sperm-egg interaction
127
CONTENTS ix
13.3
Causes
of rapid evolution
130
13.4
Methods to identify interacting proteins
132
13.5
Conclusions
132
14
Rates of sea urchin bindin evolution
136
H. A. Lessios and Kirk S. Zigler
14.1
Introduction
136
14.2
Function and structure of bindin
136
14.3
Rate of bindin evolution
137
14.4
Possible reasons for different evolutionary rates in bindin
139
14.5
Conclusions and future prospects
141
15
Evolution of
Drosophila
seminal proteins and their networks
144
Alex Wong and Mariana
F. Wolfner
15.1
Introduction
144
15.2
Drosophila
seminal fluid as a model system for rapidly
evolving proteins
144
15.3
Extensive variation in rates of SFP evolution
147
15.4
Selection on a network?
149
15.5
Conclusions
150
16
Evolutionary genomics of the sperm proteome
153
Timothy L.
Karr
and Stew Dorus
16.1
Introduction
153
16.2
Characterization of the
Drosophila
sperm proteome
154
16.3
Molecular evolution of the
Drosophila
sperm proteome
154
16.4
Evolution of novel
Drosophila
sperm components
155
16.4.1
Novel genes in the sperm proteome
156
16.4.2
Expansion and diversification of S-LAP gene family
157
16.5
The mouse sperm proteome: intensified selection on sperm membrane
and acrosome genes
157
16.6
Rapid evolution of immunity-related genes in mammalian sperm
160
16.7
Sexual selection and compartmentalized adaptation in reproductive
genetic systems
161
16.8
Future perspectives
162
17
Fast evolution of reproductive genes: when is selection sexual?
165
Alberto
Civetta
17.1
Introduction
165
17.2
What has been the role of selection during the evolution of male
reproductive genes?
167
17.3
When is selection sexual? The phylogenetic approach
168
17.4
Testing sexual selection in the era of genomes
168
17.5
The need for association studies and functional assays
171
17.6
Conclusions
172
CONTENTS
18 Rapid
morphological, behavioral, and ecological evolution in
Drosophila:
comparisons between the endemic Hawaiian
Drosophila
and the
cactophilic
repleta
species group
176
Patrick M. O'Grady and
Thérèse
Ann
Marków
18.1
Introduction
176
18.1.1
Ecological adaptations
177
18.1.2
Morphological adaptations
177
18.1.3
Behavioral adaptations
178
18.2
Hawaiian
Drosophila
radiation
179
18.2.1
Phylogenetic relationships
179
18.2.2
Sexual adaptations to morphology and behavior
179
18.2.3
Ecological adaptations to morphology and behavior
179
18.3
Cactophilic
Drosophila
radiation in the New World
180
18.3.1
Phylogenetic relationships
180
18.3.2
Rapid evolution of ecological adaptations
180
18.3.3
Rapid evolution of behavioral traits
182
18.4
Conclusions: adaptive radiation versus adaptive infiltration
183
19
Ancient yet fast: rapid evolution of mating genes and mating systems
in fungi
187
Timothy Y. fames
19.1
Introduction
187
19.2
Incompatibility systems in fungi
189
19.3
Fungal reproductive proteins show evidence for positive and
balancing selection
190
19.4
Evidence for rapid evolution of fungal incompatibility genes
and systems
193
19.4.1
Sequence evolution
194
19.4.2
Mating systems and loci
194
19.5
Evidence for ancient
alíeles
and mating systems
196
19.6
Conclusions
198
Part IV Pathogens and their Hosts
20
Rapid evolution of innate immune response genes
203
Brian P.
Lazzaro
and Andrew G. Clark
20.1
The evolution of immunity
203
20.2
Orthology and gene family evolution in antimicrobial immunity
204
20.3
Molecular evolution of the antimicrobial immune system
205
20.4
The evolution of defense against viruses and transposable elements
206
20.5
Concluding remarks
208
21
Rapid evolution of the plague pathogen
211
Ruifu Yang, Yujun
Cui,
and Dongsheng Zhou
21.1
Introduction
211
21.2
Plasmid acquisition in Y.
pestis
212
21.3
The impact of phages on genome structure
213
CONTENTS xi
21.4 Prophages in
the
У.
pestis
genome
213
21.5
CRISPRs diversity and the battle between phage and Y.
pestis
214
21.6
Gene acquisition, loss, and
inactìvation
216
21.7
Rearrangements and copy number variants
217
21.8
Neutral versus adaptive evolution
219
21.9
Conclusions
220
22
Evolution of human erythrocyte-specffic genes involved in malaria
susceptibility
223
Wen-Ya
Ко,
Felicia Gomez, and Sarah A. Tishkoff
22.1
Introduction
223
22.2
Adaptive evolution in erythrocyte-specific genes
224
22.2.1
Genetic variants causing erythrocytic structural, regulatory, or
enzymatic deficiency: candidates for
hétérozygote
advantage
224
22.2.2
Positive selection on erythrocyte-surface receptors
226
22.3
Evolutionary response of the human genome to malaria infection
227
22.3.1
Maintenance of deleterious mutations due to selective
pressure of malaria
227
22.3.2
Effects of population substructure on genetic variation in
malaria-endemic human populations
230
22.3.3
Effects of gene conversion between homologous sequences on
genetic variation at loci associated with malarial susceptibility
232
22.4
Future perspectives
232
Part V From Gene Expression to Development to Speciation
23
The rapid evolution of gene expression
237
Carlo G.
Artieri
23.1
Introduction
237
23.2
One genome harbors many
transcriptomes
238
23.3
Transcriptome
divergence is complex
239
23.4
Factors affecting the rate of evolution of gene expression
240
23.4.1
Spatial heterogeneity
240
23.4.2
Temporal heterogeneity
241
23.5
Beyond comparisons of expression levels
242
23.6
Open questions and future directions
243
24
Rate variation in the evolution of development: a phylogenetic
perspective
246
Artyont
Kopp
24.1
Introduction
246
24.2
Examples of rate variation in the evolution of development
247
24.2.1
Same clade, different pathways: evolution of vulval development
in rhabditid nematodes
247
24.2.2
Same pathway, different clades: evolution of sex combs and
pigmentation in
Drosophila
248
xii CONTENTS
24.2.3
Same
clade,
same pathway, different genes: evolution of
embryonic development and sex determination in insects
251
24.3
Technical and conceptual challenges to quantifying the evolution
of development
252
24.4
Future directions: the promise of phylogenetic approaches to the
evolution of development
253
25
Natural hybridization as a catalyst of rapid evolutionary change
256
Michael
L
Arnold, Jennifer A.P. Hamlin, Amanda
N.
Brothers, and
Evangeline S.
Ballerini
25.1
Introduction
256
25.2
Adaptive trait introgression: when strange is really good
256
25.2.1
Adaptive trait transfer in
Canis:
wolves in dogs' clothing
257
25.2.2
Adaptive trait origin in Saccharomyces cerevisiae: hybrids
make the best wine
258
25.3
Hybrid speciation: when opposites attract
259
25.3.1
Homoploid hybrid speciation: hybrid butterflies (quickly)
change their spots
259
25.3.2
Allopolyploid speciation:
Tragopogón
hybrid polyploids form
again, and again, and again
.
in less than
100
years
. 260
25.4
Natural hybridization and adaptive radiations: hybrid speciation
on steroids
261
25.4.1
Hybridization and adaptive radiations of Lake Malawi cichlids:
from hybrid swarm to
800
species, in one lake?!
261
25.4.2
Hybridization and adaptive radiations in Alpine lake whitefish:
Swiss fish diversify after the last big thaw
262
25.4.3
Hybridization and adaptive radiations in Hawaiian silverswords:
allopolyploids in an island paradise
263
25.5
Conclusions and future prospects
264
26
Rapid evolution of pollinator-mediated plant reproductive isolation
266
Annika
M.
Мое,
Wendy
L.
Clement, and George D. Weiblen
26.1
Plant-insect diversification
266
26.2
Pollination and reproductive isolation
266
26.3
Ficus
versus Castffleae
267
26.4
A pollinator-mediated model for fig speciation
269
26.5
Future directions: plant-pollinator interactions and rapid evolution
271
27
Sexual system genomks and speciation
274
Rob J. Kulathinal and Rama S. Singh
27.1
In the beginning: Darwin and Wallace on sexual selection and speciation
274
27.2
The Modern Synthesis and the development of speciation theory
275
27.3
A new paradigm: the genomics of sexual systems and the origin
of species
276
27.3.1
Functional genomics: organization into sexual and
non-sexual systems
277
27.3.2
Higher variation among reproductive systems
277
CONTENTS xiii
27.3.3
Strength of
sexual
selection
278
27.3.4
Sexual systems interaction, coevolution, and rapid change
279
27.3.5
Rapid breakdown of sexual systems in species hybrids
280
27.4
Towards a post-genomics synthesis of speciation
280
27.5
Future prospects: sex as a major force in evolution
281
Index
285 |
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author_GND | (DE-588)122152069 |
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classification_rvk | WG 8000 |
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discipline | Biologie |
edition | 1. ed. |
format | Book |
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genre | (DE-588)4143413-4 Aufsatzsammlung gnd-content |
genre_facet | Aufsatzsammlung |
id | DE-604.BV039945204 |
illustrated | Illustrated |
indexdate | 2024-12-06T17:00:44Z |
institution | BVB |
isbn | 9780199642281 9780199642274 |
language | English |
oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-024803215 |
oclc_num | 820371988 |
open_access_boolean | |
owner | DE-11 DE-M49 DE-BY-TUM DE-703 |
owner_facet | DE-11 DE-M49 DE-BY-TUM DE-703 |
physical | XIX, 288 S. Ill., graph. Darst. |
publishDate | 2012 |
publishDateSearch | 2012 |
publishDateSort | 2012 |
publisher | Oxford Univ. Press |
record_format | marc |
spelling | Rapidly evolving genes and genetic systems ed. by Rama S. Singh ... 1. ed. Oxford Oxford Univ. Press 2012 XIX, 288 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Genetische Variabilität (DE-588)4264352-1 gnd rswk-swf Populationsgenetik (DE-588)4046804-5 gnd rswk-swf Evolutionsbiologie (DE-588)4153283-1 gnd rswk-swf Gen (DE-588)4128987-0 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Evolutionsbiologie (DE-588)4153283-1 s Populationsgenetik (DE-588)4046804-5 s Genetische Variabilität (DE-588)4264352-1 s Gen (DE-588)4128987-0 s DE-604 Singh, Rama S. 1945- Sonstige (DE-588)122152069 oth Digitalisierung UB Bayreuth - ADAM Catalogue Enrichment application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024803215&sequence=000003&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis Digitalisierung UB Bayreuth - ADAM Catalogue Enrichment application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024803215&sequence=000004&line_number=0002&func_code=DB_RECORDS&service_type=MEDIA Klappentext |
spellingShingle | Rapidly evolving genes and genetic systems Genetische Variabilität (DE-588)4264352-1 gnd Populationsgenetik (DE-588)4046804-5 gnd Evolutionsbiologie (DE-588)4153283-1 gnd Gen (DE-588)4128987-0 gnd |
subject_GND | (DE-588)4264352-1 (DE-588)4046804-5 (DE-588)4153283-1 (DE-588)4128987-0 (DE-588)4143413-4 |
title | Rapidly evolving genes and genetic systems |
title_auth | Rapidly evolving genes and genetic systems |
title_exact_search | Rapidly evolving genes and genetic systems |
title_full | Rapidly evolving genes and genetic systems ed. by Rama S. Singh ... |
title_fullStr | Rapidly evolving genes and genetic systems ed. by Rama S. Singh ... |
title_full_unstemmed | Rapidly evolving genes and genetic systems ed. by Rama S. Singh ... |
title_short | Rapidly evolving genes and genetic systems |
title_sort | rapidly evolving genes and genetic systems |
topic | Genetische Variabilität (DE-588)4264352-1 gnd Populationsgenetik (DE-588)4046804-5 gnd Evolutionsbiologie (DE-588)4153283-1 gnd Gen (DE-588)4128987-0 gnd |
topic_facet | Genetische Variabilität Populationsgenetik Evolutionsbiologie Gen Aufsatzsammlung |
url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024803215&sequence=000003&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=024803215&sequence=000004&line_number=0002&func_code=DB_RECORDS&service_type=MEDIA |
work_keys_str_mv | AT singhramas rapidlyevolvinggenesandgeneticsystems |