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ENCYCLOPEDIA OF
EVOLUTIONARY BIOLOGY
ENCYCLOPEDIA OF
EVOLUTIONARY BIOLOGY
EDITOR IN CHIEF
RICHARD M. KLIMAN
Cedar Crest College, Allentown, PA, USA
VOLUME 1
Academic Press is an imprint of Elsevier
The Boulevard, Langford Lane, Kidlington, Oxford OX5 1GB
225 Wyman Street, Waltham MA, 02451
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ISBN 978-0-12-800049-6
16 17 18 19 20 10 9 8 7 6 5 4 3 2 1
EDITOR IN CHIEF
v
SECTION EDITORS
Tim Coulson’s primary interest is in creating better links between the fields of ecology and
evolution. He does this by developing theory, parameterising models for field and laboratory
systems, making predictions from these models, and, where possible, testing these predic-
tions with experiments. He works on a range of systems, from bulb mites within the la-
boratory, to guppies living in streams in Trinidad, to wolves in Yellowstone. His motivation
to do this comes from observations that ecological and evolutionary change can be observed
occurring on similar time scales, yet ecological theory typically ignores evolutionary pro-
cesses and vice versa.
Tim was awarded his PhD in plant ecology from Imperial College, London, in 1994. He
moved on to research genotype-by-environment interactions as Natural Environment Re-
search Council (NERC)-funded post-doc at the Institute of Zoology in London. He remained
at the Institute on a fellowship where he developed models to investigate the economic and
life history consequences of a range of population management strategies. In 2000 he moved
to the University of Cambridge, where he briefly lecturered in the Zoology department. In
2004 he moved back to Imperial College London as a senior lecturer where he started
developing models that allow the simultaneous investigation of the dynamics of life history, populations, and quantitative
characters. In 2007 he became Professor of Population Biology at Imperial College London. He left Imperial in 2013 to take up his
current position as Professor of Zoology at the University of Oxford. He is also a Professorial fellow of Jesus College, Oxford.
Andrew Forbes
vii
viii Section Editors
Rosemary Gillespie is a Professor at the University of California, Berkeley, where she also
holds the Schlinger Chair in Systematics. She is Past President of the International Bio-
geography Society and Trustee and Fellow of the California Academy of Sciences, and serves as
Associate Editor for Molecular Ecology. Gillespie was born and educated in Scotland, receiving
her BSc in Zoology from Edinburgh University in 1980. She came to the US to conduct
graduate work on the behavioral ecology of spiders at the University of Tennessee. After her
PhD she spent several months at the University of South in Tennessee, and then started work
at the University of Hawaii in 1987, initially as a postdoc, and then in 1992 as Assistant
Professor in Zoology and Researcher in the Hawaiian Evolutionary Biology Program. It was
during her first year in Hawaii that she discovered an adaptive radiation of Tetragnatha
spiders. She left Hawaii in 1999 to join the faculty at the University of California in Berkeley,
where she continues her research focus on the islands of the Pacific, Hawaii in particular,
using islands of known age and isolation to assess the combined temporal and spatial
dimension of biogeography and determine patterns of diversification, adaptive radiation,
and associated community assembly.
David Guttman received his PhD from Stony Brook University in 1994 working with Daniel
Dykhuizen on questions related to the role and importance of recombination in structuring
genetic diversity in bacterial populations. He followed this with a postdoc in molecular
evolution with Brian and Deborah Charlesworth at the University of Chicago, and a second
postdoc at the University of Chicago with Jean Greenberg to gain experience in the fields of
molecular plant pathology and plant-microbe interactions. He started his faculty position at
the University of Toronto in 2000, and is currently a Professor in the Department of Cell &
Systems Biology (CSB). He is also the Associate Chair for Research in CSB, founder and
Director of the University of Toronto Centre for the Analysis of Genome Evolution &
Function, and Canada Research Chair in Comparative Genomics. He has served as the Chair
of the American Society for Microbiology, Division R (Evolutionary and Genomic Micro-
biology), and was the PLoS Pathogens Section Editor for Bacterial Evolution & Genomics.
Dr. Guttman runs a highly diverse research program generally focused on bacterial
evolutionary genomics, with three major foci: (1) the evolution of host specificity and
virulence in plant pathogenic bacteria; (2) microbial comparative genomics; and (3) studies
of the human and plant-associated microbiome. He is best known for elucidating and
linking evolutionary and mechanistic processes that determine the course and fate of bac-
terial infections, and characterizing the impact of genetic variation on the balance between
disease and immunity.
Norman A. Johnson, the section editor for Applied Evolution, is an evolutionary geneticist
and author. He received his PhD from the University of Rochester in 1992 and did post-
doctoral research at the University of Chicago. His research interests have generally focused
on aspects of speciation, specifically those related to the genetics and evolution of hybrid
incompatibility: sterility, inviability, or other reduction of fitness in hybrids between species.
Dr. Johnson, an adjunct professor in the Biology Department at the University of Massa-
chusetts at Amherst, has taught classes there, as well as at Hampshire College, the University
of Texas at Arlington, and the University of Chicago.
Dr. Johnson also has a long-standing commitment toward improving the communi-
cation of science in general and evolutionary biology in particular to other scientists, edu-
cators, and the public at large. He is the author of Darwinian Detectives: Revealing the Natural
History of Genes and Genomes (Oxford University Press: 2007), a book geared to general
audiences that shows how biologists use DNA sequence data to make inferences about
evolutionary processes. He also was the lead organizer for a working group on communi-
cating human evolution at the National Evolutionary Synthesis Center (NESCent).
Section Editors ix
Laura Kubatko received a PhD in Biostatistics from The Ohio State University (OSU) in
1999. After seven years on the faculty at the University of New Mexico, she returned to OSU
in the Fall of 2006, and is now Professor of Statistics and of Evolution, Ecology, and
Organismal Biology at OSU. Laura served as an Associate Director of the Mathematical
Biosciences Institute at OSU from 2013–2015. At OSU, she is a Faculty Affiliate of the
Initiative in Population Research, and a Faculty Affiliate in Translational Data Analytics
(TDA@OSU). She holds appointments as an Affiliate Faculty Member at the Battelle Center
for Mathematical Medicine at Nationwide Children’s Hospital in Columbus and as an Ad-
junct Research Scientist at Lovelace Respiratory Research Institute in Albuquerque, NM.
Laura’s research interests are in statistical genetics, with a focus on the development of
statistical methods for inferring phylogenies from molecular data. Her recent work in this
area concentrates on bridging the gap between traditional phylogenetic techniques and
methodology used in population genetics analyses, primarily through the application of coalescent theory to species-level
phylogenetic inference. She develops and distributes several software packages for phylogenetic inference, and has been an active
member of the Society of Systematic Biologists. She has served as an Associate Editor for the journal Systematic Biology since 2007.
Amy Litt has been studying plant evolution and diversity since her PhD on floral structure
and evolution in the neotropical plant family Vochysiaceae, known for its beautiful but
unusual flowers many of which have only one petal and one stamen. While completing her
PhD in plant systematics and morphology in the joint City University of New York/New
York Botanical Garden Plant Sciences program under Scott Mori and Dennis Stevenson, she
became interested in the molecular basis of plant diversity. She did her post-doc in the
developmental genetics lab of Vivian Irish at Yale University on the evolution of a family of
transcription factors involved in flower development, and she continues to study the func-
tional evolution of this gene family currently. After one year on the faculty of University of
Alabama, she moved back to The New York Botanical Garden as Director of Plant Genomics,
where she developed her research program studying the evolution of plant form along two
paths: studying evolutionary changes in genes to see how those changes affected flower and
fruit form; and identifying the genes that underlie differences in form among closely related
species. Dr. Litt also served as a program director in Plant, Fungal, and Microbial Devel-
opment and Evolutionary Development at the National Science Foundation. She recently moved to the University of California at
Riverside, where she continues to study the genetic basis of plant diversity.
Claudia Russo was born in Leeds, England, but has lived in Rio de Janeiro, Brazil since she
was two years old.
Claudia has an academic major in Ecology from Universidade Federal do Rio de Janeiro
completed in 1989, and finished her Master’s thesis in 1991 on population genetics of two
actiniid species of sea anemones with different reproductive strategies, under the supervision
of Associate Professor Antonio Mateo Sole-Cava. Her PhD dissertation was on the di-
versification of drosophilids and on the use of a known phylogenetic tree to estimate the
reliability of tree building methods. The dissertation was completed in 1995 under the
supervision of the Evan Pugh Professor Masatoshi Nei who recently received the prestigious
Thomas Hunt Morgan Medal. Her graduate degrees were obtained as a student at the
Genetics Program from the Universidade Federal do Rio de Janeiro and as a visiting scholar
at the Pennsylvania State University (1992–1995).
Claudia is currently the Head of the Genetics Department at the Federal University of Rio
de Janeiro, having been a member since 1997. Claudia has supervised 13 Master’s disser-
tations, eight PhD theses and seven post-docs, of which eight are now Assistant Professors at
universities in Brazil and abroad. She has published 42 academic papers that have been cited over 1,200 times. Her h-index is 14.
Since 2012, Claudia has been a member of the editorial board, and an associate editor of the Molecular Biology and Evolution
journal. Since 2012 she has been a council member for the Pan American Association of Computational Interdisciplinary Sciences
and since 2009 for the Brazilian Association for the Advancement of Science.
Claudia’s general academic interests are on key aspects of animal phylogenetics, including their diversification patterns in time
and space. She has worked with various metazoans groups but more prominently on marine sponges, sea anemones, arthropods,
passerine birds, and mammals. Claudia has also published on the use of known phylogenetic trees to estimate the efficiency of
phylogenetic methods in recovering and rooting those trees. More recently, she has developed some interesting hands-on edu-
cational tools for evolutionary biology practices in the classroom.
Nina Wedell is a professor of evolutionary biology with research interests focused on the
evolutionary ecology of sex. She has worked extensively on various aspects of sexual selec-
tion and sexual conflict, in particular on the role of selfish genetic elements in reproductive
biology. Nina is the Academic lead for the Behaviour research group at the University of
Exeter.
Jason Wolf is Professor of Evolutionary Genetics in the Department of Biology & Bio-
chemistry and The Milner Centre for Evolution at the University of Bath. His research is
unified with a special focus given to understanding the influence that frequently ignored or
under-appreciated sources of genetic variation have on the genotype-phenotype relationship
and how this, in turn, influences evolutionary processes. He integrates theoretical, compu-
tational and empirical quantitative and population genetic techniques to achieve this goal.
He is particularly interested in understanding the evolutionary consequences of various types
of interactions, including gene interactions (epistasis), parent-offspring interactions and
social interactions. He received a PhD from the University of Kentucky, after which he
was a postdoctoral researcher at Indiana University and a US National Science Foundation
Postdoctoral Fellow at Washington University School of Medicine. Prior to moving to the
University of Bath he held positions at the University of Tennessee and the University of
Manchester. He won the Dobzhansky Prize from the Society for the Study of Evolution, a
Young Investigator’s Prize from the American Society of Naturalists and the Scientific Medal
from the Zoological Society of London.
LIST OF CONTRIBUTORS
CF Baer E Bolund
University of Florida Genetics Institute, Gainesville, FL, Uppsala University, Uppsala, Sweden
USA C Bonenfant
SCH Barrett Universite ́ Claude Bernard Lyon 1, Villeurbanne, France
University of Toronto, Toronto, ON, Canada
S Borish
G Barshad California State University East Bay, Hayward, CA,
Ben-Gurion University of the Negev, Beer-Sheva, Israel USA
J Bast JW Boughman
University of Lausanne, Lausanne, Switzerland Michigan State University, East Lansing, MI, USA
xiii
xiv List of Contributors
MN Dawson S Edwards
University of California, Merced, CA, USA Harvard University, Cambridge, MA, USA
AM Dean SP Egan
Laboratory of Microbial Evolution, College of Ecology Rice University, Houston, TX, USA
and Evolution, Guangzhou, PR China; and
BioTechnology Institute, St. Paul, MN, USA Y Eglit
Dalhousie University, Halifax, NS, Canada
JH Degnan
University of New Mexico, Albuquerque, NM, USA IM Ehrenreich
University of Southern California, Los Angeles, CA,
S Devillard USA
Universite ́ Claude Bernard Lyon 1, Villeurbanne, France
E Eizirik
A Dhar ̂ cias, PUCRS, Porto Alegre, Brazil
Faculdade de Biocien
University of Washington, Seattle, WA, USA
S Engen
S Dhole Centre for Biodiversity Dynamics, Trondheim, Norway
University of North Carolina at Chapel Hill, Chapel
Hill, NC, USA JR Etterson
University of Minnesota Duluth, Duluth, MN, USA
GP Dietl
Paleontological Research Institution, Ithaca, NY, USA; WJ Ewens
and Cornell University, Ithaca, NY, USA The University of Pennsylvania, Philadelphia, PA, USA
MR Dietrich CM Fagan
Dartmouth College, Hanover, NH, USA Keene State College, Keene, NH, USA
U Dobrindt DJ Fairbairn
Institute of Hygiene, University of Münster, Münster, University of California, Riverside, CA, USA
Germany; and Interdisciplinary Center for Clinical
Research (IZKF), University of Münster, Münster, R Faria
Germany Institute of Evolutionary Biology (Universitat Pompeu
Fabra-CSIC), Barcelona, Catalonia, Spain; and CIBIO,
E Domingo Centro de Investigac- ão em Biodiversidade e Recursos
Centro de Biología Molecular "Severo Ochoa" (CSIC- Genet́ icos, InBIO, Laboratoŕ io Associado, Universidade
UAM), Consejo Superior de Investigaciones Científicas do Porto, Vairão, Portugal
(CSIC), Madrid, Spain; and Centro de Investgación
Biomédica en Red de Enfermedades Hepáticas y TE Farkas
Digestivas (CIBERehd), Barcelona, Spain University of Connecticut, Storrs, CT, USA
K Donohue JL Feder
Duke University, Durham, NC, USA University of Notre Dame, Notre Dame, IN, USA
M Douhard A Feduccia
Universite ́ Claude Bernard Lyon 1, Villeurbanne, France; University of North Carolina, Chapel Hill, NC, USA
and Universite ́ de Sherbrooke, Sherbrooke, QC, Canada
EJ Feil
MP Dunn University of Bath, Bath, UK
St. John’s University, Jamaica, NY, USA
P Fields
I Dworkin University of Basel, Basel, Switzerland
McMaster University, Hamilton, ON, Canada
JL Fitzpatrick
D Dykhuizen University of Manchester, Manchester, UK
Stony Brook University, Stony Brook, NY, USA
CI Fraser
E Edeline Australian National University, Canberra, ACT,
Sorbonne Universités/UPMC Univ Paris 06/CNRS/ Australia
INRA/IRD/Paris Diderot Univ Paris 07/UPEC/Inst.
d’Ecologie et des Sciences de l’Environnement – Paris JV Freudenstein
(iEES-Paris), Paris, France The Ohio State University, Columbus, OH, USA
Subject Classification List
xxvii
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lain for years within the thick volume. They might have
been there when Professor Lavers bought the encyclopædia.
Michael knew that he bought many of his books second-
hand. Besides, if he had left the notes there, they would
have been missed, and questions asked and search made.
Evidently no one had missed the money.
CHAPTER VI
AN UNWELCOME ENCOUNTER
MICHAEL paid the fifty pounds into his bank, and had the
satisfaction of seeing them entered in his pass-book. He
was so much richer than he had expected to be, yet
somehow he did not feel richer, but poorer. He had rather
the feeling of one who had suffered loss. There was a stain
upon his conscience, and a weight upon his mind; yet, with
the strange perversity of human nature, he would not own
this to himself. He still professed to believe himself justified
in keeping the money he had found. He clung to it, and
liked to think how it had swelled his balance at the bank,
even whilst he knew that he should be filled with shame, if
any one should ever learn how he had come by that money.
"Keep your news till it's wanted, and mind your own
business," responded Michael crossly.
"Do, indeed! I'd like to see 'im ever do anything for anybody
besides 'isself, the close-fisted old curmudgeon. I'd be sorry
for a mouse that had to live on 'is leavings. The idea of 'is
turning on me like that, as if a body couldn't speak about
nothin'."
"Michael! Michael!"
"I've given up the drink, and gambling too, thank God!" said
his brother. "I've been a teetotaler for more than a year,
Michael."
"I'm glad to hear it," replied Michael, his tone implying that
he doubted the statement. "But if that is so, how do you
come to be in such low water? How do you live?"
"I can scarcely tell you how I live," returned the other. "I
shouldn't live at all, if it were not for my little girl."
"I married many years ago, and I had one of the best of
wives, though, God forgive me! I was often a brute to her.
It was foolish of her to take me, no doubt, but I could never
regret it. Whilst she lived, things were better with me; but
when she died I went all wrong again. And now, when I fain
would live a different life, I can't find any one willing to give
me a chance."
"I'm sorry for you," he said loftily, "but it's your own fault.
You made your bed, and you must lie upon it. I did what I
could for you years ago, and ill you repaid me for what I
did. Now I must wipe my hands of you. But here is a shilling
for you."
"That is well," said Michael coldly. "I must confess that had
you come, you would not have found a welcome from me,
since the last time you were at my place, you left me with
good cause to regret your visit."
CHAPTER VII
IN THE GRIP OF PAIN
MICHAEL went to bed that night feeling thoroughly chilled in
body and miserable in mind. Sleep would not come to him,
nor could he get warm, though he put all the wraps he
could find upon his bed. As he turned and tossed upon the
mattress throughout the night, unable to find ease, the
form of his brother as he had seen him on the bridge was
ever before his eyes. What a wretched thing Frank had
made of his life! It was all his own fault, for he had had a
good chance when he was young. And then to think of his
marrying, when he had not enough to keep himself! What
improvidence!
Michael wondered what the little girl was like of whom his
brother had spoken. With the thought, the image of the
professor's sunny-faced, winsome little daughter rose
before his mind. But it was not likely that his niece was at
all like her. A girl who worked at match-making! Well, it was
hard on a respectable, hard-working man to have relatives
of such a description. Michael wished that he had taken
another way home than the way that had led him across
that bridge. He had been so much more comfortable under
the persuasion that his brother was dead.
When Michael woke from the brief sleep that visited him
towards dawn, it was past the hour at which he usually
rose. But when he would fain have bestirred himself in
haste, he found it impossible to do so. His back and limbs
seemed to have grown strangely stiff, and when he tried to
move, an agonising pain shot through them. He struggled
against the unwelcome sensations, and did his best to
persuade himself that he was suffering only from a passing
cramp. But the pain was terrible. He felt as if he were held
in a vice. How to get up he did not know; but he must
manage to do so somehow. It was necessary that he should
get downstairs to open the door for Mrs. Wiggins. Setting
his teeth together and often groaning aloud with the pain,
he managed at last to drag himself out of bed and to get on
his clothes. It was hard work getting downstairs. He felt
faint and sick with pain, when at length he reached the
lower regions. It was impossible to stoop to kindle a fire. He
sank into the old armchair and sat there bolt upright, afraid
to move an inch, for fear of exciting fresh pain, till he heard
Mrs. Wiggins' knock. Then he compelled himself to rise, and
painfully dragged himself forth to the shop door, where he
presented to the eyes of the charwoman such a spectacle of
pain and helplessness as moved her to the utmost
compassion of which she was capable.
"Dear me! Mr. Betts, you do look bad. It's the rheumatics,
that's what it is. I've 'ad 'em myself. Is it your back that's
so very bad? Then it's lumbago, and you'd better let me
iron it."
"I'll let you do nothing of the kind!" cried the old man
angrily. "Do for pity's sake keep away from me; I can't bear
a touch or a jar. Make haste and light me a fire, and get me
a cup of tea. That's all I want."
"Oh dear! That's a bad look out. Have you no one to whom
you could send to come and take your place? Have you no
brother now who would come to you?"
It grew worse as the day wore on, and though Mrs. Wiggins
made him a good fire, and he sat over it, he could not get
warm. It was hopeless to think of attending to business. He
was obliged to give in at last, and allow the shop door to be
closed, whilst he was ignominiously helped up to bed by
Mrs. Wiggins.
"I should think you would cross soon, Mr. Betts, for you are
so very old."
"I don't like to leave you, Mr. Betts, I don't indeed," she
said. "I can't think it's right for you to be all alone in this
house. If you was to be took worse—"
"Ah, you've got fever, that's what you've got," replied Mrs.
Wiggins. "Well, I suppose you must have your way."
"Well, Mr. Betts," she said, as she approached the bed, "and
'ow do you find yourself this mornin'?"
"Lor' bless me! He's right off 'is 'ead," said Mrs. Wiggins;
"'e's in a raging fever. It's no good speakin' to 'im. I must
just fetch a doctor, whether 'e likes it or not."
A little later, a doctor stood beside Michael's bed. He
pronounced it a severe case of rheumatic fever, made some
inquiries respecting the circumstances of his patient,
prescribed for him and departed, saying that he would send
a nurse to look after him, since he needed good nursing
more than medicine. The doctor showed his wisdom in so
acting, for had Michael been left to the tender mercies of
Mrs. Wiggins, well-meaning though they were, he would
probably never have risen from his bed. As it was, he had a
hard struggle ere the force of life within him overcame the
power of disease. He was very ill, and at one time, the
medical man had but faint hope of his recovery.
He was confined to his bed for weeks, and the little book-
shop remained closed the while, for Michael was far too ill
to give any directions as to what should be done about the
business. After the fever left him, he was as weak as a
baby: too weak to care about anything, so weak that every
effort was painful, and he felt as if he had not the heart to
struggle back to life again. Yet he shrank from the thought
of death, and one of the first questions he asked his nurse,
when he was able to think and speak connectedly, was if
she thought he would recover.
"I'll try," said Michael, quite meekly. "You've been very good
to me, nurse."
"You're a strange man," she said; "but now eat some of this
jelly."
"Lavers—Mrs. Lavers."
Michael gave a groan.
CHAPTER VIII
THE BURDEN MAKES ITSELF FELT
"MR. BETTS," said the nurse, three days later, as she came
into the room, "that lady is downstairs, and she wants to
know if you would like to see her."