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Experimental resurrection of ancient biomolecules: gene synthesis, heterologous protein expression, and functional assays

Eric A. Gaucher

in Ancestral Sequence Reconstruction

Published in print:
2007
Published Online:
September 2008
ISBN:
9780199299188
eISBN:
9780191714979
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199299188.003.0014
Subject:
Biology, Evolutionary Biology / Genetics

Approximately twenty studies have emerged where specific molecular systems from extinct organisms have been resurrected for study in the laboratory. These include digestive proteins (ribonucleases, ... More


Automation of non-conventional crystallization techniques for screening and optimization

Naomi E. Chayen

in Macromolecular Crystallography: conventional and high-throughput methods

Published in print:
2007
Published Online:
September 2007
ISBN:
9780198520979
eISBN:
9780191706295
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198520979.003.0003
Subject:
Biology, Biochemistry / Molecular Biology

The availability of high-quality crystals is crucial to the structure determination of proteins by X-ray diffraction. It is still not understood why some proteins crystallize with ease while others ... More


Getting a macromolecular model: model building, refinement, and validation

R. J. Morris, A. Perrakis, and V. S. Lamzin

in Macromolecular Crystallography: conventional and high-throughput methods

Published in print:
2007
Published Online:
September 2007
ISBN:
9780198520979
eISBN:
9780191706295
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198520979.003.0011
Subject:
Biology, Biochemistry / Molecular Biology

This chapter casts the high-throughput automation efforts being developed to meet the needs of Structural Genomics initiatives in the framework of an optimization problem. It gives a general overview ... More


Alignment, dynamic homology, and optimization

Ward C. Wheeler

in Parsimony, Phylogeny, and Genomics

Published in print:
2006
Published Online:
September 2007
ISBN:
9780199297306
eISBN:
9780191713729
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199297306.003.0005
Subject:
Biology, Evolutionary Biology / Genetics

There are two properties that have been used to differentiate sequence data from other sorts of information: simplicity of states and length variation. Unlike complex anatomical features (e.g., limb ... More


Evolutionary Thermal Biology

Michael J. Angilletta

in Thermal Adaptation: A Theoretical and Empirical Synthesis

Published in print:
2009
Published Online:
May 2009
ISBN:
9780198570875
eISBN:
9780191718748
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198570875.003.0001
Subject:
Biology, Ecology, Animal Biology

Organisms use behavioural, physiological, and life-historical strategies to cope with changes in temperature over space and time. These strategies can be represented as thermal reaction norms, which ... More


Evolutionary Biomechanics

Graham Taylor and Adrian Thomas

Published in print:
2014
Published Online:
April 2014
ISBN:
9780198566373
eISBN:
9780191779459
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198566373.001.0001
Subject:
Biology, Evolutionary Biology / Genetics, Ornithology

Evolutionary biomechanics is the study of evolution through the analysis of biomechanical systems. Its unique advantage is the precision with which physical constraints and performance can be ... More


Animal Movement Across Scales

Lars-Anders Hansson and Susanne Åkesson (eds)

Published in print:
2014
Published Online:
November 2014
ISBN:
9780199677184
eISBN:
9780191785696
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199677184.001.0001
Subject:
Biology, Animal Biology, Ecology

This book takes a broad approach to animal movement across both temporal and spatial scales. Movement and migration on land, in the air, and in water are pervading features of animal life—from the ... More


Parasites discover behavioral ecology: how to manage one’s host in a complex world

Bernard D. Roitberg

in Host Manipulation by Parasites

Published in print:
2012
Published Online:
December 2013
ISBN:
9780199642236
eISBN:
9780191774621
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199642236.003.0004
Subject:
Biology, Disease Ecology / Epidemiology, Evolutionary Biology / Genetics

This chapter develops dynamic state variable (DSV) models to predict the foraging and growth dynamics of herbivores, when healthy and when parasitized. In the model, the ‘caterpillar’ can decide ... More


Function: How Traits Interact with the Environment to Influence Reproduction and Survival

Douglas W. Morris and Per Lundberg

in Pillars of Evolution: Fundamental principles of the eco-evolutionary process

Published in print:
2011
Published Online:
December 2013
ISBN:
9780198568797
eISBN:
9780191774690
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198568797.003.0003
Subject:
Biology, Evolutionary Biology / Genetics

Interactions between the environment, traits, and their constituent genes demonstrate that it is impossible to predict evolutionary change in anything but the simplest environments. Even then, we can ... More


Structure: How Genotypes, Traits, Strategies, and Environment Interact

Douglas W. Morris and Per Lundberg

in Pillars of Evolution: Fundamental principles of the eco-evolutionary process

Published in print:
2011
Published Online:
December 2013
ISBN:
9780198568797
eISBN:
9780191774690
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198568797.003.0004
Subject:
Biology, Evolutionary Biology / Genetics

Our ability to predict the dynamics of evolution depends critically on its underlying genetic and environmental structure. The structure is defined by the ways that traits map onto fitness. The ... More


Performance-Yield Trade-offs in Work in Manufactured and Living Systems: Design Centering Looks at the World of Work

Michael Lightner

in Work Meets Life: Exploring the Integrative Study of Work in Living Systems

Published in print:
2011
Published Online:
August 2013
ISBN:
9780262014120
eISBN:
9780262265843
Item type:
chapter
Publisher:
The MIT Press
DOI:
10.7551/mitpress/9780262014120.003.0003
Subject:
Biology, Evolutionary Biology / Genetics

This chapter addresses the trade-offs that occur in the design and manufacture of computer chips. It considers the implications of a design optimization method for chip manufacture called design ... More


Selection

Graham K. Taylor and Adrian L. R. Thomas

in Evolutionary Biomechanics

Published in print:
2014
Published Online:
April 2014
ISBN:
9780198566373
eISBN:
9780191779459
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198566373.003.0002
Subject:
Biology, Evolutionary Biology / Genetics, Ornithology

This chapter develops a model of adaptive evolution that is founded upon the genetical theory of natural selection, and which justifies the adaptationist approach of analysing traits at organismal ... More


Trade-offs: selection, phylogeny, and constraint

Graham K. Taylor and Adrian L. R. Thomas

in Evolutionary Biomechanics

Published in print:
2014
Published Online:
April 2014
ISBN:
9780198566373
eISBN:
9780191779459
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198566373.003.0008
Subject:
Biology, Evolutionary Biology / Genetics, Ornithology

This chapter uses multi-objective optimization theory to examine how natural selection resolves trade-offs among multiple conflicting performance objectives. Because physical constraint is universal, ... More


Monitoring and management

Cang Hui and David M. Richardson

in Invasion Dynamics

Published in print:
2017
Published Online:
March 2017
ISBN:
9780198745334
eISBN:
9780191807046
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198745334.003.0009
Subject:
Biology, Ecology, Biomathematics / Statistics and Data Analysis / Complexity Studies

This chapter focuses on approaches for efficient monitoring and management of established invasive species. Essential variables for monitoring and reporting and the requirements for practical ... More


Growth projection in multiaged stands

Kevin L. O’Hara

in Multiaged Silviculture: Managing for Complex Forest Stand Structures

Published in print:
2014
Published Online:
October 2014
ISBN:
9780198703068
eISBN:
9780191788796
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198703068.003.0012
Subject:
Biology, Plant Sciences and Forestry

Prediction of growth of complex stands is essential for their management and for understanding stand- and ecosystem-level processes. Estimates of site quality are necessary because they determine the ... More


Trade-offs and adaptations

Liz Pásztor, Zoltán Botta-Dukát, Gabriella Magyar, Tamás Czárán, and Géza Meszéna

in Theory-Based Ecology: A Darwinian approach

Published in print:
2016
Published Online:
August 2016
ISBN:
9780199577859
eISBN:
9780191823787
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199577859.003.0008
Subject:
Biology, Ecology

Variations of individual traits are usually cross-constrained, and the components of fitness are generically traded off. A series of examples illustrate that constraints on inherited variation are ... More


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