Nature Reviews Genetics http://www.nature.com/nrg/current_issue/ Nature Publishing Group en © 2008 Nature Publishing Group Nature Reviews Genetics 1471-0056 © 2008 Nature Publishing Group permissions@nature.com Nature Reviews Genetics http://www.nature.com/includes/rj_globnavimages/nrg_logo.gif http://www.nature.com/nrg/ Neutralism and selectionism: a network-based reconciliation http://dx.doi.org/10.1038/nrg2473 Neutralism and selectionism are extremes of an explanatory spectrum for understanding patterns of molecular evolution and the emergence of evolutionary innovation. Although recent genome-scale data from protein-coding genes argue against neutralism, molecular engineering and protein evolution data argue that neutral mutations and mutational robustness are Neutralism and selectionism: a network-based reconciliation

Nature Reviews Genetics 9, 965 (2008). doi:10.1038/nrg2473

Author: Andreas Wagner

Neutralism and selectionism are extremes of an explanatory spectrum for understanding patterns of molecular evolution and the emergence of evolutionary innovation. Although recent genome-scale data from protein-coding genes argue against neutralism, molecular engineering and protein evolution data argue that neutral mutations and mutational robustness are

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Neutralism and selectionism: a network-based reconciliation Andreas Wagner doi:10.1038/nrg2473 Nature Reviews Genetics 9, 965 (2008) Nature Reviews Genetics 9 12 Perspective 965 974
Emerging roles for centromeres in meiosis I chromosome segregation http://dx.doi.org/10.1038/nrg2454 Centromeres are an essential and conserved feature of eukaryotic chromosomes, yet recent research indicates that we are just beginning to understand the numerous roles that centromeres have in chromosome segregation. During meiosis I, in particular, centromeres seem to function in many processes in addition to Emerging roles for centromeres in meiosis I chromosome segregation

Nature Reviews Genetics 9, 899 (2008). doi:10.1038/nrg2454

Authors: Gloria A. Brar & Angelika Amon

Centromeres are an essential and conserved feature of eukaryotic chromosomes, yet recent research indicates that we are just beginning to understand the numerous roles that centromeres have in chromosome segregation. During meiosis I, in particular, centromeres seem to function in many processes in addition to

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Emerging roles for centromeres in meiosis I chromosome segregation Gloria A. Brar Angelika Amon doi:10.1038/nrg2454 Nature Reviews Genetics 9, 899 (2008) Nature Reviews Genetics 9 12 Review 899 910
Technology: Computing in a cell http://dx.doi.org/10.1038/nrg2486 A major challenge in biomolecular computing is to create a programmable molecular device that can function autonomously inside a living cell. Now, a significant contribution has been made towards this goal by the construction of a synthetic RNA device that can integrate into and act Technology: Computing in a cell

Nature Reviews Genetics 9, 896 (2008). doi:10.1038/nrg2486

Author: Meera Swami

A major challenge in biomolecular computing is to create a programmable molecular device that can function autonomously inside a living cell. Now, a significant contribution has been made towards this goal by the construction of a synthetic RNA device that can integrate into and act

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Technology: Computing in a cell Meera Swami doi:10.1038/nrg2486 Nature Reviews Genetics 9, 896 (2008) Nature Reviews Genetics 9 12 Research Highlight 896 897
Evo–devo: Modelling the evolutionarily possible http://dx.doi.org/10.1038/nrg2493 The variety of forms seen in nature is remarkable, yet organisms display only a small fraction of all possible forms. Several factors influence this developmental constraint on phenotypic diversity, although their relative contribution has been difficult to quantify. A computational model based simply on regulatory Evo–devo: Modelling the evolutionarily possible

Nature Reviews Genetics 9, 894 (2008). doi:10.1038/nrg2493

Author: Tanita Casci

The variety of forms seen in nature is remarkable, yet organisms display only a small fraction of all possible forms. Several factors influence this developmental constraint on phenotypic diversity, although their relative contribution has been difficult to quantify. A computational model based simply on regulatory

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Evo–devo: Modelling the evolutionarily possible Tanita Casci doi:10.1038/nrg2493 Nature Reviews Genetics 9, 894 (2008) Nature Reviews Genetics 9 12 Research Highlight 894 895
RNA splicing: Counting, coordinating and controlling the alternatives http://dx.doi.org/10.1038/nrg2494 Alternative splicing of precursor mRNA is a key mechanism for generating proteomic diversity. Two new studies using high-throughput sequencing technology now indicate that the vast majority of human genes have multiple splice forms. Together with two other recent studies, which have also used transcriptome-wide analysis, RNA splicing: Counting, coordinating and controlling the alternatives

Nature Reviews Genetics 9, 894 (2008). doi:10.1038/nrg2494

Author: Mary Muers

Alternative splicing of precursor mRNA is a key mechanism for generating proteomic diversity. Two new studies using high-throughput sequencing technology now indicate that the vast majority of human genes have multiple splice forms. Together with two other recent studies, which have also used transcriptome-wide analysis,

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RNA splicing: Counting, coordinating and controlling the alternatives Mary Muers doi:10.1038/nrg2494 Nature Reviews Genetics 9, 894 (2008) Nature Reviews Genetics 9 12 Research Highlight 894 895
Gene networks: Network analysis gets dynamic http://dx.doi.org/10.1038/nrg2496 Biological networks are highly dynamic, and respond to changing conditions in myriad ways. Studies aimed at understanding how these networks contribute to cellular function have uncovered motifs — patterns of interactions between genes —that are abundant within biological networks. But the information given by these Gene networks: Network analysis gets dynamic

Nature Reviews Genetics 9, 897 (2008). doi:10.1038/nrg2496

Author: Elizabeth Neame

Biological networks are highly dynamic, and respond to changing conditions in myriad ways. Studies aimed at understanding how these networks contribute to cellular function have uncovered motifs — patterns of interactions between genes —that are abundant within biological networks. But the information given by these

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Gene networks: Network analysis gets dynamic Elizabeth Neame doi:10.1038/nrg2496 Nature Reviews Genetics 9, 897 (2008) Nature Reviews Genetics 9 12 Research Highlight 897 897
Epigenetic regulation of centromeric chromatin: old dogs, new tricks? http://dx.doi.org/10.1038/nrg2466 The assembly of just a single kinetochore at the centromere of each sister chromatid is essential for accurate chromosome segregation during cell division. Surprisingly, despite their vital function, centromeres show considerable plasticity with respect to their chromosomal locations and activity. The establishment and maintenance of Epigenetic regulation of centromeric chromatin: old dogs, new tricks?

Nature Reviews Genetics 9, 923 (2008). doi:10.1038/nrg2466

Authors: Robin C. Allshire & Gary H. Karpen

The assembly of just a single kinetochore at the centromere of each sister chromatid is essential for accurate chromosome segregation during cell division. Surprisingly, despite their vital function, centromeres show considerable plasticity with respect to their chromosomal locations and activity. The establishment and maintenance of

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Epigenetic regulation of centromeric chromatin: old dogs, new tricks? Robin C. Allshire Gary H. Karpen doi:10.1038/nrg2466 Nature Reviews Genetics 9, 923 (2008) Nature Reviews Genetics 9 12 Review 923 937
The evolution of animal chemosensory receptor gene repertoires: roles of chance and necessity http://dx.doi.org/10.1038/nrg2480 Chemosensory receptors are essential for the survival of organisms that range from bacteria to mammals. Recent studies have shown that the numbers of functional chemosensory receptor genes and pseudogenes vary enormously among the genomes of different animal species. Although much of the variation can be The evolution of animal chemosensory receptor gene repertoires: roles of chance and necessity

Nature Reviews Genetics 9, 951 (2008). doi:10.1038/nrg2480

Authors: Masatoshi Nei, Yoshihito Niimura & Masafumi Nozawa

Chemosensory receptors are essential for the survival of organisms that range from bacteria to mammals. Recent studies have shown that the numbers of functional chemosensory receptor genes and pseudogenes vary enormously among the genomes of different animal species. Although much of the variation can be

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The evolution of animal chemosensory receptor gene repertoires: roles of chance and necessity Masatoshi Nei Yoshihito Niimura Masafumi Nozawa doi:10.1038/nrg2480 Nature Reviews Genetics 9, 951 (2008) Nature Reviews Genetics 9 12 Review 951 963
Sex-specific genetic architecture of human disease http://dx.doi.org/10.1038/nrg2415 Sexual dimorphism in anatomical, physiological and behavioural traits are characteristics of many vertebrate species. In humans, sexual dimorphism is also observed in the prevalence, course and severity of many common diseases, including cardiovascular diseases, autoimmune diseases and asthma. Although sex differences in the endocrine and Sex-specific genetic architecture of human disease

Nature Reviews Genetics 9, 911 (2008). doi:10.1038/nrg2415

Authors: Carole Ober, Dagan A. Loisel & Yoav Gilad

Sexual dimorphism in anatomical, physiological and behavioural traits are characteristics of many vertebrate species. In humans, sexual dimorphism is also observed in the prevalence, course and severity of many common diseases, including cardiovascular diseases, autoimmune diseases and asthma. Although sex differences in the endocrine and

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Sex-specific genetic architecture of human disease Carole Ober Dagan A. Loisel Yoav Gilad doi:10.1038/nrg2415 Nature Reviews Genetics 9, 911 (2008) Nature Reviews Genetics 9 12 Review 911 922
Turning a hobby into a job: How duplicated genes find new functions http://dx.doi.org/10.1038/nrg2482 Gene duplication provides raw material for functional innovation. Recent advances have shed light on two fundamental questions regarding gene duplication: which genes tend to undergo duplication? And how does natural selection subsequently act on them? Genomic data suggest that different gene classes tend to be Turning a hobby into a job: How duplicated genes find new functions

Nature Reviews Genetics 9, 938 (2008). doi:10.1038/nrg2482

Authors: Gavin C. Conant & Kenneth H. Wolfe

Gene duplication provides raw material for functional innovation. Recent advances have shed light on two fundamental questions regarding gene duplication: which genes tend to undergo duplication? And how does natural selection subsequently act on them? Genomic data suggest that different gene classes tend to be

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Turning a hobby into a job: How duplicated genes find new functions Gavin C. Conant Kenneth H. Wolfe doi:10.1038/nrg2482 Nature Reviews Genetics 9, 938 (2008) Nature Reviews Genetics 9 12 Review 938 950
From the editors http://dx.doi.org/10.1038/nrg2490 The conventional view of a centromere is a piece of DNA that ensures chromosomes hook properly onto microtubules, so that they can part seamlessly during cell division. Over the past few years, studies have revealed some of the additional and equally vital roles carried out From the editors

Nature Reviews Genetics 9, 891 (2008). doi:10.1038/nrg2490

The conventional view of a centromere is a piece of DNA that ensures chromosomes hook properly onto microtubules, so that they can part seamlessly during cell division. Over the past few years, studies have revealed some of the additional and equally vital roles carried out

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From the editors doi:10.1038/nrg2490 Nature Reviews Genetics 9, 891 (2008) Nature Reviews Genetics 9 12 From The Editors 891 891
Human genomics: Towards an individual view http://dx.doi.org/10.1038/nrg2491 The number of people to have their genome fully sequenced has doubled, from two to four. Craig Venter and James Watson are now joined by two anonymous individuals — one Han Chinese and the other Nigerian — as reported in two studies that explore the Human genomics: Towards an individual view

Nature Reviews Genetics 9, 893 (2008). doi:10.1038/nrg2491

Author: Louisa Flintoft

The number of people to have their genome fully sequenced has doubled, from two to four. Craig Venter and James Watson are now joined by two anonymous individuals — one Han Chinese and the other Nigerian — as reported in two studies that explore the

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Human genomics: Towards an individual view Louisa Flintoft doi:10.1038/nrg2491 Nature Reviews Genetics 9, 893 (2008) Nature Reviews Genetics 9 12 Research Highlight 893 893
RNA World: Antisense transcripts get involved http://dx.doi.org/10.1038/nrg2492 Links between long non-coding RNAs (lncRNAs) and gene silencing have been made since the identification of the X chromosome-inactivation transcript (XIST) in the early 1990s; what has remained enigmatic is the mechanism by which lncRNAs block gene expression. Two recent papers now show RNA World: Antisense transcripts get involved

Nature Reviews Genetics 9, 898 (2008). doi:10.1038/nrg2492

Author: Mary Muers

Links between long non-coding RNAs (lncRNAs) and gene silencing have been made since the identification of the X chromosome-inactivation transcript (XIST) in the early 1990s; what has remained enigmatic is the mechanism by which lncRNAs block gene expression. Two recent papers now show

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RNA World: Antisense transcripts get involved Mary Muers doi:10.1038/nrg2492 Nature Reviews Genetics 9, 898 (2008) Nature Reviews Genetics 9 12 Research Highlight 898 898
Statistical genetics: Fitting phenotypes http://dx.doi.org/10.1038/nrg2495 Analysing the results of genome-wide association studies is a painstaking effort — each SNP has to pass stringent significance thresholds to be regarded as a respectable candidate. An alternative approach to determining gene variants that contribute to a particular trait is to group all SNPs Statistical genetics: Fitting phenotypes

Nature Reviews Genetics 9, 896 (2008). doi:10.1038/nrg2495

Author: Tanita Casci

Analysing the results of genome-wide association studies is a painstaking effort — each SNP has to pass stringent significance thresholds to be regarded as a respectable candidate. An alternative approach to determining gene variants that contribute to a particular trait is to group all SNPs

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Statistical genetics: Fitting phenotypes Tanita Casci doi:10.1038/nrg2495 Nature Reviews Genetics 9, 896 (2008) Nature Reviews Genetics 9 12 Research Highlight 896 897
In Brief http://dx.doi.org/10.1038/nrg2497 Synthetic biologyA fast, robust and tunable synthetic gene oscillator.Stricker, J.et al. Nature29 Oct 2008 (doi:10.1038/nature07389)Synthetic biologists aim to engineer biological circuits that have predictable functions. The authors have constructed a genetic oscillator in Escherichia coli In Brief

Nature Reviews Genetics 9, 895 (2008). doi:10.1038/nrg2497

Synthetic biologyA fast, robust and tunable synthetic gene oscillator.Stricker, J.et al. Nature29 Oct 2008 (doi:10.1038/nature07389)Synthetic biologists aim to engineer biological circuits that have predictable functions. The authors have constructed a genetic oscillator in Escherichia coli

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In Brief doi:10.1038/nrg2497 Nature Reviews Genetics 9, 895 (2008) Nature Reviews Genetics 9 12 Research Highlight 895 895
In Brief http://dx.doi.org/10.1038/nrg2498 Human diseaseThe Human Phenotype Ontology: a tool for annotating and analyzing human hereditary disease.Robinson, P. N.et al. Am. J. Hum. Genet.83, 1–6 (2008)The ability to compare phenotypic features is central to identifying In Brief

Nature Reviews Genetics 9, 898 (2008). doi:10.1038/nrg2498

Human diseaseThe Human Phenotype Ontology: a tool for annotating and analyzing human hereditary disease.Robinson, P. N.et al. Am. J. Hum. Genet.83, 1–6 (2008)The ability to compare phenotypic features is central to identifying

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In Brief doi:10.1038/nrg2498 Nature Reviews Genetics 9, 898 (2008) Nature Reviews Genetics 9 12 Research Highlight 898 898