Hasil untuk "Evolution"

W. Strange

B. Morson

M. Kirkpatrick

Thomas Bäck, F. Hoffmeister, H. Schwefel

F. Allendorf, G. Thorgaard

J. Felsenstein, G. Churchill

J. Thompson

D. Stern, V. Orgogozo

Abstract Is genetic evolution predictable? Evolutionary developmental biologists have argued that, at least for morphological traits, the answer is a resounding yes. Most mutations causing morphological variation are expected to reside in the cis-regulatory, rather than the coding, regions of developmental genes. This “cis-regulatory hypothesis” has recently come under attack. In this review, we first describe and critique the arguments that have been proposed in support of the cis-regulatory hypothesis. We then test the empirical support for the cis-regulatory hypothesis with a comprehensive survey of mutations responsible for phenotypic evolution in multicellular organisms. Cis-regulatory mutations currently represent approximately 22% of 331 identified genetic changes although the number of cis-regulatory changes published annually is rapidly increasing. Above the species level, cis-regulatory mutations altering morphology are more common than coding changes. Also, above the species level cis-regulatory mutations predominate for genes not involved in terminal differentiation. These patterns imply that the simple question “Do coding or cis-regulatory mutations cause more phenotypic evolution?” hides more interesting phenomena. Evolution in different kinds of populations and over different durations may result in selection of different kinds of mutations. Predicting the genetic basis of evolution requires a comprehensive synthesis of molecular developmental biology and population genetics.

M. Cooper, M. Alder

A clonally diverse anticipatory repertoire in which each lymphocyte bears a unique antigen receptor is the central feature of the adaptive immune system that evolved in our vertebrate ancestors. The survival advantage gained through adding this type of adaptive immune system to a pre-existing innate immune system led to the evolution of alternative ways for lymphocytes to generate diverse antigen receptors for use in recognizing and repelling pathogen invaders. All jawed vertebrates assemble their antigen-receptor genes through recombinatorial rearrangement of different immunoglobulin or T cell receptor gene segments. The surviving jawless vertebrates, lampreys and hagfish, instead solved the receptor diversification problem by the recombinatorial assembly of leucine-rich-repeat genetic modules to encode variable lymphocyte receptors. The convergent evolution of these remarkably different adaptive immune systems involved innovative genetic modification of innate-immune-system components.

Stephen A. Smith, M. Donoghue

S. Okasha

D. Emlen

M. Heil, R. Karban

Ada Linkies, Kai Graeber, C. Knight et al.

H. J. Beaumont, J. Gallie, Christian Kost et al.

F. H.

S. Kukkonen, J. Lampinen

K. Polyak

E. Koonin, T. Senkevich, V. Dolja

BackgroundRecent advances in genomics of viruses and cellular life forms have greatly stimulated interest in the origins and evolution of viruses and, for the first time, offer an opportunity for a data-driven exploration of the deepest roots of viruses. Here we briefly review the current views of virus evolution and propose a new, coherent scenario that appears to be best compatible with comparative-genomic data and is naturally linked to models of cellular evolution that, from independent considerations, seem to be the most parsimonious among the existing ones.ResultsSeveral genes coding for key proteins involved in viral replication and morphogenesis as well as the major capsid protein of icosahedral virions are shared by many groups of RNA and DNA viruses but are missing in cellular life forms. On the basis of this key observation and the data on extensive genetic exchange between diverse viruses, we propose the concept of the ancient virus world. The virus world is construed as a distinct contingent of viral genes that continuously retained its identity throughout the entire history of life. Under this concept, the principal lineages of viruses and related selfish agents emerged from the primordial pool of primitive genetic elements, the ancestors of both cellular and viral genes. Thus, notwithstanding the numerous gene exchanges and acquisitions attributed to later stages of evolution, most, if not all, modern viruses and other selfish agents are inferred to descend from elements that belonged to the primordial genetic pool. In this pool, RNA viruses would evolve first, followed by retroid elements, and DNA viruses. The Virus World concept is predicated on a model of early evolution whereby emergence of substantial genetic diversity antedates the advent of full-fledged cells, allowing for extensive gene mixing at this early stage of evolution. We outline a scenario of the origin of the main classes of viruses in conjunction with a specific model of precellular evolution under which the primordial gene pool dwelled in a network of inorganic compartments. Somewhat paradoxically, under this scenario, we surmise that selfish genetic elements ancestral to viruses evolved prior to typical cells, to become intracellular parasites once bacteria and archaea arrived at the scene. Selection against excessively aggressive parasites that would kill off the host ensembles of genetic elements would lead to early evolution of temperate virus-like agents and primitive defense mechanisms, possibly, based on the RNA interference principle. The emergence of the eukaryotic cell is construed as the second melting pot of virus evolution from which the major groups of eukaryotic viruses originated as a result of extensive recombination of genes from various bacteriophages, archaeal viruses, plasmids, and the evolving eukaryotic genomes. Again, this vision is predicated on a specific model of the emergence of eukaryotic cell under which archaeo-bacterial symbiosis was the starting point of eukaryogenesis, a scenario that appears to be best compatible with the data.ConclusionThe existence of several genes that are central to virus replication and structure, are shared by a broad variety of viruses but are missing from cellular genomes (virus hallmark genes) suggests the model of an ancient virus world, a flow of virus-specific genes that went uninterrupted from the precellular stage of life's evolution to this day. This concept is tightly linked to two key conjectures on evolution of cells: existence of a complex, precellular, compartmentalized but extensively mixing and recombining pool of genes, and origin of the eukaryotic cell by archaeo-bacterial fusion. The virus world concept and these models of major transitions in the evolution of cells provide complementary pieces of an emerging coherent picture of life's history.ReviewersW. Ford Doolittle, J. Peter Gogarten, and Arcady Mushegian.

Tao Pan, Kun Liu, Zherui Yin et al.

Drastic cropland expansion and its internal structural changes have had an obvious impact on agricultural landscapes and ecosystem services. However, a prolonged investigation of this effect is still lacking in China’s grain-producing bases, such as Sanjiang Plain. To address this issue, half a century of study on the ‘land trajectory migration–landscape evolution–ecological effect,’ covering the period 1970–2020, was elucidated using the synergistic methodology of spatial analysis technology, the reclamation rate algorithm, the landscape indicator, and the newly established ecosystem service improvement model. Satellite observation results indicate that the cropland area exhibited a substantial expansion trend from 23,672.69 km² to 42,856.17 km² from 1970 to 2020, representing a net change of +19,183.48 km² and a huge growth rate of 81.04%, which led to an obvious improvement in the level of agricultural cultivation. Concurrently, the internal structure of the cropland underwent dramatic restructuring, with rice fields increasing from 6.46% to 53.54%, while upland fields decreased from 93.54% to 46.46%. In different regions, spatially heterogeneous improvements of 2.64–52.47% in agricultural cultivation levels across all cities were observed. From 1970 to 2020, the tracked cropland center of gravity trajectories exhibited a distinct biphasic pattern, initially shifting westward and then followed by a southward transition, accumulating a displacement of 19.39 km². As for the evolved agricultural landscapes, their integrity has improved (SHDI = −0.08%), accompanied by increased connectivity (CON = +8.82%) and patch edge integrity (LSI = −15.71%) but also by reduced fragmentation (PD = −48.14%). Another important discovery was that the evaluated ecosystem services continuously decreased from 2337.84 × 10⁸ CNY in 1970 to 1654.01 × 10⁸ CNY in 2020, a net loss of −683.84 × 10⁸ CNY and a huge loss rate of 33.65%, accompanied by a center–periphery gradient pattern whereby degradation propagated from the low-value central croplands to the high-value surrounding natural covers. These discoveries will play a significant role in guiding farmland structure reformation, landscape optimization, and ecosystem service improvement.