From headwaters to mouth, the physical variables within a river system present a continuous gradient of physical conditions. This gradient should elicit a series of responses within the constituent...

The River Continuum Concept

We have systematically made a set of precisely defined, single-gene deletions of all nonessential genes in Escherichia coli K-12. Open-reading frame coding regions were replaced with a kanamycin cassette flanked by FLP recognition target sites by using a one-step method for inactivation of chromosomal genes and primers designed to create in-frame deletions upon excision of the resistance cassette. Of 4288 genes targeted, mutants were obtained for 3985. To alleviate problems encountered in high-throughput studies, two independent mutants were saved for every deleted gene. These mutants-the 'Keio collection'-provide a new resource not only for systematic analyses of unknown gene functions and gene regulatory networks but also for genome-wide testing of mutational effects in a common strain background, E. coli K-12 BW25113. We were unable to disrupt 303 genes, including 37 of unknown function, which are candidates for essential genes. Distribution is being handled via GenoBase (http://ecoli.aist-nara.ac.jp/).

/pdf/construction-of-escherichia-coli-k-12-in-frame-single-gene-4c68fx6pb1.pdf

Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection.

An adaptationist programme has dominated evolutionary thought in England and the United States during the past 40 years. It is based on faith in the power of natural selection as an optimizing agent. It proceeds by breaking an organism into unitary ‘traits’ and proposing an adaptive story for each considered separately. Trade-offs among competing selective demands exert the only brake upon perfection; non-optimality is thereby rendered as a result of adaptation as well. We criticize this approach and attempt to reassert a competing notion (long popular in continental Europe) that organisms must be analysed as integrated wholes, with Baupläne so constrained by phyletic heritage, pathways of development and general architecture that the constraints themselves become more interesting and more important in delimiting pathways of change than the selective force that may mediate change when it occurs. We fault the adaptationist programme for its failure to distinguish current utility from reasons for origin (male tyrannosaurs may have used their diminutive front legs to titillate female partners, but this will not explain why they got so small); for its unwillingness to consider alternatives to adaptive stories; for its reliance upon plausibility alone as a criterion for accepting speculative tales; and for its failure to consider adequately such competing themes as random fixation of alleles, production of non-adaptive structures by developmental correlation with selected features (allometry, pleiotropy, material compensation, mechanically forced correlation), the separability of adaptation and selection, multiple adaptive peaks, and current utility as an epiphenomenon of non-adaptive structures. We support Darwin’s own pluralistic approach to identifying the agents of evolutionary change.

The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme

An adaptationist programme has dominated evolutionary thought in England and the United States during the past 40 years. It is based on faith in the power of natural selection as an optimizing agent. It proceeds by breaking an organism into unitary 'traits' and proposing an adaptive story for each considered separately. Trade-offs among competing selective demands exert the onlv brake upon perfection; non-optimality is thereby rendered as a result of adaptation as well. We criticize this approach and attempt to reassert a competing notion (long popular in continental Europe) that organisms must be analysed as integrated wholes, with Bauplane so constrained by phyletic heritage, pathways of development and general architecture that the constraints themselves become more interesting and more important in delimiting pathways of change than the selective force that may mediate change when it occurs. We fault the adaptationist programme for its failure to distinguish current utility from reasons for origin (male tyrannosaurs may have used their diminutive front legs to titillate female partners, but this will not explain why they got so small); for its unwillingness to consider alternatives to adaptive stories; for its reliance upon plausibility alone as a criterion for accepting speculative tales; and for its failure to consider adequately such competing themes as random fixation of alleles, production of nonadaptive structures by developmental correlation with selected features (allometry, pleiotropy, material compensation, mechanically forced correlation), the separability of adaptation and selection, multiple adaptive peaks, and current utility as an epiphenomenon of non-adaptive structures. We support Darwin's own pluralistic approach to identifying the agents of evolutionary change.

/pdf/the-spandrels-of-san-marco-and-the-panglossian-paradigm-a-19fdlsieru.pdf

Publisher Summary This chapter reviews the rates at which Coarse Woody Debris (CWD) is added and removed from ecosystems, the biomass found in streams and forests, and many functions that CWD serves. CWD is an important component of temperate stream and forest ecosystems and is added to the ecosystem by numerous mechanisms, including wind, fire, insect attack, pathogens, competition, and geomorphic processes. Many factors control the rate at which CWD decomposes, including temperature, moisture, the internal gas composition of CWD, substrate quality, the size of the CWD, and the types of organisms involved. The mass of CWD in an ecosystem ideally represents the balance between addition and loss. In reality, slow decomposition rates and erratic variations in input of CWD cause the CWD mass to deviate markedly from steady-state projections. Many differences correspond to forest type, with deciduous-dominated systems having generally lower biomass than conifer-dominated systems. Stream size also influences CWD mass in lotic ecosystems, while successional stage dramatically influences CWD mass in boat aquatic and terrestrial settings. This chapter reviews many of these functions and concludes that CWD is an important functional component of stream and forest ecosystems. Better scientific understanding of these functions and the natural factors influencing CWD dynamics should lead to more enlightened management practices.

Ecology of Coarse Woody Debris in Temperate Ecosystems

Adult body size and fecundity of several species of hemimetabolous aquatic insects were shown to depend largely on thermal conditions during larval growth We suggest that an "optimum" thermal regime exists where adult size and fecundity are maximized; temperature regimes warmer or cooler than the "optimum'' result in small and less fecund adults Two hypotheses concerning river water temperatures and size variation of adult insects are described First, maximum adult size reflects an equilibrium between several developmental processes that appear highly temperature dependent, viz, (i) the rate and duration of larval growth, and (ii) the specific time in larval development that adult structures begin maturing and the rate of this maturation process Second, a species distribution both locally within drainage systems and over a large geographic area is limited, in part, by lowered fecundity as adult size gradually diminishes in streams of increasingly cold or warm temperature cycles The importance of riv

https://www.waterboards.ca.gov/waterrights/water_issues/programs/bay_delta/docs/cmnt081712/sldmwa/vannoteandwweeney1980americannaturalist.pdf

Geographic analysis of thermal equilibria: a conceptual model for evaluating the effect of natural and modified thermal regimes on aquatic insect communities

Studies were conducted in four distinct geographic areas (biomes/sites) in northern United States to examine changes in key ecosystem parameters: benthic organic matter (BOM), transported organic matter (TOM), community production and respiration, leaf pack decomposition, and functional feeding-group composition along gradients of increasing stream size. Four stations ranging from headwaters (1st or 2nd order) to midsized rivers (5th to 7th order) were examined at each site using comparable methods. The results for each parameter are presented and discussed in light of the River Continuum Concept of Vannote et al. (1980). The postulated gradual change in a stream ecosystem's structure and function is supported by this study. However, regional and local deviations occur as a result of variations in the influence of: (1) watershed climate and geology, (2) riparian conditions, (3) tributaries, and (4) location-specific lithology and geomorphology. In partic- ular, the continuum framework must be visualized as a sliding scale which is shifted upstream or downstream depending on macroenvironmental forces (1 and 2) or reset following the application of more localized "micro"-environmental influences (3 and 4). Analysis of interactions between BOM and TOM permitted evaluation of stream retentiveness for organic matter. Headwaters generally were most retentive and downstream reaches the least. Estimates of organic matter turnover times ranged between 0.2 and 14 yr, and commonly were 1-4 yr. Both turnover times and distances were deter- mined primarily by the interaction between current velocity and stream retention. Biological processes played a secondary role. However, the streams varied considerably in their spiraling of organic matter due to differences in the interplay between retentiveness and biological activity. Differences in the relative importance of retention mechanisms along the continuum suggest that headwater stream ecosystems may be functionally more stable, at least to physical disturbances, than are their inter- mediate river counterparts.

Interbiome comparison of stream ecosystem dynamics

Four significant areas of thought, (1) the holistic approach, (2) the linkage between streams and their terrestrial setting, (3) material cycling in open systems, and (4) biotic interactions and in...

Developments in Stream Ecosystem Theory

Adult body size and fecundity of a number of hemimetabolous aquatic insects depend largely on thermal conditions during the larval period. Small adults and reduced fecundity result when temperatures are either warmed or cooled with respect to more optimal thermal conditions. Temperature apparently affects adult size by altering the larval growth rate and the timing and rate of adult tissue development for each larva. The data suggest a new interpretation for the geographic distribution of aquatic insects.

https://science.sciencemag.org/content/sci/200/4340/444.full.pdf

Robin L. Vannote

Papers

The River Continuum Concept

Geographic analysis of thermal equilibria: a conceptual model for evaluating the effect of natural and modified thermal regimes on aquatic insect communities

Interbiome comparison of stream ecosystem dynamics

Developments in Stream Ecosystem Theory

Size variation and the distribution of hemimetabolous aquatic insects: two thermal equilibrium hypotheses.