Optimal variable weighting for hierarchical clustering: An alternating least-squares algorithm

This paper presents the development of a new methodology which simultaneously estimates in a least-squares fashion both an ultrametric tree and respective variable weightings for profile data that have been converted into (weighted) Euclidean distances. We first review the relevant classification literature on this topic. The new methodology is presented including the alternating least-squares algorithm used to estimate the parameters. The method is applied to a synthetic data set with known structure as a test of its operation. An application of this new methodology to ethnic group rating data is also discussed. Finally, extensions of the procedure to model additive, multiple, and three-way trees are mentioned.The first author is supported as Bevoegdverklaard Navorser of the Belgian Nationaal Fonds voor Wetenschappelijk Onderzoek.     

Relationship between chlorophyll a content and protein content of invertebrate symbioses with algae or chloroplasts

Summary The chlorophyll a and protein contents of invertebrates containing autotrophic symbionts are indices of symbiont and host biomass, respectively, and the chlorophyll a content per unit protein is a good measure of symbiont: host ratio. For three different associations, the chlorophyll a content per unit protein is 0.01–0.02 g g^–1.The hydra andE. viridis were provided by M. H. Christopher and J. R. Turner. I thank Professor D. C. Smith, Dr J. B. Searle and Dr T. A. V. Rees for the valuable comments on drafts of this paper. This work was supported by research grants from S.E.R.C.     

Template-directed synthesis of a genetic polymer in a model protocell

Contemporary phospholipid-based cell membranes are formidable barriers to the uptake of polar and charged molecules ranging from metal ions to complex nutrients. Modern cells therefore require sophisticated protein channels and pumps to mediate the exchange of molecules with their environment. The strong barrier function of membranes has made it difficult to understand the origin of cellular life and has been thought to preclude a heterotrophic lifestyle for primitive cells. Although nucleotides can cross dimyristoyl phosphatidylcholine membranes through defects formed at the gel-to-liquid transition temperature, phospholipid membranes lack the dynamic properties required for membrane growth. Fatty acids and their corresponding alcohols and glycerol monoesters are attractive candidates for the components of protocell membranes because they are simple amphiphiles that form bilayer membrane vesicles that retain encapsulated oligonucleotides and are capable of growth and division. Here we show that such membranes allow the passage of charged molecules such as nucleotides, so that activated nucleotides added to the outside of a model protocell spontaneously cross the membrane and take part in efficient template copying in the protocell interior. The permeability properties of prebiotically plausible membranes suggest that primitive protocells could have acquired complex nutrients from their environment in the absence of any macromolecular transport machinery; that is, they could have been obligate heterotrophs.     

Small mammals within riparian habitats of a regulated and unregulated arid land river

In northwestern Colorado, flow regulation on the Green River has created a transitional plant community that features encroachment by upland vegetation into cottonwood ( Populus fremontii )-dominated, riparian forest on topographically high floodplain sites and reduced cottonwood regeneration on low floodplain sites. To assess how these changes might have affected small mammal distributions, in 1994 and 1995 we live-trapped during periods surrounding spring flooding at 3 sites: above and below the confluence of the regulated Green River and at the ecologically similar, but unregulated, Yampa River (reference site). More species were captured at the most regulated site along the Green River above its confluence with the Yampa River. Within sites, more species were captured in riparian habitats than adjacent upland habitats. Despite river regulation-induced habitat changes, we did not detect changes in species distributions within low and high floodplain habitat for Peromyscus maniculatus or Microtus montanus , but changes may have occurred for Dipodomys ordii . The total effect of regulation-induced habitat change on small mammal populations may not be fully revealed until current, mature cottonwood forests disappear and associated woody debris decomposes.     

Identification and characterization of high-flux-control genes of yeast through competition analyses in continuous cultures

Using competition experiments in continuous cultures grown in different nutrient environments (glucose limited, ammonium limited, phosphate limited and white grape juice), we identified genes that show haploinsufficiency phenotypes (reduced growth rate when hemizygous) or haploproficiency phenotypes (increased growth rate when hemizygous). Haploproficient genes (815, 1,194, 733 and 654 in glucose-limited, ammonium-limited, phosphate-limited and white grape juice environments, respectively) frequently show that phenotype in a specific environmental context. For instance, genes encoding components of the ubiquitination pathway or the proteasome show haploproficiency in nitrogen-limited conditions where protein conservation may be beneficial. Haploinsufficiency is more likely to be observed in all environments, as is the case with genes determining polar growth of the cell. Haploproficient genes seem randomly distributed in the genome, whereas haploinsufficient genes (685, 765, 1,277 and 217 in glucose-limited, ammonium-limited, phosphate-limited and white grape juice environments, respectively) are over-represented on chromosome III. This chromosome determines a yeast's mating type, and the concentration of haploinsufficient genes there may be a mechanism to prevent its loss.     

Stem cell engraftment at the endosteal niche is specified by the calcium-sensing receptor

During mammalian ontogeny, haematopoietic stem cells (HSCs) translocate from the fetal liver to the bone marrow, where haematopoiesis occurs throughout adulthood. Unique features of bone that contribute to a microenvironmental niche for stem cells might include the known high concentration of calcium ions at the HSC-enriched endosteal surface. Cells respond to extracellular ionic calcium concentrations through the seven-transmembrane-spanning calcium-sensing receptor (CaR), which we identified as being expressed on HSCs. Here we show that, through the CaR, the simple ionic mineral content of the niche may dictate the preferential localization of adult mammalian haematopoiesis in bone. Antenatal mice deficient in CaR had primitive haematopoietic cells in the circulation and spleen, whereas few were found in bone marrow. CaR-/- HSCs from fetal liver were normal in number, in proliferative and differentiative function, and in migration and homing to the bone marrow. Yet they were highly defective in localizing anatomically to the endosteal niche, behaviour that correlated with defective adhesion to the extracellular matrix protein, collagen I. CaR has a function in retaining HSCs in close physical proximity to the endosteal surface and the regulatory niche components associated with it.     

GLC determination of betahistine in serum

A gas chromatographic method was developed for the determination of betahistine in serum in the range of 0.6-6.0 microgram/ml.