%% Papers Published @article{fds229099, Author = {Stanley, and WL, and Walters, GG and Mercer, JM}, Title = {Lactase and other enzymes bound to chitin with gluteraldehyde}, Journal = {Biotech. Bio.}, Volume = {17}, Pages = {315-326}, Year = {1975}, Key = {fds229099} } @article{fds229100, Author = {Keyes, T and Mercer, JM}, Title = {Some considerations on the calculation of the velocity correlation function in the ring approximation, with application to the Lorentz gas}, Journal = {Physica}, Volume = {95A}, Pages = {473-486}, Year = {1979}, Key = {fds229100} } @article{fds229101, Author = {Keyes, and T, and Morita, T and Mercer, JM}, Title = {Further developments of the approach of Peralta and Zwanzig. 1. The drag on a sphere at high density}, Journal = {Journal of Chemical Physics}, Volume = {74}, Pages = {5281-5286}, Year = {1981}, Key = {fds229101} } @article{fds229102, Author = {De la Mora and JF and Mercer, JM}, Title = {A modified Fokker-Planck equation for the motion of Brownian particles in a non-uniform gas}, Journal = {Physical Review A}, Volume = {26}, Pages = {2178-2185}, Year = {1982}, Key = {fds229102} } @article{fds229103, Author = {Mercer, JM and Keyes, T}, Title = {Expansion of the kinetic hierarchy for a massive particle: the Repeated Ring and Fokker-Planck equations}, Journal = {Journal of Statistical Physics}, Volume = {32}, Pages = {35-51}, Year = {1983}, Key = {fds229103} } @article{fds229104, Author = {Mercer, JM}, Title = {Effective isotrophic dipole-dipole pair potential}, Journal = {Molecular Physics}, Volume = {69}, Pages = {625-638}, Year = {1990}, Key = {fds229104} } @article{fds229105, Author = {True, JR and Mercer, JM and Laurie, CC}, Title = {Differences in crossover frequency and distribution among three sibling species of Drosophila.}, Journal = {Genetics}, Volume = {142}, Number = {2}, Pages = {507-523}, Year = {1996}, Month = {February}, ISSN = {0016-6731}, url = {http://www.ncbi.nlm.nih.gov/pubmed/8852849}, Abstract = {Comparisons of the genetic and cytogenetic maps of three sibling species of Drosophila reveal marked differences in the frequency and cumulative distribution of crossovers during meiosis. The maps for two of these species, Drosophila melanogaster and D. simulans, have previously been described, while this report presents new map data for D. mauritiana, obtained using a set of P element markers. A genetic map covering nearly the entire genome was constructed by estimating the recombination fraction for each pair of adjacent inserts. The P-based genetic map of mauritiana is approximately 1.8 times longer than the standard melanogaster map. It appears that mauritiana has higher recombination along the entire length of each chromosome, but the difference is greates in centromere-proximal regions of the autosomes. The mauritiana autosomes show little or no centromeric recombinational suppression, a characteristic that is prominent in melanogaster. D. simulans appears to be intermediate both in terms of total map length and intensity of the autosomal centromeric effect. These interspecific differences in recombination have important evolutionary implications for DNA sequence organization and variability. In particular, mauritiana is expected to differ from melanogaster in patterns and amounts of sequence variation and transposon insertions.}, Doi = {10.1093/genetics/142.2.507}, Key = {fds229105} } @article{fds229106, Author = {Liu, J and Mercer, JM and Stam, LF and Gibson, GC and Zeng, ZB and Laurie, CC}, Title = {Genetic analysis of a morphological shape difference in the male genitalia of Drosophila simulans and D. mauritiana.}, Journal = {Genetics}, Volume = {142}, Number = {4}, Pages = {1129-1145}, Year = {1996}, Month = {April}, ISSN = {0016-6731}, url = {http://www.ncbi.nlm.nih.gov/pubmed/8846893}, Abstract = {Two closely related species of Drosophila, D. simulans and D. mauritiana, differ markedly in morphology of the posterior lobe of the male genital arch. Both size and shape aspects of lobe variation can be quantified by a morphometric descriptor based on elliptical Fourier and principal components analyses. The genetic architecture of this quantitative trait (PC1) was investigated by hybridizing inbred lines to produce two backcross populations approximately 200 individuals each, which were analyzed jointly by a composite interval mapping procedure with the aid of 18 marker loci. The parental lines show a large difference in PC1 (30.4 environmental standard deviations), and the markers account for > 80% of the phenotypic variation in backcross populations. Eight of 15 intervals analyzed show convincing evidence of quantitative trait loci (QTL), and the range of estimated QTL effects is 5.7-15.9% of the parental difference (1.7-4.8 environmental standard deviations). These estimates may represent the joint effects of multiple QTL within a single interval (which averaged 23 cM in length). Although there is some evidence of partial dominance of mauritiana alleles and for epistasis, the pattern of inheritance is largely additive.}, Doi = {10.1093/genetics/142.4.1129}, Key = {fds229106} } @article{fds229107, Author = {Laurie, CC and True, JR and Liu, J and Mercer, JM}, Title = {An introgression analysis of quantitative trait loci that contribute to a morphological difference between Drosophila simulans and D. mauritiana.}, Journal = {Genetics}, Volume = {145}, Number = {2}, Pages = {339-348}, Year = {1997}, Month = {February}, ISSN = {0016-6731}, url = {http://www.ncbi.nlm.nih.gov/pubmed/9071588}, Abstract = {Drosophila simulans and D. mauritiana differ markedly in morphology of the posterior lobe, a male-specific genitalic structure. Both size and shape of the lobe can be quantified by a morphometric variable, PCl, derived from principal components and Fourier analyses. The genetic architecture of the species difference in PCl was investigated previously by composite interval mapping, which revealed largely additive inheritance, with a minimum of eight quantitative trait loci (QTL) affecting the trait. This analysis was extended by introgression of marked segments of the mauritiana third chromosome into a simulans background by repeated backcrossing. The two types of experiment are consistent in suggesting that several QTL on the third chromosome may have effects in the range of 10-15% of the parental difference and that all or nearly all QTL have effects in the same direction. Since the parental difference is large (30.4 environmental standard deviations), effects of this magnitude can produce alternative homozygotes with little overlap in phenotype. However, these estimates may not reflect the effects of individual loci, since each interval or introgressed segment may contain multiple QTL. The consistent direction of allelic effects suggests a history of directional selection on the posterior lobe.}, Doi = {10.1093/genetics/145.2.339}, Key = {fds229107} } @article{fds229111, Author = {Zeng, ZB and Liu, J and Stam, LF and Kao, CH and Mercer, JM and Laurie, CC}, Title = {Genetic Architecture of a Morphological Shape Difference Between Two Drosophila Species}, Journal = {Genetics}, Volume = {154}, Number = {1}, Pages = {299-310}, Year = {2000}, Month = {January}, ISSN = {0016-6731}, Abstract = {http://www.genetics.org/cgi/content/abstract/154/1/299}, Key = {fds229111} } @article{fds229112, Author = {Louise Roth and V and Mercer, JM}, Title = {Morphometrics in development and evolution}, Journal = {American Zoologist}, Volume = {40}, Number = {5}, Pages = {801-810}, Publisher = {Society for Integrative and Comparative Biology}, Year = {2000}, Month = {January}, ISSN = {0003-1569}, url = {http://dx.doi.org/10.1093/icb/40.5.801}, Abstract = {SYNOPSIS. Morphometric approaches facilitate the analysis of quantitative variation in form, typically becoming most useful for the study of organisms that have completed morphogenesis and arc at differing stages of growth. Recent conceptual and technical refinements in the characterization and comparison of forms have joined methodological innovations in molecular biology, embryology, and phytogeny reconstruction to advance the study of the evolution of development. Among the phenomena that have recently been examined morphometrically are developmental integration and heterochrony, discoveries that in turn raise deeper questions about the connections among disciplines and among levels of description: the relationship between morphometric variables and characters, between phenomenology and process, and the interplay (and evolutionary relevance) of genes and phenotypes. Morphometrics can continue to play a vital role in evolutionary studies of-development as its results generate questions both for its practitioners and for other sorts of biologists to explore.}, Doi = {10.1093/icb/40.5.801}, Key = {fds229112} } @article{fds229113, Author = {Mercer, JM and Roth, VL}, Title = {The effects of Cenozoic global change on squirrel phylogeny.}, Journal = {Science (New York, N.Y.)}, Volume = {299}, Number = {5612}, Pages = {1568-1572}, Publisher = {American Association for the Advancement of Science}, Year = {2003}, Month = {March}, url = {http://www.ncbi.nlm.nih.gov/pubmed/12595609}, Abstract = {By modifying habitats and creating bridges and barriers between landmasses, climate change and tectonic events are believed to have important consequences for diversification of terrestrial organisms. Such consequences should be most evident in phylogenetic histories of groups that are ancient, widespread, and diverse. The squirrel family (Sciuridae) is one of very few mammalian families endemic to Eurasia, Africa, and North and South America and is ideal for examining these issues. Through phylogenetic and molecular-clock analyses, we infer that arrival and diversification of squirrels in Africa, on Sunda Shelf islands, across Beringea, and across the Panamanian isthmus coincide in timing and location with multiple well-documented sea-level, tectonic, and paleontological events. These precise correspondences point to an important role for global change in the diversification of a major group of mammals.}, Doi = {10.1126/science.1079705}, Key = {fds229113} } @article{fds229110, Author = {Kronauer, DJC and Bergmann, PJ and Mercer, JM and Russell, AP}, Title = {A phylogeographically distinct and deep divergence in the widespread Neotropical turnip-tailed gecko, Thecadactylus rapicauda.}, Journal = {Molecular phylogenetics and evolution}, Volume = {34}, Number = {2}, Pages = {431-437}, Year = {2005}, Month = {February}, ISSN = {1055-7903}, url = {http://www.ncbi.nlm.nih.gov/pubmed/15619453}, Doi = {10.1016/j.ympev.2004.10.009}, Key = {fds229110} } @article{fds229097, Author = {Louise Roth and V and Mercer, JM}, Title = {Differing rates of macroevolutionary diversification in arboreal squirrels}, Journal = {Current Science}, Volume = {95}, Number = {7}, Pages = {857-861}, Year = {2008}, Month = {October}, ISSN = {0011-3891}, Abstract = {Current diversity is the result of macroevolutionary processes of origination and extinction of lineages through time. Here we make use of a fossil-calibrated molecular-clock phylogeny of modern squirrel genera to estimate both rates of 'birth' and 'death', and the net rate of accumulation of lineages since the origin of the squirrel family (Sciuridae) 36 Ma. As a family, the Sciuridae have exhibited modest rates of diversification in comparison with other mammalian clades. Within the Sciuridae, lineages of squirrels have accumulated at higher rates in geographically localized subclades in the tropics of different continents. The rate is strikingly high in the Sciurini of South America, which first entered and radiated within that continent comparatively recently (less than 3 Ma). It is noteworthy that the most rapidly diversifying groups are also relatively young. Because extinctions lag behind originations, the effects of extinction are not yet detectable in relatively recent radiations. The balance of origination and extinction is fragile, and is likely to become more so if increases in extinction due to habitat destruction, climate change and other human activity are not mitigated.}, Key = {fds229097} } @article{fds152963, Title = {Roth, VL & JM Mercer 2008. Differing rates of macroevolutionary diversification in arboreal squirrels. Current Science 95:857-86}, Year = {2008}, Month = {October}, Abstract = {Current diversity is the result of macroevolutionary processes of origination and extinction of lineages through time. Here we make use of a fossil-calibrated molecular-clock phylogeny of modern squirrel genera to estimate both rates of 'birth' and 'death', and the net rate of accumulation of lineages since the origin of the squirrel family (Sciuridae) 36 Ma. As a family, the Sciuridae have exhibited modest rates of diversification in comparison with other mammalian clades. Within the Sciuridae, lineages of squirrels have accumulated at higher rates in geographically localized subclades in the tropics of different continents. The rate is strikingly high in the Sciurini of South America, which first entered and radiated within that continent comparatively recently (less than 3 Ma). It is noteworthy that the most rapidly diversifying groups are also relatively young. Because extinctions lag behind originations, the effects of extinction are not yet detectable in relatively recent radiations. The balance of origination and extinction is fragile, and is likely to become more so if increases in extinction due to habitat destruction, climate change, and other human activity are not mitigated.}, Key = {fds152963} } @article{fds229108, Author = {Siegel, SJ and Percopo, CM and Dyer, KD and Zhao, W and Roth, VL and Mercer, JM and Rosenberg, HF}, Title = {RNase 1 genes from the family Sciuridae define a novel rodent ribonuclease cluster.}, Journal = {Mammalian genome : official journal of the International Mammalian Genome Society}, Volume = {20}, Number = {11-12}, Pages = {749-757}, Year = {2009}, Month = {November}, ISSN = {0938-8990}, url = {http://dx.doi.org/10.1007/s00335-009-9215-4}, Abstract = {The RNase A ribonucleases are a complex group of functionally diverse secretory proteins with conserved enzymatic activity. We have identified novel RNase 1 genes from four species of squirrel (order Rodentia, family Sciuridae). Squirrel RNase 1 genes encode typical RNase A ribonucleases, each with eight cysteines, a conserved CKXXNTF signature motif, and a canonical His(12)-Lys(41)-His(119) catalytic triad. Two alleles encode Callosciurus prevostii RNase 1, which include a Ser(18)<-->Pro, analogous to the sequence polymorphisms found among the RNase 1 duplications in the genome of Rattus exulans. Interestingly, although the squirrel RNase 1 genes are closely related to one another (77-95% amino acid sequence identity), the cluster as a whole is distinct and divergent from the clusters including RNase 1 genes from other rodent species. We examined the specific sites at which Sciuridae RNase 1s diverge from Muridae/Cricetidae RNase 1s and determined that the divergent sites are located on the external surface, with complete sparing of the catalytic crevice. The full significance of these findings awaits a more complete understanding of biological role of mammalian RNase 1s.}, Doi = {10.1007/s00335-009-9215-4}, Key = {fds229108} } @article{fds229109, Author = {Bennett, SM and Mercer, JM and Noor, MAF}, Title = {Slip-sliding away: serial changes and homoplasy in repeat number in the Drosophila yakuba homolog of human cancer susceptibility gene BRCA2.}, Journal = {PloS one}, Volume = {5}, Number = {6}, Pages = {e11006}, Year = {2010}, Month = {June}, ISSN = {1932-6203}, url = {http://www.ncbi.nlm.nih.gov/pubmed/20543987}, Abstract = {Several recent studies have examined the function and evolution of a Drosophila homolog to the human breast cancer susceptibility gene BRCA2, named dmbrca2. We previously identified what appeared to be a recent expansion in the RAD51-binding BRC-repeat array in the ancestor of Drosophila yakuba. In this study, we examine patterns of variation and evolution of the dmbrca2 BRC-repeat array within D. yakuba and its close relatives. We develop a model of how unequal crossing over may have produced the expanded form, but we also observe short repeat forms, typical of other species in the D. melanogaster group, segregating within D. yakuba and D. santomea. These short forms do not appear to be identical-by-descent, suggesting that the history of dmbrca2 in the D. melanogaster subgroup has involved repeat unit contractions resulting in homoplasious forms. We conclude that the evolutionary history of dmbrca2 in D. yakuba and perhaps in other Drosophila species may be more complicated than can be inferred from examination of the published single genome sequences per species.}, Doi = {10.1371/journal.pone.0011006}, Key = {fds229109} } @article{fds300298, Author = {Turck, CJ and Frazee, E and Kram, B and Daley, MJ and Day, SA and Horner, D and Lesch, C and Mercer, JM and Plewa, AM and Herout, P and Critical Care Pharmacotherapy Literature Update Group}, Title = {Major publications in the critical care pharmacotherapy literature: February 2012 through February 2013.}, Journal = {American journal of health-system pharmacy : AJHP : official journal of the American Society of Health-System Pharmacists}, Volume = {71}, Number = {1}, Pages = {68-77}, Year = {2014}, Month = {January}, url = {http://www.ncbi.nlm.nih.gov/pubmed/24352184}, Abstract = {<h4>Purpose</h4>Recent impactful additions to the professional literature on the role of pharmacotherapy in treating the critically ill are summarized.<h4>Summary</h4>An unusually large number of updated practice guidelines and other publications with broad critical care pharmacotherapy ramifications appeared in the primary biomedical literature during the designated review period (February 2012-February 2013). Hundreds of relevant articles were evaluated by the Critical Care Pharmacotherapy Literature Update group (CCPLU), a national group of pharmacists who routinely monitor 25 peer-reviewed journals for emerging evidence that pertains to rational medication use in the intensive care unit (ICU) setting. From among those articles, 64 were summarized for dissemination to CCPLU members; the 8 publications deemed to have the greatest utility for critical care practitioners, as determined by CCPLU through a voting process, were selected for inclusion in this review, with preference given to evidence meeting high standards of methodological quality. The summaries presented here include (1) important new recommendations on management of pain, agitation, and delirium in critically ill patients, (2) a comprehensive update of a practice guideline issued in 2008 by the Surviving Sepsis Campaign, (3) novel strategies for the prevention and/or treatment of hyperglycemia in critical care, and (4) reports on clinical trials of promising alternative methods of sedation for use in weaning patients from mechanical ventilation.<h4>Conclusion</h4>This review provides synopses of practice guidelines and other recent additions to the professional literature pertaining to rational medication use in the ICU practice setting.}, Doi = {10.2146/ajhp130303}, Key = {fds300298} } %% Book Chapters @misc{fds300294, Author = {Fernandez de la Mora and J and Mercer, JM and Rosner, DE and Fenn, JB}, Title = {Simplified kinetic treatment of heavy molecule velocity persistence effects: Application to species separation}, Volume = {74}, Pages = {617-626}, Booktitle = {Rarefied Gas Dynamics: Progress in Astronautics and Aeronautics}, Editor = {Fisher, SS}, Year = {1981}, Key = {fds300294} } @misc{fds300295, Author = {Mercer, JM}, Title = {Unequal crossing-over}, Series = {2nd}, Pages = {252-256}, Booktitle = {Sydney Brenner's Encyclopedia of Genetics}, Publisher = {Elsevier}, Editor = {Maloy, S and Hughes, K}, Year = {2013}, ISBN = {9780123749840}, url = {http://dx.doi.org/10.1016/B978-0-12-374984-0.01604-1}, Abstract = {Unequal crossing-over (UCO) occurs when distinct loci similar in sequence undergo homologous recombination. UCO was inferred from a series of experiments on the Bar locus in Drosophila melanogaster, demonstrating that crossing-over occurred in conjunction with Bar locus mutations. The process may result in duplication and deletion of genetic material, formation of chimeric genes, and the generation of mobile extrachromosomal elements. Contemporary studies of newly abundant genomic data show multicellular genomes to be filled with gene families whose formation can best be understood through UCO. Primates have been found to have substantial copy number variation (CNV) generated through nonallelic homologous recombination (NAHR), a type of UCO that occurs among highly similar sequences. The genetic variation produced is substantial, exceeding even single-nucleotide polymorphisms (SNPs) on a per-base-pair basis. That variation has major genetic disease-generating capability but also provides new variation for evolutionary processes. UCO plays a central role in chromosomal rearrangements (inversions, translocations), gene duplication, and tandem duplication of functional and structural modules especially in multicellular organisms, generation of gene families, and generation of mobile genetic materials such as exons - all important sources of the genetic variation necessary for evolution.}, Doi = {10.1016/B978-0-12-374984-0.01604-1}, Key = {fds300295} } @misc{fds300296, Author = {Mercer, JM}, Title = {Cooperativity}, Series = {2nd}, Pages = {183-187}, Booktitle = {Sydney Brenner's Encyclopedia of Genetics}, Publisher = {Elsevier}, Editor = {Maloy, S and Hughes, K}, Year = {2013}, ISBN = {9780123749840}, url = {http://dx.doi.org/10.1016/B978-0-12-374984-0.00339-9}, Abstract = {Cooperativity subsumes a diverse set of phenomena, including ligand-protein, protein-protein, and protein-DNA interactions, covalent modification of proteins, membrane assembly, and protein folding. In its usual sense the allosteric interaction promotes (positive cooperativity) or reduces (negative cooperativity) the expected function of a macromolecular complex. The principal manifestation of cooperativity is a sigmoidal (S-shaped) binding or reaction rate (response) curve that facilitates a nearly bimodal change of state over a narrow range of a control variable upon which a response depends. Sigmoid curves are typically modeled by the Hill equation. Curves with Hill coefficients greater than (positive cooperativity) or less than (negative cooperativity) 1 are usually considered diagnostic of cooperativity, and, with their principal response in a narrow range, are reminiscent of switch-like behavior, although they transition continuously and in a state of equilibrium between their unactivated and activated form without bistability. Cooperativity is in widespread use in the economy of cells including metabolic control, cell cycle control, ligand binding and transport, genetic switches (bistability), signaling, threshold phenomena, development, protein folding, and membrane assembly. Mathematical expressions incorporating cooperativity are frequent components of mathematical models of cellular processes, and may also be translated into design elements of switches and oscillators in synthetic biology.}, Doi = {10.1016/B978-0-12-374984-0.00339-9}, Key = {fds300296} } @misc{fds300297, Author = {Roth, VL and Mercer, JM}, Title = {Themes and variation in sciurid evolution}, Series = {Cambridge studies in morphology & molecules: new paradigms in evolutionary biology}, Pages = {221-245}, Booktitle = {Evolution of the Rodents: Advances in Phylogenetics, Functional Morphology and Development}, Publisher = {Cambridge University Press}, Editor = {Cox, PG and Hautier, L}, Year = {2015}, ISBN = {9781107044333}, url = {http://dx.doi.org/10.1017/CBO9781107360150.009}, Abstract = {With a species diversity approaching 300 (Thorington and Hoffmann, 2005) and nearly worldwide in their distribution, squirrels are common and important elements of many ecological communities. The diurnal habits of most taxa together with their relative conformity in body plan make them familiar and easily recognized by both scientists and non-specialists. The squirrel family, Sciuridae, also has a long history of recognition by taxonomists as a coherent grouping, despite its comprising distinctive forms associated with use of different locomotor substrates (Table 8.1). At times, burrowing or gliding forms have been separated from the archetypal arboreal squirrels: Fischer de Waldheim (1817), the authority credited for naming the Sciuridae (Thorington and Hoffmann, 2005), advocated use of limb structure in recognizing groups of mammals, and accordingly, he removed flying squirrels (‘Petauristus’, Fischer de Waldheim, 1817: p. 422) to another ‘Division’ apart from ‘Familia Sciuriorum’ (p. 408), even though Linnaeus had placed flying squirrels together with tree and some ground squirrels under SCIURUS (Linnaeus, 1758: pp. 63-64; see Table 8.1). Woodchucks and marmots have also posed something of a problem, to Linnaeus (1758:p. 60), who listed them under ‘MUS’, and to many subsequent authors who also set them apart from other sciurids. However, by late 1839 (according to Brandt, 1855: p. 106, and Alston, 1876: p. 62) all of these animals had been combined by Waterhouse to form a version of Sciuridae that would be congruent with the modern concept of the family. Along the way, dormice (referred to as ‘Myoxus’) have often crept into lists of squirrels (e.g. Fischer de Waldheim, 1817, but not those of Linnaeus before him or Brandt subsequently), both their exclusion and their inclusion foreshadowing current views based on molecular evidence that dormice are distinct from sciurids but have closer affinities with them (plus aplodontids) than with other rodent families (e.g. Blanga-Kanfi et al., 2009; Churakov et al., 2010; Fabre et al., 2012).}, Doi = {10.1017/CBO9781107360150.009}, Key = {fds300297} } %% Other @misc{fds30310, Author = {V. L. Roth and S. Unsicker and J. M. Mercer}, Title = {Mandibles of rodents that have cheek pouches differ morphometrically from those of rodents that do not}, Journal = {Poster: 7th International conference of Vertebrate Morphology}, Year = {2004}, Month = {August}, Key = {fds30310} }