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2007

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Classification By Ensembles From Random Partitions Using Logistic Regression Models, Noha Lim Dec 2007

Classification By Ensembles From Random Partitions Using Logistic Regression Models, Noha Lim

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


The Roles Of The Ift & Bbs Proteins In Drosophila Mechanosensory And Chemosensory Cilia, Eugene Lee Dec 2007

The Roles Of The Ift & Bbs Proteins In Drosophila Mechanosensory And Chemosensory Cilia, Eugene Lee

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


A Multiscale, Geometric Algorithm For Non-Parametric Data Exploration With An Application To Genomic Data, Joseph Mcquown Dec 2007

A Multiscale, Geometric Algorithm For Non-Parametric Data Exploration With An Application To Genomic Data, Joseph Mcquown

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Thermal Transport Properties Of Thermally Sprayed Coatings: An Integrated Study Of Materials, Processing And Microstructural Effects, Weiguang Chi Dec 2007

Thermal Transport Properties Of Thermally Sprayed Coatings: An Integrated Study Of Materials, Processing And Microstructural Effects, Weiguang Chi

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Mechanism Of Maintenance Of Cellular Senescence, Sabrina Nunez Dec 2007

Mechanism Of Maintenance Of Cellular Senescence, Sabrina Nunez

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Using Direct Measurements Of Submarine Groundwater Discharge To Investigate The Coupling Between Surface And Pore Waters, John Paul Rapaglia Dec 2007

Using Direct Measurements Of Submarine Groundwater Discharge To Investigate The Coupling Between Surface And Pore Waters, John Paul Rapaglia

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Identification And Functional Characterization Of Novel Proteins Regulating Wnt/Β-Catenin Signaling, Michael Eric Feigin Dec 2007

Identification And Functional Characterization Of Novel Proteins Regulating Wnt/Β-Catenin Signaling, Michael Eric Feigin

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Electrical Methods To Characterize Defect Evolution In Plasma Sprayed Coatings Under Cyclic Straining, Arash Ghabchi Dec 2007

Electrical Methods To Characterize Defect Evolution In Plasma Sprayed Coatings Under Cyclic Straining, Arash Ghabchi

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Folding Of Α-Helical Proteins And Protein Design Using Non-Coded Amino Acids, Benben Song Dec 2007

Folding Of Α-Helical Proteins And Protein Design Using Non-Coded Amino Acids, Benben Song

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Characterization Of Nucleo-Cytomplasmic Transport Of The Transcription Factor Stat5a, Janaki Kannan Iyer Dec 2007

Characterization Of Nucleo-Cytomplasmic Transport Of The Transcription Factor Stat5a, Janaki Kannan Iyer

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Critique Of A Homuncular Model Of Mind From The Neo-Vitalist Perspective, Peter Vere Warden Dec 2007

Critique Of A Homuncular Model Of Mind From The Neo-Vitalist Perspective, Peter Vere Warden

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Clathrin-Independent Endocytosis Of Erbb2 In Human Breast Cancer Cells, Daniel John Barr Dec 2007

Clathrin-Independent Endocytosis Of Erbb2 In Human Breast Cancer Cells, Daniel John Barr

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


The Pathogenic Ny-1 Hantavirus Gn Cytoplasmic Tail Regulates Cellular Interferon Responses, Peter Joseph Alff Dec 2007

The Pathogenic Ny-1 Hantavirus Gn Cytoplasmic Tail Regulates Cellular Interferon Responses, Peter Joseph Alff

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


The Role Of Dynamic Muscle Contractions On Bone Loss And Muscle Atrophy In A Functional Disuse Mouse Model, Adiba Mir Ali Dec 2007

The Role Of Dynamic Muscle Contractions On Bone Loss And Muscle Atrophy In A Functional Disuse Mouse Model, Adiba Mir Ali

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

[to be added]


Phylogenetic Relationships Of The Decumbentes Group Of Paspalum, Thrasya, And Thrasyopsis (Poaceae: Panicoideae: Paniceae), Silvia S. Denham, Fernando O. Zuloaga Dec 2007

Phylogenetic Relationships Of The Decumbentes Group Of Paspalum, Thrasya, And Thrasyopsis (Poaceae: Panicoideae: Paniceae), Silvia S. Denham, Fernando O. Zuloaga

Aliso: A Journal of Systematic and Floristic Botany

Paspalum (Poaceae: Panicoideae: Paniceae) includes 330 species distributed mainly in tropical and subtropical regions of America. Due to the large number of species and convergence in many characters, an adequate infrageneric classification is still needed. Studies on Paniceae based on molecular and morphological data have suggested that Paspalum is paraphyletic, including the genus Thrasya, but none of these analyses have included a representative sample of these two genera. In this study, phylogenetic relationships among the informal group Decumbentes of Paspalum, plus subgenera and other informal groups, and the genera Thrasya and Thrasyopsis were estimated. A cladistic analysis under …


Child Sexual Abuse, Andrea R. Perry, David K. Dilillo Dec 2007

Child Sexual Abuse, Andrea R. Perry, David K. Dilillo

Department of Psychology: Faculty Publications

Child sexual abuse (CSA), a social problem of endemic proportions, has existed in all historical eras and societies (Conte 1994; Fergusson and Mullen 1999; Wekerle and Wolfe 1996; Wolfe 1999). Since antiquity, anecdotal records (e.g., legal, artistic, philosophical, and literary accounts) have documented activities that would today be classified as CSA (deMause 1974; Kahr 1991; Olafson, Corwin, and Summit 1993). For instance, a sizable portion of adults in ancient Greek and Roman cultures openly engaged in what is now considered pederasty or rape (deMause 1974; Kahr 1991). Although adult-child sexual encounters have occurred throughout history, perceptions of such practices have …


Cover Page Dec 2007

Cover Page

Aliso: A Journal of Systematic and Floristic Botany

No abstract provided.


Preface Dec 2007

Preface

Aliso: A Journal of Systematic and Floristic Botany

No abstract provided.


The Jeweled Armor Of Tillandsia—Multifaceted Or Elongated Trichomes Provide Photoprotection, Simon Pierce Dec 2007

The Jeweled Armor Of Tillandsia—Multifaceted Or Elongated Trichomes Provide Photoprotection, Simon Pierce

Aliso: A Journal of Systematic and Floristic Botany

Foliar trichomes of gray-leaved Tillandsioideae (Bromeliaceae) are highly reflective, suggesting a role in protecting the leaf against direct sunlight in exposed niches. The performance of photosystem II, as denoted by the chlorophyll fluorescence characteristic Fv /Fm , was determined for seven Tillandsia species and Vriesea barclayana that were exposed to excessive light, with trichomes either present or removed. Additionally, trichome structure and interaction with light was recorded using extended depth-of-field photomicrography, and reflectance quantified using a novel photographic technique. Trichomes of mesomorphic Type IV life forms (T. cryptantha, T. cyanea) and of the intermediate life …


Chromosome Evolution In Cyperales, Eric H. Roalson, Andrew G. Mccubbin, Richard Whitkus Dec 2007

Chromosome Evolution In Cyperales, Eric H. Roalson, Andrew G. Mccubbin, Richard Whitkus

Aliso: A Journal of Systematic and Floristic Botany

Karyotypic evolution is a prominent feature in the diversification of many plants and animals, yet the role that chromosomal changes play in the process of diversification is still debated. At the diploid level, chromosome fission and/or fusion are necessary components of chromosomal structural change associated with diversification. Yet the genomic features required for these events remain unknown. Here we present an overview of what is known about genomic structure in Cyperales, with particular focus on the current level of understanding of chromosome number and genome size and their impact in a phylogenetic context. We outline ongoing projects exploring genomic structure …


Phylogeny Of Cyperaceae Based On Dna Sequence Data–A New Rbcl Analysis, David A. Simpson, A. Muthama Muasya, Marccus V. Alves, Jeremy J. Bruhl, Sandra Dhooge, Mark W. Chase, Carol A. Furness, Kioumars Ghamkhar, Paul Goetghebeur, Trevor R. Hodkinson, Adam D. Marchant, Anton A. Reznicek, Roland Nieuwborg, Eric H. Roalson, Erik Smets, Julian R. Starr, William W. Thomas, Karen L. Wilson, Xiufu Zhang Dec 2007

Phylogeny Of Cyperaceae Based On Dna Sequence Data–A New Rbcl Analysis, David A. Simpson, A. Muthama Muasya, Marccus V. Alves, Jeremy J. Bruhl, Sandra Dhooge, Mark W. Chase, Carol A. Furness, Kioumars Ghamkhar, Paul Goetghebeur, Trevor R. Hodkinson, Adam D. Marchant, Anton A. Reznicek, Roland Nieuwborg, Eric H. Roalson, Erik Smets, Julian R. Starr, William W. Thomas, Karen L. Wilson, Xiufu Zhang

Aliso: A Journal of Systematic and Floristic Botany

Since the Monocots II meeting in 1998, significant new data have been published that enhance our systematic knowledge of Cyperaceae. Phylogenetic studies in the family have also progressed steadily. For this study, a parsimony analysis was carried out using all rbcL sequences currently available for Cyperaceae, including data for two new genera. One of the four subfamilies (Caricoideae) and seven of the 14 tribes (Bisboeckelereae, Cariceae, Cryptangieae, Dulichieae, Eleocharideae, Sclerieae, Trilepideae) are monophyletic. Subfamily Mapanioideae and tribe Chrysitricheae are monophyletic if, as the evidence suggests, Hellmuthia is considered a member of Cypereae. Some other features of our analysis include: …


Phylogenetic Implications Of A Unique 5.8s Nrdna Insertion In Cyperaceae, Julian R. Starr, Geneviève Gravel, Anne Bruneau, A. Muthama Muasya Dec 2007

Phylogenetic Implications Of A Unique 5.8s Nrdna Insertion In Cyperaceae, Julian R. Starr, Geneviève Gravel, Anne Bruneau, A. Muthama Muasya

Aliso: A Journal of Systematic and Floristic Botany

The purpose of this study was to assess the phylogenetic utility of a large insertion (3 bp) in the 5.8S gene of nuclear ribosomal DNA (nrDNA) in Cyperaceae and selected Juncaceae. This was done by reconstructing the character evolution of the insertion on a phylogeny derived from rbcL sequences. Results suggest that the insertion was gained once at the base of Cyperaceae followed by multiple losses in its most-derived taxa. Despite several homoplastic losses (CI = 0.20), the pattern of insertion loss (RI = 0.88), and base pair variation within the insertion were useful for defining sedge clades at …


Chromosome Number Changes Associated With Speciation In Sedges: A Phylogenetic Study In Carex Section Ovales (Cyperaceae) Using Aflp Data, Andrew L. Hipp, Paul E. Rothrock, Anton A. Reznicek, Paul E. Berry Dec 2007

Chromosome Number Changes Associated With Speciation In Sedges: A Phylogenetic Study In Carex Section Ovales (Cyperaceae) Using Aflp Data, Andrew L. Hipp, Paul E. Rothrock, Anton A. Reznicek, Paul E. Berry

Aliso: A Journal of Systematic and Floristic Botany

Phylogenetic analysis of amplified fragment length polymorphisms (AFLP) was used to infer patterns of morphologic and chromosomal evolution in an eastern North American group of sedges (ENA clade I of Carex sect. Ovales). Distance analyses of AFLP data recover a tree that is topologically congruent with previous phylogenetic estimates based on nuclear ribosomal DNA (nrDNA) sequences and provide support for four species groups within ENA clade I. A maximum likelihood method designed for analysis of restriction site data is used to evaluate the strength of support for alternative topologies. While there is little support for the precise placement of …


Plasticity Of Chasmogamous And Cleistogamous Reproductive Allocation In Grasses, Gregory P. Cheplick Dec 2007

Plasticity Of Chasmogamous And Cleistogamous Reproductive Allocation In Grasses, Gregory P. Cheplick

Aliso: A Journal of Systematic and Floristic Botany

Cleistogamy is more common in grasses than in any other angiosperm family. Both self-fertilized cleistogamous (CL) spikelets and open-pollinated chasmogamous (CH) spikelets are typically produced. Relative allocation to CL and CH varies among species and populations, and is influenced by ontogeny and environment. The balance between reproductive modes can be expressed as a CH/CL ratio. This ratio is very plastic, and stressful conditions can result in values Amphicarpum purshii, an annual with subterranean CL spikelets, CH/CL declined as density increased because CH decreased more than CL as size was reduced by intraspecific competition. In the shade-tolerant annual Microstegium vimineum, …


Phenotypic Plasticity May Facilitate Invasion By Aegilops Triuncialis, Andrew R. Dyer Dec 2007

Phenotypic Plasticity May Facilitate Invasion By Aegilops Triuncialis, Andrew R. Dyer

Aliso: A Journal of Systematic and Floristic Botany

One great obstacle to understanding the invasion of nonnative species into native ecosystems is the lack of information on the population biology of the invading species. In particular, morphological and physiological adaptations and potential for phenotypic plasticity will strongly influence a species’ ability to persist and spread in newly invaded ecosystems. Phenotypic plasticity can buffer populations from selection thereby allowing them to survive the establishment phase of the invasion. The annual grass Aegilops triuncialis (Poaceae, Triticeae) has become highly invasive in California (USA) and provides an opportunity to investigate the importance of phenotypic plasticity to persistence and spread in new …


A Systematic Approach To Subtribe Loliinae (Poaceae: Pooideae) Based On Phylogenetic Evidence, Pilar Catalán, Pedro Torrecilla, José A. López-Rodríguez, Jochen Müller, Clive A. Stace Dec 2007

A Systematic Approach To Subtribe Loliinae (Poaceae: Pooideae) Based On Phylogenetic Evidence, Pilar Catalán, Pedro Torrecilla, José A. López-Rodríguez, Jochen Müller, Clive A. Stace

Aliso: A Journal of Systematic and Floristic Botany

Loliinae (Poaceae, Pooideae) encompass a large group of genera closely related to Festuca, the largest genus in the subtribe, which as traditionally circumscribed has been shown to be highly paraphyletic. In this investigation we combined molecular and morphological data representing 20 genera of Loliinae and closely related subtribes. Combined analysis of nucleotide sequences from the nuclear ITS and chloroplast trnL–F regions and structural characters recovered a consensus topology that shows Loliinae to be monophyletic and possessing two main clades—the fine-leaved Festuca clade that includes Ctenopsis, Micropyrum, Narduroides, Psilurus, Vulpia, and Wangenheimia, and …


Phylogeny Of Poa (Poaceae) Based On Trnt–Trnf Sequence Data: Major Clades And Basal Relationships, Lynn J. Gillespie, Annie Archambault, Robert J. Soreng Dec 2007

Phylogeny Of Poa (Poaceae) Based On Trnt–Trnf Sequence Data: Major Clades And Basal Relationships, Lynn J. Gillespie, Annie Archambault, Robert J. Soreng

Aliso: A Journal of Systematic and Floristic Botany

Poa, the largest genus of grasses (Poaceae) with over 500 species, occurs throughout temperate and boreal regions in both hemispheres. A phylogenetic study of Poa based on trnT–trnF chloroplast DNA sequence data is presented focusing on basal relationships, major clades, generic boundaries, and placement of putatively closely related genera. Results support the monophyly of the main lineage of Poa if subgen. Andinae is excluded and Anthochloa, Austrofestuca, Dissanthelium (at least in part), and Eremopoa are included. The main Poa clade and subgen. Andinae resolve within a strongly supported Poinae–Alopecurinae–Miliinae clade (PAM). The subdivision of …


Variability Of Bluegrass (Poa) In Siberia, Marina V. Olonova Dec 2007

Variability Of Bluegrass (Poa) In Siberia, Marina V. Olonova

Aliso: A Journal of Systematic and Floristic Botany

Siberian bluegrass (Poa) includes a number of polymorphic species such as P. arctica s.l., P. nemoralis s.l., P. palustris s.l., P. pratensis s.l., P. sibirica s.l., and P. smirnovii s.l., plus numerous hybrids and purported derivatives (e.g., P. attenuata s.l., P. glauca s.l., P. urssulensis s.l.). In Siberia Poa is represented by morphologically isolated species and hybrid-apomictic complexes, including both distinct species and taxonomic groups of obscure rank. Section Stenopoa is especially rich in these complexes. Most of the key morphological characters used in the taxonomy of bluegrass vary as much within populations as among populations and thus …


Phylogenetics Of Andropogoneae (Poaceae: Panicoideae) Based On Nuclear Ribosomal Internal Transcribed Spacer And Chloroplast Trnl–F Sequences, Elizabeth M. Skendzic, J. Travis Columbus, Rosa Cerros-Tlatilpa Dec 2007

Phylogenetics Of Andropogoneae (Poaceae: Panicoideae) Based On Nuclear Ribosomal Internal Transcribed Spacer And Chloroplast Trnl–F Sequences, Elizabeth M. Skendzic, J. Travis Columbus, Rosa Cerros-Tlatilpa

Aliso: A Journal of Systematic and Floristic Botany

Phylogenetic relationships among 85 species representing 35 genera in the grass tribe Andropogoneae were estimated from maximum parsimony and Bayesian analyses of nuclear ITS and chloroplast trnL–F DNA sequences. Ten of the 11 subtribes recognized by Clayton and Renvoize (1986) were sampled. Independent analyses of ITS and trnL–F yielded mostly congruent, though not well resolved, topologies. Arundinella is sister to Andropogoneae in the trnL–F phylogeny and is nested within the tribe in the ITS and combined data trees. Tristachya is sister to Andropogoneae + Arundinella in the ITS phylogeny. Four clades are common to the ITS and …


Classification And Biogeography Of New World Grasses: Chloridoideae, Paul M. Peterson, J. Travis Columbus, Susan J. Pennington Dec 2007

Classification And Biogeography Of New World Grasses: Chloridoideae, Paul M. Peterson, J. Travis Columbus, Susan J. Pennington

Aliso: A Journal of Systematic and Floristic Botany

Subfamily Chloridoideae (Poaceae) in the New World includes 72 genera (61 native, 11 introduced), 678 species (607 native), and, including intraspecific taxa, 817 total taxa. The five largest genera are Muhlenbergia (147 species), Eragrostis (111), Sporobolus (76), Bouteloua (57), and Chloris (35). Three tribes are recognized in this study: Cynodonteae, Eragrostideae, and Zoysieae, with ten, three, and two subtribes, respectively. Cynodonteae, the largest tribe, comprise 58 genera and 451 species (67% of all New World chloridoids), including 25 genera (98 species, 22% of all New World Cynodonteae) with unknown affinities (incertae sedis). In Mexico, the USA, and Canada there are …