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List of works by Laura A. Katz

A Program Aimed toward Inclusive Excellence for Underrepresented Undergraduate Women in the Sciences

scientific article published on January 2017

A multigene analysis of Corallomyxa tenera sp. nov. suggests its membership in a clade that includes Gromia, Haplosporidia and Foraminifera

scientific article

A paradox: rapid evolution rates of germline-limited sequences are associated with conserved patterns of rearrangements in cryptic species of Chilodonella uncinata (Protista, Ciliophora)

scientific article published on 19 July 2018

Alternative processing of scrambled genes generates protein diversity in the ciliate Chilodonella uncinata

scientific article (publication date: 15 September 2010)

Amoebozoans Are Secretly but Ancestrally Sexual: Evidence for Sex Genes and Potential Novel Crossover Pathways in Diverse Groups of Amoebae.

scientific article

An epigenetic toolkit allows for diverse genome architectures in eukaryotes.

scientific article

Analyses of alternatively processed genes in ciliates provide insights into the origins of scrambled genomes and may provide a mechanism for speciation.

scientific article

Analyses of chromosome copy number and expression level of four genes in the ciliate Chilodonella uncinata reveal a complex pattern that suggests epigenetic regulation

scientific article

Are microbes fundamentally different than macroorganisms? Convergence and a possible case for neutral phenotypic evolution in testate amoeba (Amoebozoa: Arcellinida)

scientific article

Assessing Whether Alpha-Tubulin Sequences Are Suitable for Phylogenetic Reconstruction of Ciliophora with Insights into Its Evolution in Euplotids ⬇️

scientific article published on July 10, 2012

Assessing the effects of a sequestered germline on interdomain lateral gene transfer in Metazoa

scientific article published on 3 May 2016

Broadly sampled multigene analyses yield a well-resolved eukaryotic tree of life

scientific article

Broadly sampled multigene trees of eukaryotes

scientific article

Building a phylogenomic pipeline for the eukaryotic tree of life - addressing deep phylogenies with genome-scale data

scientific article published on 02 April 2014

Changing perspectives on the origin of eukaryotes

scientific article published on 01 December 1998

Characterization of the life cycle and heteromeric nature of the macronucleus of the ciliate Chilodonella uncinata using fluorescence microscopy

scientific article

Ciliate diversity and distribution across an environmental and depth gradient in Long Island Sound, USA.

scientific article

Combined genome and transcriptome analyses of the ciliate Schmidingerella arcuata (Spirotrichea) reveal patterns of DNA elimination, scrambling, and inversion

scientific article published on 01 September 2020

Comparative Studies on the Polymorphism and Copy Number Variation of mtSSU rDNA in Ciliates (Protista, Ciliophora): Implications for Phylogenetic, Environmental, and Ecological Research

scientific article published on 25 February 2020

Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil

scientific article published on 10 March 2020

Comprehensive phylogenetic reconstruction of amoebozoa based on concatenated analyses of SSU-rDNA and actin genes

scientific article

Congruence and indifference between two molecular markers for understanding oral evolution in the Marynidae sensu lato (Ciliophora, Colpodea)

scientific article

Cryptic diversity within morphospecies of testate amoebae (Amoebozoa: Arcellinida) in New England bogs and fens

scientific article

DAPI staining and DNA content estimation of nuclei in uncultivable microbial eukaryotes (Arcellinida and Ciliates)

scholarly article published in 2021

De novo Sequencing, Assembly, and Annotation of the Transcriptome for the Free-Living Testate Amoeba Arcella intermedia

scientific article published on 23 January 2020

Disentangling sources of variation in SSU rDNA sequences from single cell analyses of ciliates: impact of copy number variation and experimental error.

scientific article published in July 2017

Distribution of Abundant and Active Planktonic Ciliates in Coastal and Slope Waters Off New England.

scientific article published on 14 November 2017

Diversity of diversity: conceptual and methodological differences in biodiversity estimates of eukaryotic microbes as compared to bacteria.

scientific article

Diversity of oligotrichia and choreotrichia ciliates in coastal marine sediments and in overlying plankton

scientific article

Dramatic diversity of ciliate histone H4 genes revealed by comparisons of patterns of substitutions and paralog divergences among eukaryotes

scientific article published on 23 December 2003

Editorial

Estimating the timing of early eukaryotic diversification with multigene molecular clocks ⬇️

scientific article

Evaluating support for the current classification of eukaryotic diversity ⬇️

scientific article published in December 2006

Evolution of developmentally regulated genome rearrangements in eukaryotes

scientific article

Evolution of duplicated alpha-tubulin genes in ciliates

scientific article

Evolution of the actin gene family in testate lobose amoebae (Arcellinida) is characterized by two distinct clades of paralogs and recent independent expansions

scientific article (publication date: 2011)

Evolution: Lost worlds

scientific article published on 01 March 1998

Expanding character sampling for ciliate phylogenetic inference using mitochondrial SSU-rDNA as a molecular marker

scientific article published on 13 August 2010

Exploration of the Germline Genome of the Ciliate Chilodonella uncinata through Single-Cell Omics (Transcriptomics and Genomics).

scientific article published on 9 January 2018

Failed species, innominate forms, and the vain search for species limits: cryptic diversity in dusky salamanders (Desmognathus) of eastern Tennessee.

scientific article published on 8 September 2013

Foraminifera as a model of eukaryotic genome dynamism

scientific article published on 8 February 2024

Frontiers in genomics: insights into protist evolutionary biology, University of Iowa, May 19-21, 2004

scientific article published on 01 March 2005

Further analyses of variation of ribosome DNA copy number and polymorphism in ciliates provide insights relevant to studies of both molecular ecology and phylogeny

scientific article published on 21 January 2019

Genetic identities of Cryptic species in the Strombidium stylifer/apolatum/oculatum cluster, including a description of Strombidium rassoulzadegani n. sp.

scientific article

Genome analyses of the new model protist Euplotes vannus focusing on genome rearrangement and resistance to environmental stressors

scientific article published on 06 June 2019

Genome architecture drives protein evolution in ciliates

scientific article published on 07 June 2006

Genome diversity in microbial eukaryotes

scientific article (publication date: 2004)

Genome dynamics are influenced by food source in Allogromia laticollaris strain CSH (Foraminifera)

scientific article (publication date: 2010)

Genome structure drives patterns of gene family evolution in ciliates, a case study using Chilodonella uncinata (Protista, Ciliophora, Phyllopharyngea)

scientific article

Genomes: epigenomics and the future of genome sciences

scientific article published on December 2006

Heterogeneous rates of molecular evolution among cryptic species of the ciliate morphospecies Chilodonella uncinata.

scientific article published on December 2011

High Diversity of Testate Amoebae (Amoebozoa, Arcellinida) Detected by HTS Analyses in a New England Fen using Newly Designed Taxon-specific Primers

scientific article published on 07 March 2020

How discordant morphological and molecular evolution among microorganisms can revise our notions of biodiversity on Earth

scientific article

Identification of new molecular markers for assembling the eukaryotic tree of life

scientific article published on 17 March 2010

Incubation and grazing effects on spirotrich ciliate diversity inferred from molecular analyses of microcosm experiments

scientific article published on 06 May 2019

Insights into the diversity of choreotrich and oligotrich ciliates (Class: Spirotrichea) based on genealogical analyses of multiple loci

scientific article published in September 2002

Insights into the phylogenetic and taxonomy of philasterid ciliates (Protozoa, Ciliophora, Scuticociliatia) based on analyses of multiple molecular markers.

scientific article

Insights into transgenerational epigenetics from studies of ciliates

scientific article

John Tyler Bonner: Remembering a scientific pioneer

scientific article published on 19 November 2019

Lost branches on the tree of life

scientific article (publication date: September 2013)

Microbial Diversity in the Eukaryotic SAR Clade: Illuminating the Darkness Between Morphology and Molecular Data

scientific article published on 7 March 2018

Micronuclear and macronuclear forms of beta-tubulin genes in the ciliate Chilodonella uncinata reveal insights into genome processing and protein evolution

scientific article

Molecular Data are Transforming Hypotheses on the Origin and Diversification of Eukaryotes

scientific article

Molecular Phylogeny of Phyllopharyngean Ciliates and their Group I Introns

scientific article published on 01 July 2004

Molecular phylogenetic analysis of class Colpodea (phylum Ciliophora) using broad taxon sampling

scientific article published on 28 August 2007

Multigene evidence for the placement of a heterotrophic amoeboid lineage Leukarachnion sp. among photosynthetic stramenopiles

scientific article

Multigene phylogenetic reconstruction of the Tubulinea (Amoebozoa) corroborates four of the six major lineages, while additionally revealing that shell composition does not predict phylogeny in the Arcellinida

scientific article

Multigene-based analyses on evolutionary phylogeny of two controversial ciliate orders: Pleuronematida and Loxocephalida (Protista, Ciliophora, Oligohymenophorea).

scientific article

Nanochromosome copy number does not correlate with RNA levels though patterns are conserved between strains of the ciliate morphospecies Chilodonella uncinata.

scientific article

Nuclear Architecture and Patterns of Molecular Evolution Are Correlated in the Ciliate Chilodonella uncinata

scientific article published on 29 April 2016

Nuclear Features of the Heterotrich Ciliate Blepharisma americanum: Genomic Amplification, Life Cycle, and Nuclear Inclusion

scientific article

Old genes in new places: A taxon-rich analysis of interdomain lateral gene transfer events

scientific article published in 2022

On the nature of species: insights from Paramecium and other ciliates.

scientific article published on 20 April 2011

Opinion: Genetic Conflict With Mobile Elements Drives Eukaryotic Genome Evolution, and Perhaps Also Eukaryogenesis

scientific article published in 2021

Origin and Diversification of Eukaryotes ⬇️

scientific article published on July 9, 2012

Patchiness of Ciliate Communities Sampled at Varying Spatial Scales along the New England Shelf

scientific article

Patterns and processes in microbial biogeography: do molecules and morphologies give the same answers?

scientific article published on 05 February 2016

Patterns of protein evolution in Tetrahymena thermophila: implications for estimates of effective population size

scientific article published on 24 November 2005

PhyloChromoMap, a tool for mapping phylogenomic history along chromosomes, reveals the dynamic nature of karyotype evolution in Plasmodium falciparum

scientific article published on 22 January 2018

PhyloToL: A Taxon/Gene-Rich Phylogenomic Pipeline to Explore Genome Evolution of Diverse Eukaryotes

scientific article published on 01 August 2019

Phylogenetic analyses of cyclidiids (Protista, Ciliophora, Scuticociliatia) based on multiple genes suggest their close relationship with thigmotrichids.

scientific article

Phylogenetic placement of diverse amoebae inferred from multigene analyses and assessment of clade stability within 'Amoebozoa' upon removal of varying rate classes of SSU-rDNA.

scientific article

Phylogenetic placement of the Cyrtolophosididae Stokes, 1888 (Ciliophora; Colpodea) and neotypification of Aristerostoma marinum Kahl, 1931.

scientific article

Phylogenomic analyses support the bifurcation of ciliates into two major clades that differ in properties of nuclear division

scientific article

Phylogenomic study indicates widespread lateral gene transfer in Entamoeba and suggests a past intimate relationship with parabasalids.

scientific article

Phylogenomics of 'Discosea': A new molecular phylogenetic perspective on Amoebozoa with flat body forms

scientific article

Phylogenomics of the epigenetic toolkit reveals punctate retention of genes across eukaryotes ⬇️

scientific article published on 13 October 2020

Pyrosequencing for assessing diversity of eukaryotic microbes: analysis of data on marine planktonic ciliates and comparison with traditional methods

scientific article

Recent events dominate interdomain lateral gene transfers between prokaryotes and eukaryotes and, with the exception of endosymbiotic gene transfers, few ancient transfer events persist

scientific article published on September 2015

Reducing the impact of PCR-mediated recombination in molecular evolution and environmental studies using a new-generation high-fidelity DNA polymerase

scientific article published in October 2009

Sapocribrum chincoteaguense n. gen. n. sp.: A Small, Scale-bearing Amoebozoan with Flabellinid Affinities.

scientific article

Secretive ciliates and putative asexuality in microbial eukaryotes.

scientific article published on 17 March 2010

Single-Cell Transcriptomics Reveal a Correlation between Genome Architecture and Gene Family Evolution in Ciliates

scientific article published on 24 December 2019

Stalking the wild Tetrahymena

scientific article published in February 2013

Structure of the micronuclear alpha-tubulin gene in the phyllopharyngean ciliate Chilodonella uncinata: implications for the evolution of chromosomal processing

scientific article published in October 2003

Subulatomonas tetraspora nov. gen. nov. sp. is a Member of a Previously Unrecognized Major Clade of Eukaryotes ⬇️

scientific article published on July 1, 2011

Synthesis of phylogeny and taxonomy into a comprehensive tree of life

scientific article

Taxon-rich phylogenomic analyses resolve the eukaryotic tree of life and reveal the power of subsampling by sites

scientific article

Tec3, a new developmentally eliminated DNA element in Euplotes crassus.

scientific article

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing

scientific article

The chastity of amoebae: re-evaluating evidence for sex in amoeboid organisms

scientific article

The concept of the hologenome, an epigenetic phenomenon, challenges aspects of the modern evolutionary synthesis

scientific article published on 11 November 2019

The dynamic nature of eukaryotic genomes

scientific article

The dynamic nature of genomes across the tree of life.

scientific article published on March 2014

Transkingdom transfer of the phosphoglucose isomerase gene

scientific article

Turning the crown upside down: gene tree parsimony roots the eukaryotic tree of life.

scientific article

Twisted Tales: Insights into Genome Diversity of Ciliates Using Single-Cell 'Omics.

scientific article published in August 2018

Ubiquity or not ubiquity: That is the question

scientific article published on 01 November 2019

Unexpected biodiversity of ciliates in marine samples from below the photic zone.

scientific article

Unusual features of non-dividing somatic macronuclei in the ciliate class Karyorelictea

scientific article

Updated Virophage Taxonomy and Distinction from Polinton-like Viruses

scientific article published in 2023

Variation in macronuclear genome content of three ciliates with extensive chromosomal fragmentation: a preliminary analysis

scientific article published on 01 May 2007

What is a paradigm and when does it shift?

scientific article published on 01 April 1991

Widespread distribution of extensive chromosomal fragmentation in ciliates

scientific article published on 01 July 2001

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