Peer Reviewed Articles:


Katz, L. A. (2021). Illuminating the first bacteria. Science, 372(6542), 574–575.

Weiner, A. K. M.; Katz, L. A. Epigenetics as Driver of Adaptation and Diversification in Microbial Eukaryotes. Frontiers in Genetics 2021, 12, 300.

Collens, A. B.; Katz, L. A. Opinion: Genetic Conflict With Mobile Elements Drives Eukaryotic Genome Evolution, and Perhaps Also Eukaryogenesis. Journal of Heredity 2021, 112 (1), 140–144.


Weiner, A. K. M.; Cerón-Romero, M. A.; Yan, Y.; Katz, L. A. Phylogenomics of the Epigenetic Toolkit Reveals Punctate Retention of Genes across Eukaryotes. Genome Biology and Evolution 2020, 12 (12), 2196–2210.

Smith, S. A.; Maurer-Alcalá, X. X.; Yan, Y.; Katz, L. A.; Santoferrara, L. F.; McManus, G. B. Combined Genome and Transcriptome Analyses of the Ciliate Schmidingerella Arcuata (Spirotrichea) Reveal Patterns of DNA Elimination, Scrambling, and Inversion. Genome Biology and Evolution 2020, 12 (9), 1616–1622.

Ribeiro, G. M.; Porfírio-Sousa, A. L.; Maurer-Alcalá, X. X.; Katz, L. A.; Lahr, D. J. G. De Novo Sequencing, Assembly, and Annotation of the Transcriptome for the Free-Living Testate Amoeba Arcella Intermedia. Journal of Eukaryotic Microbiology 2020, 67 (3), 383–392.

Ruggiero, A.; Grattepanche, J.-D.; Weiner, A. K. M.; Katz, L. A. High Diversity of Testate Amoebae (Amoebozoa, Arcellinida) Detected by HTS Analyses in a New England Fen Using Newly Designed Taxon-Specific Primers. Journal of Eukaryotic Microbiology 2020, 67 (4), 450–462.

Alteio, L. V.; Schulz, F.; Seshadri, R.; Varghese, N.; Rodriguez-Reillo, W.; Ryan, E.; Goudeau, D.; Eichorst, S. A.; Malmstrom, R. R.; Bowers, R. M.; Katz, L. A.; Blanchard, J. L.; Woyke, T. Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil. mSystems 5 (2), e00768-19.

Wang, Y., Jiang, Y., Liu, Y., Li, Y., Katz, L. A., Gao, F., & Yan, Y. (2020). Comparative Studies on the Polymorphism and Copy Number Variation of mtSSU rDNA in Ciliates (Protista, Ciliophora): Implications for Phylogenetic, Environmental, and Ecological Research. Microorganisms, 8(3), 316.

Grattepanche, J.-D.; Katz, L. A. Top-Down and Bottom-Up Controls on Microeukaryotic Diversity (i.e., Amplicon Analyses of SAR Lineages) and Function (i.e., Metatranscriptome Analyses) Assessed in Microcosm Experiments. Frontiers in Marine Science 2020, 6, 818.


Brigandt, I.; Katz, L. A.; Nanjundiah, V.; Gilbert, S. F.; Grant, P. R.; Grant, B. R.; Love, A. C.; Newman, S. A.; West-Eberhard, M. J. John Tyler Bonner: Remembering a Scientific Pioneer. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 2019, 332 (8), 365–370.

Yan, Y.; Maurer-Alcalá, X. X.; Knight, R.; Kosakovsky Pond, S. L.; Katz, L. A. Single-Cell Transcriptomics Reveal a Correlation between Genome Architecture and Gene Family Evolution in Ciliates. mBio 10 (6), e02524-19.

Sleith, R. S.; Katz, L. A. Ubiquity or Not Ubiquity: That Is the Question. Molecular Ecology 2019, 28 (22), 4842–4844.

Collens, A., Kelley, E., & Katz, L. A. (2019). The concept of the hologenome, an epigenetic phenomenon, challenges aspects of the modern evolutionary synthesis. Journal of Experimental Zoology Part B-Molecular and Developmental Evolution, 332(8), 349–355.

Chen, X., Jiang, Y., Gao, F., Zheng, W., Krock, T. J., Stover, N. A., Lu, C., Katz, L. A., & Song, W. (2019). Genome analyses of the new model protist Euplotes vannus focusing on genome rearrangement and resistance to environmental stressors. Molecular Ecology Resources, 19(5), 1292–1308.

Ceron-Romero, M. A., Maurer-Alcala, X. X., Grattepanche, J.-D., Yan, Y., Fonseca, M. M., & Katz, L. A. (2019). PhyloToL: A Taxon/Gene-Rich Phylogenomic Pipeline to Explore Genome Evolution of Diverse Eukaryotes. Molecular Biology and Evolution, 36(8), 1831–1842.

Grattepanche J-D, *Juarez DL, *Wood CC, McManus GB, Katz LA. 2019. Incubation and grazing effects on spirotrich ciliate diversity inferred from molecular analyses of microcosm experiments. PLOS ONE. 14:e0215872.120. (Link)

Wang, Y. R., Wang, C. D., Jiang, Y. H., Katz, L. A., Gao, F., & Yan, Y. (2019). Further analyses of variation of ribosome DNA copy number and polymorphism in ciliates provide insights relevant to studies of both molecular ecology and phylogeny. Science China-Life Sciences, 62(2), 203-214. (Link)

Zhang, T. T., Wang, C. D., Katz, L. A., & Gao, F. (2018). A paradox: rapid evolution rates of germline-limited sequences are associated with conserved patterns of rearrangements in cryptic species of Chilodonella uncinata (Protista, Ciliophora). Science China-Life Sciences, 61(9), 1071-1078. (Link)

Maurer-Alcala XX, Yan Y, *Pilling O, Knight R, Katz LA. 2018. “Twisted Tales: Insights into Genome Diversity of Ciliates Using Single-Cell ‘omics”. Genome Biol Evol 10: 1927-1939. (Link)

*Sisson C, *Gulla-Devaney B, Grattepanche JD, Katz LA. 2018. Seasonal patterns of biodiversity of protists in a New England vernal pool. Journal of Plankton Research. 40: 376-390. (Link)

Ceron-Romero MA, *Nwaka E, *Owoade Z, Katz LA. 2018. PhyloChromoMap, a Tool for Mapping Phylogenomic History along Chromosomes, Reveals the Dynamic Nature of Karyotype Evolution in Plasmodium falciparum. Genome Biol Evol 10:553-561.  (Link)

Grattepanche JD, Walker LM, Ott BM, Paim Pinto DL, Delwiche CF, Lane CE, Katz LA. 2018. Microbial Diversity in the Eukaryotic SAR Clade: Illuminating the Darkness Between Morphology and Molecular Data. BioEssays 40:e1700198. (Link)

Maurer-Alcala XX, Knight R, Katz LA. 2018. Exploration of the Germline Genome of the Ciliate Chilodonella uncinata through Single-Cell Omics (Transcriptomics and Genomics). MBio 9. (Link)

*Wancura MM, Yan Y, Katz LA, Maurer-Alcalá XX. 2018. Nuclear Features of the Heterotrich Ciliate Blepharisma americanum: Genomic Amplification, Life Cycle, and Nuclear Inclusion. J Eukaryot Microbiol 65:4-11. (Link)

*Badger M, Tucker SJ, Grattepanche JD, Katz LA. 2017. Rapid turnover of ciliate community members in New England tide pools. Aquatic Microbial Ecology 80:43-54. (Link)

*Pilling OA, *Rogers AJ, *Gulla-Devaney B, Katz LA. 2017. Insights into transgenerational epigenetics from studies of ciliates. Eur J Protistol 61:366-375. (Link)

Tucker SJ, McManus GB, Katz LA, Grattepanche JD. 2017. Distribution of Abundant and Active Planktonic Ciliates in Coastal and Slope Waters Off New England. Front Microbiol 8:2178. (Link)

Wang C, Zhang T, Wang Y, Katz LA, Gao F, Song W. 2017. Disentangling sources of variation in SSU rDNA sequences from single cell analyses of ciliates: impact of copy number variation and experimental error. Proc Biol Sci 284. (Link)

Yan Y, *Rogers AJ, Gao F, Katz LA. 2017. Unusual features of non-dividing somatic macronuclei in the ciliate class Karyorelictea. Eur J Protistol 61:399-408 (Link)

Katz LA, *Aloisio KM, Horton NJ, Ly M, Pruss S, Queeney K, Rowen C, DiBartolo PM. 2017. A Program Aimed toward Inclusive Excellence for Underrepresented Undergraduate Women in the Sciences. CBE Life Sci Educ 16. (Link)

Tekle YI, Wood FC, Katz LA, Ceron-Romero MA, Gorfu LA. 2017. Amoebozoans are Secretly but Ancestrally Sexual: Evidence for Sex Genes and Potential Novel Crossover Pathways in Diverse Groups of Amoebae. Genome Biol Evol. 9(2): 375-387 (Link)

Grattepanche JD, McManus GB, Katz LA. Patchiness of ciliate communities sampled at varying spatial scales along the New England shelf. Plos One. 2016;11(12). doi: ARTN e0167659 (Link)

Grattepanche J-D, Santoferrara LF, McManus GB, & Katz LA (2016) Unexpected biodiversity of ciliates in marine samples from below the photic zone. Molecular Ecology 25(16):3987-4000 (Link)

Jensen L, Grant JR, Laughinghouse HD, Katz LA. 2016. Assessing the effects of a sequestered germline on interdomain lateral gene transfer in Metazoa. Evolution. (Link)

Santoferrara LF, Grattepanche JD, Katz LA, McManus GB. 2016. Patterns and processes in microbial biogeography: do molecules and morphologies give the same answers? ISME J. 10, 1779-1790 (Link)

Tekle YI, Anderson OR, Katz LA, Maurer-Alcalá XX, Romero MAC, Molestina R. 2016. Phylogenomics of ‘Discosea’: A new molecular phylogenetic perspective on Amoebozoa with flat body forms. Molecular Phylogenetics and Evolution 99:144-154. (Link)

Maurer-Alcalá XX, Katz LA. 2016. Nuclear architecture and patterns of molecular evolution are correlated in the ciliate Chilodonella uncinata. Genome Biology and Evolution:evw099. (Link)

Maurer-Alcala, XX, LA Katz. 2015. An epigenetic toolkit allows for diverse genome architectures in eukaryotes. Curr. Opin. Genet. Dev. 35:93-99. (Link)

*Oliverio A, G LDJ, Grant JR, & Katz LA. 2015. Are microbes fundamentally different than macroorganisms? Convergence and a possible case for neutral phenotypic evolution in testate amoeba (Amoebozoa: Arcellinida). Royal Society Open Science 2: 150414:1-11. (Link)

Katz LA 2015. Recent events dominate interdomain lateral gene transfers between prokaryotes and eukaryotes and, with the exception of endosymbiotic gene transfers, few ancient transfer events persist. Philos. Trans. R. Soc. B-Biol. Sci. 370. (Link)

Hinchliff CE, Smith SA, Allman JF, Burleigh JG, Chaudhary R, Coghill LM, Crandall KA, Deng J, Drew BT, Gazis R, Gude K, Hibbett DS, Katz LA, Laughinghouse HDt, McTavish EJ, Midford PE, Owen CL, Ree RH, Rees JA, Soltis DE, Williams T, Cranston KA 2015. Synthesis of phylogeny and taxonomy into a comprehensive tree of life. Proc. Natl. Acad. Sci. U.S.A. 112: 12764–12769. (Link)

Lahr, DJG, J Grant, R Molestina, LA Katz, OR Anderson. 2015. Sapocribrum chincoteaguense n. gen. n. sp.: A Small, Scale-bearing Amoebozoan with Flabellinid Affinities. J. Eukaryot. Microbiol. 62:444-453 (Link)

Grattepanche, J.D., Santoferrara, L.F., McManus, G.B. & Katz, L.A. 2015 Distinct assemblage of planktonic ciliates dominates both photic and deep waters on the New England shelf. Marine Ecology Progress Series 526, 1-9. (Link)

Gao, F., Roy, S.W. & Katz, L.A. 2015 Analyses of Alternatively Processed Genes in Ciliates Provide Insights into the Origins of Scrambled Genomes and May Provide a Mechanism for Speciation. MBio 6. (Link)

Katz, L. A. and J. R. Grant. 2015. Taxon-rich phylogenomic analyses resolve the eukaryotic tree of life and reveal the power of subsampling by sites. Syst Biol. 64: 406-415. (Link)

Santoferrara LF, Grattepanche J-D, Katz LA, McManus GB 2014. Pyrosequencing for assessing diversity of eukaryotic microbes: analysis of data on marine planktonic ciliates and comparison with traditional methods. Environ. Microbiol. DOI: 10.1111/1462-2920.12380. (Link)

Grant, JR, LA Katz. 2014. Phylogenomic study indicates widespread lateral gene transfer in Entamoeba and suggests a past intimate relationship with parabasalids. Genome Biology and Evolution 6:2350-2360. (Link)

Lahr, DJG, HDI Laughinghouse, F Gao, A Oliverio, LA Katz. 2014. How discordant morphological and molecular evolution among microorganisms can revise our notions of biodiversity on Earth. Bioessays 36:950-959. (Link)

Dunthorn M, *Hall M, Foissner W, Stoeck T, Katz LA. 2014. Broad Taxon Sampling of Ciliates Using Mitochondrial Small Subunit Ribosomal DNA. Acta Protozoologica 53:207-213 (Link)

Keeling, PJ, F Burki, HM Wilcox, et al. 2014. The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing. PLoS Biology 12. (Link)

Grattepanche, JD, LF Santoferrara, GB McManus, LA Katz. 2014. Diversity of diversity: conceptual and methodological differences in biodiversity estimates of eukaryotic microbes as compared to bacteria. Trends Microbiol. 22: 432-437. (Link)

Gao, F, W Song, LA Katz. 2014. Genome structure drives patterns of gene family evolution in ciliates, a case study using Chilodonella uncinata (Protista, Ciliophora, Phyllopharyngea). Evolution 68:2286-2295. (Link)

Huang, J, LA Katz. 2014. Nanochromosome copy number does not correlate with RNA levels though patterns are conserved between strains of the ciliate morphospecies Chilodonella uncinata. Protist 165:445-451. (Link)

Oliverio, AM, LA Katz. 2014. The dynamic nature of genomes across the tree of life. Genome Biology and Evolution 6:482-488.     (Link)

Bellec, L, XX Maurer-Alcala, LA Katz. 2014. Characterization of the life cycle and heteromeric nature of the macronucleus of the ciliate Chilodonella uncinata using fluorescence microscopy. J. Euk. Micro. 61:313–316.  (Link)

Oliverio, A, DJG Lahr, T Nguyen, LA Katz. 2014. Cryptic diversity within morphospecies of testate (shelled) amoebae in New England bogs and fens. Protist 165:196-207.  (Link)

Gao, F, LA Katz. 2014. Phylogenomic analyses support the bifurcation of ciliates into two major clades that differ in properties of nuclear division. Mol. Phylogenet. Evol. 70:240-243.  (Link)

Grant, JR, LA Katz. 2014. Building a phylogenomic pipeline for the eukaryotic tree of life – addressing deep phylogenies with genome-scale data. PLoS Curr 6. doi: 10.1371/ currents.tol.c24b6054aebf3602748ac042ccc8f2e9. (Link)

Grattepanche, JD, LF Santoferrara, J Andrade, A Oliverio, GB McManus, LA Katz. 2014. Distribution and diversity of oligotrich and choreotrich ciliates assessed by morphology and by DGGE in temperate coastal waters. Aquatic Microbial Ecology 71:211-221.  (Link)

Santoferrara, LF, JD Grattepanche, LA Katz, GB McManus. 2014. Pyrosequencing for assessing diversity of eukaryotic microbes: analysis of data on marine planktonic ciliates and comparison with traditional methods. Environ. Microbiol. DOI: 10.1111/1462-2920.12380. (Link)

Gao, F, S Gao, P Wang, LA Katz, W Song. 2014. Phylogenetic analyses of cyclidiids (Protista, Ciliophora, Scuticociliatia) based on multiple genes suggest their close relationship with thigmotrichids. Mol. Phylogenet. Evol. doi: 10.1016/j.ympev.2014.01.032.  (Link)

Drew, BT, R Gazis, P Cabezas, KS Swithers, JB Deng, R Rodriguez, LA Katz, KA Crandall, DS Hibbett, DE Soltis. 2013. Lost Branches on the Tree of Life. PLoS Biology 11. (Link)

Gao, F, LA Katz, W Song. 2013. Multigene-based analyses on evolutionary phylogeny of two controversial ciliate orders: Pleuronematida and Loxocephalida (Protista, Ciliophora, Oligohymenophorea). Mol. Phylogenet. Evol. 68:55-63. (Link)

Tilley, SG, J Bernardo, LA Katz, L Lopez, JD Roll, RL Eriksen, J Kratovil, NKJ Bittner, KA Crandall. 2013. Failed species, innominate forms, and the vain search for species limits: cryptic diversity in dusky salamanders (Desmognathus) of eastern Tennessee. Ecology and Evolution 3:2547-2567 (Link)

Lahr, DJ, JR Grant, LA Katz. 2013. 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. Protist 164:323-339 (Link)

Drew, BT, R Gazis, P Cabezas Padilla, KS Siwthers, DE Soltis, DS Hibbett, KA Crandall, LA Katz. 2013. Data deposition: Missing data mean holes in tree of life. Nature 493:305 (Link)

Katz L.A., Turkewitz A.P. 2013. Stalking the wild Tetrahymena. Mol. Ecol.  22: 912-91 (Link)

Grant JR, G LDJ, Rey FE, Burleigh JG, Gordon JI, Knight R, Molestina RE, Katz LA (2012) Gene discovery from a pilot study of the transcriptomes from three diverse microbial eukaryotes: Corallomyxa tenera, Chilodonella uncinataand Subulatomonas tetraspora. Protist Genomics  1: 3-18 (Link)

Bellec, L and LA Katz. 2012. Analyses of chromosome copy number and expression level of four genes in the ciliate Chilodonella uncinata reveal a complex pattern that suggests epigenetic regulation. Gene 504:303-308. (Link)

Dunthorn, M, LA Katz, T Stoeck, W Foissner. 2012. Congruence and indifference between two molecular markers for understanding oral evolution in the Marynidae sensu lato (Ciliophora, Colpodea). Eur J Protistol 48:297-304. (Link)

Katz, LA. 2012. Origin and Diversification of Eukaryotes. In: S Gottesman, CS Harwood, O Schneewind, editors. Annual Review of Microbiology, Vol 66. p. 411-427. (Link)

Gao, F, L . Katz, and WB Song. 2012. Insights into the phylogenetic and taxonomy of philasterid ciliates (Protozoa, Ciliophora, Scuticociliatia) based on analyses of multiple molecular markers. Mol. Phylogenet. Evol. 64:308-317. (Link)

Parfrey, LW, J Grant, and LA Katz. 2012. Ribosomal DNA is differentially amplified across life-cycle stages in the foraminifer Allogromia laticollaris strain CSH. Journal of Foraminiferal Research 42:151-155. (Link)

Yi, Z Z, LA Katz, and W B Song. 2012. Assessing whether alpha-tubulin sequences are suitable for phylogenetic reconstruction of Ciliophora with insights into its evolution in Euplotids. PLoS One 7. (Link)

Katz, LA, LW Parfrey, J Grant, JG Burleigh. 2012. Turning the crown upside down: gene tree parsimony roots the eukaryotic tree of life. Syst Biol. DOI:10.1093/sysbio/sys026 (Link)

Katz, LA, J DeBerardinis, MS Hall, AM Kovner, M Dunthorn, SV Muse. 2012. Heterogeneous Rates of Molecular Evolution Among Cryptic Species of the Ciliate Morphospecies Chilodonella uncinata. J. Mol. Evol. 73:266-272. (Link)

Parfrey, LW, LDJ G., AH Knoll, LA Katz. 2011. Estimating the timing of early eukaryotic diversification with multigene molecular clocks Proc. Natl. Acad. Sci. U. S. A. 108:13624-13629. (Link)

Tamura M, Katz LA, McManus GB. 2011. Distribution and diversity of oligotrich and choreotrich ciliates across an environmental gradient in a large temperate estuary. Aquatic Microbial Ecology 64:51-67 (Link)

Lahr DJG, *Nguyen TB, *Barbero E, Katz LA. 2011. Evolution of the actin gene family in testate lobose Amoebae (Arcellinida) is characterized by two distinct clades of paralogs and recent independent expansions. Mol. Biol. Evol. 28:223-236 (Link)

Lahr, D. J. G., Grant, J. R., Nguyen, T., Lin, J.H. and L. A. Katz. 2011. Comprehensive Phylogenetic Reconstruction of Amoebozoa Based on Concatenated Analyses of SSUrDNA and Actin Gene. PLOS One6(7). (Link)

Katz, L. A., Grant, J. R., Parfrey, L. W., Gant, A., O’Kelley, C. J., Anderson, O. R., Molestina, R. E. & Nerad, T. 2011. Subulatomonas tetraspora nov. gen. nov. sp. is a member of a previously unrecognized major clade of eukaryotes. Protist. (Link)

Hall, MS and LA Katz. 2011. On the nature of species: insights from Paramecium and other ciliates. Genetica.139(5):677-84. (Link)

Lahr, D. J. G., Parfrey, L. W., Mitchell, E. A., Katz, L. A. and E. Lara. 2011. The chasitity of amoebae: re-evaluating evidence for sex in amoebaoid organisms. Proc Biol Sci. 278(1715):2081-90. (Link)

Dunthorn, M.S., W. Foissner and L.A. Katz.  2011. Expanding Character Sampling for Ciliate
Phylogenetic Inference Using Mitochondrial SSU-rDNA as a Molecular Marker.  Protist.162:85–99. (Link)

Parfrey LW and Katz LA. 2010. Genome dynamics are influenced by food source in Allogromia laticollaris strain CSH (Foraminifera). Genome Biology and Evolution 2:678-685. (Link)

Dunthorn, M. S., and L. A. Katz. 2010. Secretive ciliates and putative asexuality in microbial eukaryotes. Trends Microbiol.. 18: 183-188. (Link)

Parfrey, L. W., and L. A. Katz. 2010. Dynamic genomes of eukaryotes and the maintenance of genomic integrity. Microbe 5:156-164. (Link)

McManus, G. B., D. P. Xu, B. A. Costas, and L. A. Katz. 2010. Genetic identities of cryptic species in the Strombidium stylifer/apolatum/oculatum cluster, including a description ofStrombidium rassoulzadegani n. sp. J. Eukaryot. Microbiol. 57:369-378. (Link)

Katz, L.A. and A. M. Kovner.  2010. Alternative processing of scrambled genes generates protein diversity in the ciliate Chilodonella uncinata.  J. Exp. Zool. Part B. (Mol. Dev. Evol.).  Pub. online 10.1002/jez.b.21354  (Link)

Tekle, Y. I., J. R. Grant, A. M. Kovner, J. P. Townsend, and L. A. Katz. 2010. Identification of new molecular markers for assembling the eukaryotic tree of life. Mol. Phylogenet. Evol.55:1177-1182. (Link)

Doherty, M., M. Tamura, J.A.C. Vriezen, G.B. McManus and L.A. Katz. 2010. Diversity of Oligotrich and Choreotrich ciliates in coastal marine sediments: relationships with overlying plankton. Appl. Environ. Microbiol. 76:3924-3935. (Link)

Parfrey, L. W., J. R. Grant, Y. I. Tekle, E. Lasek-Nesselquist, H. G. Morrison, M. L. Sogin, D. J. Patterson, and L. A. Katz. In Press. Broadly sampled multigene analyses yield a well-resolved eukaryotic tree of life. Syst. Biol. (Link)

Doherty, M., B.A. Costas, M. Tamura, M.E. Ritchie, G.B. McManus and L.A. Katz. 2010. Ciliate diversity across an environmental and depth gradient in Long Island Sound, USA. Environ. Microbiol. 12:886-898 (Link)

Cole J., Andersen O.R., Tekle Y. I., J. Grant, Katz L. A., and T. Nerad.  2010.  A description of a new ‘Amoebozoa’ isolated from the American Lobster, Homarus americanus. J. Euk. Micro.57:40-47. (Link)

Lahr, D.J.G. and L.A. Katz. 2009. Reducing the impact of PCR-mediated recombination in molecular evolution and environmental studies using a new-generation high-fidelity DNA polymerase. Biotechniques. 47: 857-866. (Link)

McManus, G.B. and L.A. Katz. 2009. Molecular and morphological methods for identifying plankton: what makes a successful marriage?  J. Plank. Research. 31: 1119-1129. (Link)

Tekle, Y.I., Parfrey, L.W., and L.A. Katz. 2009. Molecular data are transforming hypotheses on the origin and diversification of eukaryotes. BioScience 59: 471–481. (Link)

Grant J.R., Tekle, Y.I., O.R. Anderson, Patterson D.J., and L.A. Katz. 2009. Multigene evidence for the placement of a heterotrophic amoeboid lineage Leukarachnion sp. among photosynthetic stramenopiles. Protist. 160: 376—385. (Link)

Dunthorn, M. M. Eppinger, M. V. J. Schwarz, M. Schweikert, J. Boenigk, W. Foissner, L. A. Katz, T. Stoeck. 2009. A redescription of Aristerostoma marinum Kahl, 1931 and the phylogenetic placement of the Cyrtolophosididae Stokes, 1888 (Ciliophora; Colpodea).International Journal of Systematic and Evolutionary Microbiology. 59: 167–180. (Link)

Foissner, W., A. Chao and Laura A. Katz.  2008.  Diversity and geographic distribution of ciliates (Protista: Ciliophora).  Biodiv. Conserv. 17: 345-363. (Link)

Parfrey, L.W., D. Lahr and L.A. Katz. 2008. The dynamic nature of eukaryotic genomes. Mol. Biol. Evol. (Link)

Tekle, Y.I., J.R. Grant, L. O.R. Anderson, J.C. Cole, T. Nerad, and L.A. Katz . 2008.  Multigene phylogenetic analyses of diverse amoebae and assessment of stability of clades within ‘Amoebozoa’ based on rate corrected SSU-rDNA analysis. Mol. Phylogenet. Evol. 47: 339–352 (Link)

Yoon, H-S, J.R. Grant, Y.I. Tekle, M. Wu, B.C. Chao, J.C. Cole, J.M. Logsdon, D.J. Patterson, D. Bhattacharya, and L.A. Katz. 2007. A broadly sampled multigene tree of eukaryotes. BMC Evol. Biol. (Link)

Dunthorn, M.S., W. Foissner, L.A. Katz.  2007. Molecular phylogenetic analysis of class Colpodea (phylum Ciliophora) using increased taxon sampling.  Mol. Phylogenet. Evol.
46: 316–327 (Link)

*Robinson, T. and L.A. Katz.  2007. Non-Mendelian inheritance of two cytoskeletal genes in the ciliate Chilodonella uncinata.  Mol. Biol. Evol. 24(11):2495–2503. (Link)

Tilley, S.G., R.L. *Eriksen and L.A. Katz.  2008qa. Systematics of dusky salamanders,Desmognathus (Caudata: Plethodontidae) in the mountain and Piedmont regions of Virginia and North Carolina, USA.  Zool. J. Linnean Soc. 152: 115-130. (Link)

Doherty, M., B. Costas, G. McManus, and L.A. Katz. 2007. Culture independent assessment of planktonic ciliate in coastal northwest Atlantic waters. Aquat. Microb. Ecol. 48: 141-154 (Link)

Costas, B, G. McManus, M. Doherty and L.A. Katz.   2007. Use of species-specific primers and PCR to measure the distributions of planktonic ciliates in coastal waters.  Limnol. Ocean: Methods. 5: 163-173 (Link)

Tekle, Y.I., J.R. Grant, O.R. Anderson, J.C. Cole, T. Nerad, D.J. Patterson and L.A. Katz.  2007.  A multigene analysis of Corallomyxa tenera sp. nov. suggests its membership in a clade that include Gromia, Haplosporidia and Foraminifera.  Protist. (Link)

*McGrath, C., R. A. Zufall and L.A. Katz.  2007. Variation in macronuclear genome content of three ciliates with extensive chromosomal fragmentation: a preliminary analysis. J. Eukaryot. Microbiol. 54(3): 242-246. (Link)

Zufall, R.A. and L.A. Katz. 2007. Micronuclear and macronuclear forms of β-tubulin genes in the ciliate Chilodonella uncinata reveal insights into genome processing and protein evolution. J. Eukaryot. Microbiol. 54(3): 275-282. (Link)

Parfrey, L.W., E. *Barbero, E. *Lasser, M.S. Dunthorn, D. Bhattacharya, D.J. Patterson and L.A. Katz.  2006.  Evaluating support for the current classification of eukaryotic diversity. PLOS Genetics 2:2062-2073. (Link)

Katz, L.A. 2006.  Epigenomics and the Future of Genome Science. Current Biology . 16:R996-R997 (Link)

Zufall, R.A., *C. McGrath, S. Muse and L.A. Katz.  2006.   Genome architecture drives protein evolution in ciliates.  Mol. Biol. Evol.23:1681-1687. (Link)

Katz, L.A., O.L.O. Snoeyenbos-West and F. P. Doerder. 2006.  Unusual patterns of molecular evolution at the SerH surface antigen locus in Tetrahymena thermophila: implication for estimates of effective population.  Mol. Biol. Evol. 23:608-614. (Link)

Katz, L.A., G. B. McManus, O.L.O. Snoeyenbos-West, *K. Pirog, *A. Griffin, and W. Foissner. 2005.  Reframing the Microbial ‘Everything is Everywhere’ Debate: evidence for high gene flow and diversity in ciliate morphospecies.  Aquat. Microb. Ecol. 41:55-65. (Link)

Zufall, R.A., *T. Robinson and L.A. Katz.  2005.  Evolution of developmentally regulated genome rearrangements in eukaryotes.  J. Exp. Zool. Part B. (Mol. Dev. Evol.)304B:448-455. (Link)

Snoeyenbos-West, O.L.O., *A. Campbell, J. Cole, D.W. Coats and L.A. Katz.  2004.  Molecular phylogeny of phyllopharyngean ciliates and their group I introns.  J. Eukaryot. Microbiol. 51:441-450. (Link)

Katz, L.A., *E. Lasek-Nesselquist, J. Bornstein and S.V. Muse.  2004. Dramatic diversity of histone H4 sequences in ciliates.  Mol. Biol. Evol.21: 555-562. (Link)

*McGrath, C. and L.A. Katz.  2004. Genome diversity in microbial eukaryotes.  Trends Ecol. Evol. 19:32-38. (Link)

Katz, L.A., *E. Lasek-Nesselquist and O.L.O. Snoeyenbos-West.  2003.  Structure of the micronuclear a-tubulin gene in the phyllopharyngean ciliate Chilodonella uncinata: implications for the evolution of chromosomal processing.  Gene 315: 15-19. (Link)

Jacobs, M.E., A. Sanchez-Blanco, L.A. Katz, and L.A. Klobutcher. 2003. Tec3: A New Developmentally Eliminated DNA Element in Euplotes crassus. Eukaryot. Cell. 2: 103-114 (Link)

Snoeyenbos-West, O.L.O., *Salcedo, T., G.B. McManus and L.A. Katz.  2002. Insights into the diversity of choreotrich and oligotrich ciliates (Class: Spirotrichea) based on genealogical analyses of multiple loci.  Int. J. Syst. Evol. Micro. 52: 1901-1913. (Link)

Katz, L.A.  2002. Lateral gene transfers and the evolution of eukaryotes: theories and data.  Int. J. Syst. Evol. Micro. 52: 1893-1900. (Link)

Israel, R.I., S. L. Kosakovsky Pond, S. Muse and L.A. Katz.  2002.  Evolution of duplicated alpha-tubulin genes in ciliates.  Evolution. 56: 1110-1122. (Link)

Mead, L.S., S.G. Tilley and L.A. Katz.  2001.  Genetic structure of the Blue Ridge dusky salamander (Desmognathus orestes): inferences from allozymes, mitochondrial DNA and behavior.  Evolution. 55: 2287-2302. (Link)

Lasek-Nesselquist, E. and L.A. Katz.  2001.  Phylogenetic position of Sorogena stoianovitchae and relationships within the Class Colpodea (Ciliophora) based on ssu rDNA sequences.  J. Euk. Micro. 48: 604-607. (Link)

Riley, J.L. and L.A. Katz.  2001.  Widespread distribution of extensive chromosomal fragmentation in ciliates.  Mol. Biol. Evol.  18: 1372-1377. (Link)

Katz, L.A.  2001.  Evolution of nuclear dualism in ciliates: a reanalysis in light of recent molecular data.  Int. J. Evol. Syst. Microbiol.51: 1587-1592. (Link)

Katz, L.A, *E.A. Curtis, M. Pfunder and L.F. Landweber.  2000.  Characterization of novel sequences from distantly related taxa using walking PCR.  Mol. Phylo.  Evol.14: 318-321. (Link)

Katz, L.A. and J.D. Berger.  1999  Parade of the little millions.  American Naturalist154: S93-S95. (Link)

Katz, L.A.  1999.  The tangled web: gene genealogies and the origin of eukaryotes.  American Naturalist 154: S137-S145. (Link)

Katz, L.A.  1998.  Changing perspectives on the origin of eukaryotes.  Trends Ecol. Evol.13: 493-497. (Link)

Katz, L.A. and R.G. Harrison.  1997. Balancing selection on electrophoretic variation of the phosphoglucose isomerase gene in two species of field crickets: Gryllus pennsylvanicus and G. veletis. Genetics. 147: 609-621. (Link)

Katz, L.A.  1997.  Characterization of the phosphoglucose isomerase gene from crickets: an analysis of phylogeny, amino acid conservation and nucleotide composition.   Insect Mol. Biol.,6: 305-318. (Link)

Katz, L.A. 1996.  Transkingdom transfer of the phosphoglucose isomerase gene.  J. Mol. Evol.43:453-459. (Link)

Katz, A.M. and L.A. Katz.  1991. Molecular biology in cardiology: A paradigmatic shift J. Mol. Cell Cardiol.23: 403-408. (Link)