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ResearcherID: P-4855-2014
Pitt ID: nclark

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University of Utah: Salt Lake City, Utah, US

2019-08-15 to present | Associate Professor (Human Genetics)
Employment
Source: Self-asserted source
Nathan Clark

Works (50 of 56)

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Page 1 of 2

Mammalian retinal specializations for high acuity vision evolve in response to both foraging strategies and morphological constraints

Evolution Letters
2025-04-03 | Journal article
DOI: 10.1093/evlett/qrae072
Contributors: Emily E K Kopania; Nathan L Clark
Source: check_circle
Crossref

ERC 2.0 - evolutionary rate covariation update improves inference of functional interactions across large phylogenies

2025-02-28 | Preprint
DOI: 10.1101/2025.02.24.639970
Contributors: Jordan Little; Guillermo Hoffmann Meyer; Aakash Grover; Alex Michael Francette; Raghavendran Partha; Karen M. Arndt; Martin Smith; Nathan Clark; Maria Chikina
Source: check_circle
Crossref

Phylogenetic Signal in Primate Tooth Enamel Proteins and its Relevance for Paleoproteomics

Genome Biology and Evolution
2025-02-03 | Journal article
DOI: 10.1093/gbe/evaf007
Contributors: Ricardo Fong-Zazueta; Johanna Krueger; David M Alba; Xènia Aymerich; Robin M D Beck; Enrico Cappellini; Guillermo Carrillo-Martin; Omar Cirilli; Nathan Clark; Omar E Cornejo et al.
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Crossref

The Shu complex interacts with the replicative helicase to prevent mutations and aberrant recombination

The EMBO Journal
2025-01-21 | Journal article
DOI: 10.1038/s44318-025-00365-9
Contributors: Adeola A Fagunloye; Alessio De Magis; Jordan H Little; Isabela Contreras; Tanis J Dorwart; Braulio Bonilla; Kushol Gupta; Nathan Clark; Theresa Zacheja; Katrin Paeschke et al.
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Crossref

Sperm competition intensity shapes divergence in both sperm morphology and reproductive genes across murine rodents

Evolution
2024-12-22 | Journal article
DOI: 10.1093/evolut/qpae146
Contributors: Emily E K Kopania; Gregg W C Thomas; Carl R Hutter; Sebastian M E Mortimer; Colin M Callahan; Emily Roycroft; Anang S Achmadi; William G Breed; Nathan L Clark; Jacob A Esselstyn et al.
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Crossref

Minus the Error: Testing for Positive Selection in the Presence of Residual Alignment Errors

2024-11-15 | Preprint
DOI: 10.1101/2024.11.13.620707
Contributors: Avery Selberg; Nathan L Clark; Timothy B Sackton; Spencer V Muse; Alexander G Lucaci; Steven Weaver; Anton Nekrutenko; Maria Chikina; Sergei L. Kosakovsky Pond
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Crossref

RERconverge Expansion: Using Relative Evolutionary Rates to Study Complex Categorical Trait Evolution

Molecular Biology and Evolution
2024-11-01 | Journal article
DOI: 10.1093/molbev/msae210
Contributors: Ruby Redlich; Amanda Kowalczyk; Michael Tene; Heather H Sestili; Kathleen Foley; Elysia Saputra; Nathan Clark; Maria Chikina; Wynn K Meyer; Andreas R Pfenning et al.
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Crossref

Evolutionary rate covariation is pervasive between glycosylation pathways and points to potential disease modifiers

2024-05-05 | Preprint
DOI: 10.1101/2024.05.03.592434
Contributors: Holly J Thorpe; Raghavendran Partha; Jordan Little; Nathan L Clark; Clement Y Chow
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Crossref

Evolutionary rate covariation is a reliable predictor of co-functional interactions but not necessarily physical interactions

eLife
2024-02-28 | Journal article
DOI: 10.7554/eLife.93333
Contributors: Jordan Little; Maria Chikina; Nathan L Clark
Source: check_circle
Crossref

Evolutionary rate covariation is a reliable predictor of co-functional interactions but not necessarily physical interactions

eLife
2024-02-28 | Journal article
DOI: 10.7554/eLife.93333.3
Contributors: Jordan Little; Maria Chikina; Nathan L Clark
Source: check_circle
Crossref

Evolutionary Rate Covariation is a reliable predictor of co-functional interactions but not necessarily physical interactions

2024-02-15 | Preprint
DOI: 10.7554/eLife.93333.2
Contributors: Jordan Little; Maria Chikina; Nathan Clark
Source: check_circle
Crossref

Coevolution due to physical interactions is not a major driving force behind evolutionary rate covariation

2023-12-07 | Preprint
DOI: 10.7554/eLife.93333.1
Contributors: Jordan Little; Maria Chikina; Nathan Clark
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Crossref

Evolutionary Rate Covariation is a reliable predictor of co-functional interactions but not necessarily physical interactions

2023-10-20 | Preprint
DOI: 10.1101/2023.10.18.562970
Contributors: Jordan Little; Maria Chikina; Nathan Clark
Source: check_circle
Crossref

Sperm competition intensity shapes divergence in both sperm morphology and reproductive genes across murine rodents

2023-09-01 | Preprint
DOI: 10.1101/2023.08.30.555585
Contributors: Emily E. K. Kopania; Gregg W. C. Thomas; Carl R. Hutter; Sebastian M. E. Mortimer; Colin M. Callahan; Emily Roycroft; Anang S. Achmadi; William G. Breed; Nathan L. Clark; Jacob A. Esselstyn et al.
Source: check_circle
Crossref

Highly Dynamic Gene Family Evolution Suggests Changing Roles for PON Genes Within Metazoa

Genome Biology and Evolution
2023-02-03 | Journal article
DOI: 10.1093/gbe/evad011
Contributors: Sarah A M Lucas; Allie M Graham; Jason S Presnell; Nathan L Clark; Federico Hoffmann
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Crossref

Complementary evolution of coding and noncoding sequence underlies mammalian hairlessness

eLife
2022-11-07 | Journal article
DOI: 10.7554/eLife.76911
Contributors: Amanda Kowalczyk; Maria Chikina; Nathan Clark
Source: check_circle
Crossref

Highly Dynamic Gene Family Evolution Suggests Changing Roles for PON Genes Within Metazoa

2022-05-19 | Preprint
DOI: 10.1101/2022.05.17.492316
Contributors: Sarah A.M. Lucas; Allie M Graham; Jason S Presnell; Nathan L Clark
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Crossref

Prediction of local convergent shifts in evolutionary rates with phyloConverge characterizes the phenotypic associations and modularity of regulatory elements

2022-05-04 | Preprint
DOI: 10.1101/2022.05.02.490345
Contributors: Elysia Saputra; Weiguang Mao; Nathan Clark; Maria Chikina
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Crossref

A cautionary tale on proper use of branch-site models to detect convergent positive selection

2021-10-28 | Other
DOI: 10.1101/2021.10.26.465984
Contributors: Amanda Kowalczyk; Maria Chikina; Nathan L Clark
Source: check_circle
Crossref

Complementary evolution of coding and noncoding sequence underlies mammalian hairlessness

2021-03-11 | Other
DOI: 10.1101/2021.03.11.434984
Contributors: Amanda Kowalczyk; Maria Chikina; Nathan Clark
Source: check_circle
Crossref

Activation by Cleavage of the Epithelial Na+Channel α and γ Subunits Independently Coevolved with the Vertebrate Terrestrial Migration

2020-10-19 | Preprint
DOI: 10.1101/2020.10.19.344341
Contributors: Xue-Ping Wang; Deidra M. Balchak; Clayton Gentilcore; Nathan L. Clark; Ossama B. Kashlan
Source: check_circle
Crossref

Phylogenetic Permulations: a statistically rigorous approach to measure confidence in associations between phenotypes and genetic elements in a phylogenetic context

2020-10-14 | Preprint
DOI: 10.1101/2020.10.14.338608
Contributors: Elysia Saputra; Amanda Kowalczyk; Luisa Cusick; Nathan Clark; Maria Chikina
Source: check_circle
Crossref

Pan-mammalian analysis of molecular constraints underlying extended lifespan

eLife
2020-02-11 | Journal article
DOI: 10.7554/eLife.51089
Contributors: Amanda Kowalczyk; Raghavendran Partha; Nathan L Clark; Maria Chikina
Source: check_circle
Crossref

Evolution-based screening enables genome-wide prioritization and discovery of DNA repair genes

Proceedings of the National Academy of Sciences
2019-09-24 | Journal article
DOI: 10.1073/pnas.1906559116
Contributors: Gregory J. Brunette; Mohd A. Jamalruddin; Robert A. Baldock; Nathan L. Clark; Kara A. Bernstein
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Crossref

Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution

Science Advances
2019-06 | Journal article
DOI: 10.1126/sciadv.aau3648
Contributors: Jason Hill; Pasi Rastas; Emily A. Hornett; Ramprasad Neethiraj; Nathan Clark; Nathan Morehouse; Maria de la Paz Celorio-Mancera; Jofre Carnicer Cols; Heinrich Dircksen; Camille Meslin et al.
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Crossref

RERconverge: an R package for associating evolutionary rates with convergent traits

Bioinformatics
2019-06-13 | Journal article
DOI: 10.1093/bioinformatics/btz468
Part of ISSN: 1367-4803
Part of ISSN: 1460-2059
Source: Self-asserted source
Nathan Clark

Ancient convergent losses of Paraoxonase 1 yield potential risks for modern marine mammals

Science
2018-08-10 | Journal article
DOI: 10.1126/science.aap7714
Part of ISSN: 0036-8075
Part of ISSN: 1095-9203
Source: Self-asserted source
Nathan Clark

The molecular genetic basis of herbivory between butterflies and their host plants

Nature Ecology & Evolution
2018-08-03 | Journal article
DOI: 10.1038/s41559-018-0629-9
Contributors: Sumitha Nallu; Jason A. Hill; Kristine Don; Carlos Sahagun; Wei Zhang; Camille Meslin; Emilie Snell-Rood; Nathan L. Clark; Nathan I. Morehouse; Joy Bergelson et al.
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Crossref

Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling

eLife
2017-10-16 | Journal article
DOI: 10.7554/eLife.25884
Contributors: Raghavendran Partha; Bharesh K Chauhan; Zelia Ferreira; Joseph D Robinson; Kira Lathrop; Ken K Nischal; Maria Chikina; Nathan L Clark
Source: check_circle
Crossref

Structural complexity and molecular heterogeneity of a butterfly ejaculate reflect a complex history of selection

Proceedings of the National Academy of Sciences
2017-07-03 | Journal article
DOI: 10.1073/pnas.1707680114
Contributors: Camille Meslin; Tamara S. Cherwin; Melissa S. Plakke; Jason Hill; Brandon S. Small; Breanna J. Goetz; Christopher W. Wheat; Nathan I. Morehouse; Nathan L. Clark
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Candida albicans Transcriptional Profiling Within Biliary Fluid From a Patient With Cholangitis, Before and After Antifungal Treatment and Surgical Drainage

Open Forum Infectious Diseases
2016 | Journal article
DOI: 10.1093/ofid/ofw120
WOSUID:

WOS:000388571700016
Contributors: Clancy, Cornelius J.; Meslin, Camille; Badrane, Hassan; Cheng, Shaoji; Losada, Liliana C.; Nierman, William C.; Vergidis, Pascalis; Clark, Nathan L.; Nguyen, M. Hong
Source: Self-asserted source
Nathan Clark via ResearcherID

Hundreds of genes experienced convergent shifts in selective pressure in marine mammals

Molecular Biology and Evolution
2016 | Journal article
DOI: 10.1093/molbev/msw112
WOSUID:

WOS:000381702500002
Contributors: Chikina, Maria; Robinson, Joseph D.; Clark, Nathan L.
Source: Self-asserted source
Nathan Clark via ResearcherID

The Amino Acid Transporter JhI-21 Coevolves with Glutamate Receptors, Impacts NMJ Physiology, and Influences Locomotor Activity in Drosophila Larvae

Scientific reports
2016 | Journal article
DOI: 10.1038/srep19692
WOSUID:

WOS:000368812700001
Contributors: Ziegler, Anna B.; Augustin, Hrvoje; Clark, Nathan L.; Berthelot-Grosjean, Martine; Simonnet, Mégane M.; Steinert, Joern R.; Geillon, Flore; Manière, Gérard; Featherstone, David E.; Grosjean, Yael
Source: Self-asserted source
Nathan Clark via ResearcherID

The Budding Yeast Ubiquitin Protease Ubp7 Is a Novel Component Involved in S Phase Progression

Journal of Biological Chemistry
2016 | Journal article
DOI: 10.1074/jbc.M115.671057
WOSUID:

WOS:000371604600016
Contributors: Böhm, Stefanie; Szakal, Barnabas; Herken, Benjamin W.; Sullivan, Meghan R.; Mihalevic, Michael J.; Kabbinavar, Faiz F.; Branzei, Dana; Clark, Nathan L.; Bernstein, Kara A.
Source: Self-asserted source
Nathan Clark via ResearcherID

Digestive organ in the female reproductive tract borrows genes from multiple organ systems to adopt critical functions

Molecular biology and evolution
2015 | Journal article
DOI: 10.1093/molbev/msv048
WOSUID:

WOS:000356259600017
Contributors: Meslin, Camille; Plakke, Melissa S.; Deutsch, Aaron B.; Small, Brandon S.; Morehouse, Nathan I.; Clark, Nathan L.
Source: Self-asserted source
Nathan Clark via ResearcherID

Dynamic digestive physiology of a female reproductive organ in a polyandrous butterfly

Journal of Experimental Biology
2015 | Journal article
DOI: 10.1242/jeb.118323
WOSUID:

WOS:000354793300015
Contributors: Plakke, Melissa S.; Deutsch, Aaron B.; Meslin, Camille; Clark, Nathan L.; Morehouse, Nathan I.
Source: Self-asserted source
Nathan Clark via ResearcherID

ERC analysis: web-based inference of gene function via evolutionary rate covariation

Bioinformatics
2015 | Journal article
DOI: 10.1093/bioinformatics/btv454
WOSUID:

WOS:000366378400018
Contributors: Wolfe, Nicholas W.; Clark, Nathan L.
Source: Self-asserted source
Nathan Clark via ResearcherID

Evolutionary Signatures amongst Disease Genes Permit Novel Methods for Gene Prioritization and Construction of Informative Gene-Based Networks

PLoS Genet
2015 | Journal article
SOURCE-WORK-ID:

0511180007267-27
Contributors: Priedigkeit, Nolan; Wolfe, Nicholas; Clark, Nathan L.
Source: Self-asserted source
Nathan Clark via ResearcherID

Genetic and phenotypic influences on copulatory plug survival in mice

Heredity
2015 | Journal article
DOI: 10.1038/hdy.2015.50
WOSUID:

WOS:000365123300003
Contributors: Mangels, R.; Young, B.; Keeble, S.; Ardekani, R.; Meslin, C.; Ferreira, Z.; Clark, N. L.; Good, J. M.; Dean, M. D.
Source: Self-asserted source
Nathan Clark via ResearcherID

Overlapping Patterns of Rapid Evolution in the Nucleic Acid Sensors cGAS and OAS1 Suggest a Common Mechanism of Pathogen Antagonism and Escape

Plos Genetics
2015 | Journal article
DOI: 10.1371/journal.pgen.1005203
WOSUID:

WOS:000355305200023
Contributors: Hancks, Dustin C.; Hartley, Melissa K.; Hagan, Celia; Clark, Nathan L.; Elde, Nels C.
Source: Self-asserted source
Nathan Clark via ResearcherID

Evolutionary and Functional Analysis of the Invariant SWIM Domain in the Conserved Shu2/SWS1 Protein Family from Saccharomyces cerevisiae to Homo sapiens

Genetics
2015-04 | Journal article
DOI: 10.1534/genetics.114.173518
Contributors: Stephen K. Godin; Camille Meslin; Faiz Kabbinavar; Dominique S. Bratton-Palmer; Christina Hornack; Michael J. Mihalevic; Kyle Yoshida; Meghan Sullivan; Nathan L. Clark; Kara A. Bernstein
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Evolutionary Rate Covariation Identifies New Members of a Protein Network Required for Drosophila melanogaster Female Post-Mating Responses

PLOS Genetics
2014 | Journal article
DOI: 10.1371/journal.pgen.1004108
WOSUID:

WOS:000336525000063
Contributors: Findlay, Geoffrey D.; Sitnik, Jessica L.; Wang, Wenke; Aquadro, Charles F.; Clark, Nathan L.; Wolfner, Mariana F.
Source: Self-asserted source
Nathan Clark via ResearcherID

Evolutionary rate covariation in meiotic proteins results from fluctuating evolutionary pressure in yeasts and mammals

Genetics
2013 | Journal article
DOI: 10.1534/genetics.112.145979
WOSUID:

WOS:000314821300016
Contributors: Clark, Nathan L.; Alani, Eric; Aquadro, Charles F.
Source: Self-asserted source
Nathan Clark via ResearcherID

Evolutionary rate covariation reveals shared functionality and coexpression of genes

Genome research
2012 | Journal article
DOI: 10.1101/gr.132647.111
WOSUID:

WOS:000302203800012
Contributors: Clark, Nathan L.; Alani, Eric; Aquadro, Charles F.
Source: Self-asserted source
Nathan Clark via ResearcherID

Diversity-enhancing selection acts on a female reproductive protease family in four subspecies of Drosophila mojavensis

Genetics
2011 | Journal article
DOI: 10.1534/genetics.110.124743
WOSUID:

WOS:000288457800019
Contributors: Kelleher, E. S.; Clark, N. L.; Markow, T. A.
Source: Self-asserted source
Nathan Clark via ResearcherID

A novel method to detect proteins evolving at correlated rates: identifying new functional relationships between coevolving proteins

Molecular biology and evolution
2010 | Journal article
DOI: 10.1093/molbev/msp324
WOSUID:

WOS:000276994800018
Contributors: Clark, Nathaniel L.; Aquadro, Charles F.
Source: Self-asserted source
Nathan Clark via ResearcherID

Coevolution of interacting fertilization proteins

PLoS genetics
2009 | Journal article
DOI: 10.1371/journal.pgen.1000570
WOSUID:

WOS:000269219500011
Contributors: Clark, Nathan L.; Gasper, J.; Sekino, M.; Springer, S. A.; Aquadro, C. F.; Swanson, W. J.
Source: Self-asserted source
Nathan Clark via ResearcherID

Proteomics and comparative genomic investigations reveal heterogeneity in evolutionary rate of male reproductive proteins in mice (Mus domesticus)

Molecular biology and evolution
2009 | Journal article
DOI: 10.1093/molbev/msp094
WOSUID:

WOS:000268331600007
Contributors: Dean, Matthew D.; Clark, Nathaniel L.; Findlay, Geoffrey D.; Karn, Robert C.; Yi, Xianhua; Swanson, Willie J.; MacCoss, Michael J.; Nachman, Michael W.
Source: Self-asserted source
Nathan Clark via ResearcherID

Adaptive evolution in rodent seminal vesicle secretion proteins

Molecular biology and evolution
2008 | Journal article
DOI: 10.1093/molbev/msn182
WOSUID:

WOS:000260152700007
Contributors: Karn, Robert C.; Clark, Nathaniel L.; Nguyen, Eric D.; Swanson, Willie J.
Source: Self-asserted source
Nathan Clark via ResearcherID

Adaptive Evolution of Primate Sperm Proteins

2008 | Other
DOI: 10.1002/9780470015902.a0020775
Contributors: Clark, Nathaniel L.
Source: Self-asserted source
Nathan Clark via ResearcherID
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Peer review (3 reviews for 3 publications/grants)

Review activity for Current biology. (1)
Review activity for Nature communications (1)
Review activity for Nature ecology & evolution. (1)
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