Works matching AU Pennings, Pleuni S.

Results: 32

Soft Sweeps II--Molecular Population Genetics of Adaptation from Recurrent Mutation or Migration.

Published in:

Molecular Biology & Evolution, 2006, v. 23, n. 5, p. 1076, doi. 10.1093/molbev/msj117

By:

Pennings, Pleuni S.;
Hermisson, Joachim

Publication type:

Article

SIV Evolutionary Dynamics in Cynomolgus Macaques during SIV- Mycobacterium tuberculosis Co-Infection.

Published in:

Viruses (1999-4915), 2022, v. 14, n. 1, p. 48, doi. 10.3390/v14010048

By:

Tisthammer, Kaho H.;
Kline, Christopher;
Rutledge, Tara;
Diedrich, Collin R.;
Ita, Sergio;
Lin, Philana Ling;
Ambrose, Zandrea;
Pennings, Pleuni S.

Publication type:

Article

Comparative Analysis of Within-Host Mutation Patterns and Diversity of Hepatitis C Virus Subtypes 1a, 1b, and 3a.

Published in:

Viruses (1999-4915), 2021, v. 13, n. 3, p. 511, doi. 10.3390/v13030511

By:

Tisthammer, Kaho H.;
Dong, Weiyan;
Joy, Jeffrey B.;
Pennings, Pleuni S.;
Martínez, Miguel A.

Publication type:

Article

Association of orthodenticle with Natural Variation for Early Embryonic Patterning in Drosophila melanogaster.

Published in:

Journal of Experimental Zoology Part B: Molecular & Developmental Evolution, 2009, v. 312B, n. 8, p. 841, doi. 10.1002/jez.b.21299

By:

GOERING, LISA M.;
HUNT, PRISCILLA K.;
HEIGHINGTON, CASSANDRA;
BUSICK, CHRISTOPHER;
PENNINGS, PLEUNI S.;
HERMISSON, JOACHIM;
KUMAR, SUDHIR;
GIBSON, GREG

Publication type:

Article

Polygenic adaptation: From sweeps to subtle frequency shifts.

Published in:

PLoS Genetics, 2019, v. 15, n. 3, p. 1, doi. 10.1371/journal.pgen.1008035

By:

Höllinger, Ilse;
Pennings, Pleuni S.;
Hermisson, Joachim

Publication type:

Article

Correction: Within-patient mutation frequencies reveal fitness costs of CpG dinucleotides and drastic amino acid changes in HIV.

Published in:

2018

By:

Theys, Kristof;
Feder, Alison F.;
Gelbart, Maoz;
Hartl, Marion;
Stern, Adi;
Pennings, Pleuni S.

Publication type:

Correction Notice

HIV drug resistance: problems and perspectives.

Published in:

2013

By:

Pennings, Pleuni S.

Publication type:

Essay

HIV drug resistance: problems and perspectives.

Published in:

2013

By:

Pennings, Pleuni S.

Publication type:

Essay

Loss and Recovery of Genetic Diversity in Adapting Populations of HIV.

Published in:

PLoS Genetics, 2014, v. 10, n. 1, p. 1, doi. 10.1371/journal.pgen.1004000

By:

Pennings, Pleuni S.;
Kryazhimskiy, Sergey;
Wakeley, John

Publication type:

Article

Soft Sweeps III: The Signature of Positive Selection from Recurrent Mutation.

Published in:

PLoS Genetics, 2006, v. 3, n. 6, p. 1998, doi. 10.1371/journal.pgen.0020186

By:

Pennings, Pleuni S.;
Hermisson, Joachim

Publication type:

Article

Increased host aggression as an induced defense against slave-making ants.

Published in:

Behavioral Ecology, 2011, v. 22, n. 2, p. 255, doi. 10.1093/beheco/arq191

By:

Pamminger, Tobias;
Scharf, Inon;
Pennings, Pleuni S.;
Foitzik, Susanne

Publication type:

Article

Reversion is most likely under high mutation supply when compensatory mutations do not fully restore fitness costs.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 9, p. 1, doi. 10.1093/g3journal/jkac190

By:

Pennings, Pleuni S.;
Brandon Ogbunugafor, C.;
Hershberg, Ruth

Publication type:

Article

Evolutionary Dynamics in Structured Populations Under Strong Population Genetic Forces.

Published in:

G3: Genes | Genomes | Genetics, 2019, v. 9, n. 10, p. 3395, doi. 10.1534/g3.119.400605

By:

Feder, Alison F.;
Pennings, Pleuni S.;
Hermisson, Joachim;
Petrov, Dmitri A.

Publication type:

Article

Genetic Adaptation in New York City Rats.

Published in:

Genome Biology & Evolution, 2021, v. 13, n. 1, p. 1, doi. 10.1093/gbe/evaa247

By:

Harpak, Arbel;
Garud, Nandita;
Rosenberg, Noah A;
Petrov, Dmitri A;
Combs, Matthew;
Pennings, Pleuni S;
Munshi-South, Jason

Publication type:

Article

A spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host.

Published in:

PLoS Pathogens, 2017, v. 13, n. 5, p. 1, doi. 10.1371/journal.ppat.1006358

By:

Feder, Alison F.;
Kline, Christopher;
Polacino, Patricia;
Cottrell, Mackenzie;
Kashuba, Angela D. M.;
Keele, Brandon F.;
Hu, Shiu-Lok;
Petrov, Dmitri A.;
Pennings, Pleuni S.;
Ambrose, Zandrea

Publication type:

Article

Ten simple rules for designing and running a computing minor for bio/chem students.

Published in:

PLoS Computational Biology, 2022, v. 18, n. 7, p. 1, doi. 10.1371/journal.pcbi.1010202

By:

Reyes, Rochelle-Jan;
Hosmane, Nina;
Ihorn, Shasta;
Johnson, Milo;
Kulkarni, Anagha;
Nelson, Jennifer;
Savvides, Michael;
Ta, Duc;
Yoon, Ilmi;
Pennings, Pleuni S.

Publication type:

Article

Understanding patterns of HIV multi-drug resistance through models of temporal and spatial drug heterogeneity.

Published in:

eLife, 2021, p. 1, doi. 10.7554/eLife.69032

By:

Feder, Alison F.;
Harper, Kristin N.;
Brumme, Chanson J.;
Pennings, Pleuni S.

Publication type:

Article

Viral CpG Deficiency Provides No Evidence That Dogs Were Intermediate Hosts for SARS-CoV-2.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 9, p. 2706, doi. 10.1093/molbev/msaa178

By:

Pollock, David D;
Castoe, Todd A;
Perry, Blair W;
Lytras, Spyros;
Wade, Kristen J;
Robertson, David L;
Holmes, Edward C;
Boni, Maciej F;
Pond, Sergei L Kosakovsky;
Parry, Rhys;
Carlton, Elizabeth J;
Wood, James L N;
Pennings, Pleuni S;
Goldstein, Richard A

Publication type:

Article

Soft sweeps and beyond: understanding the patterns and probabilities of selection footprints under rapid adaptation.

Published in:

Methods in Ecology & Evolution, 2017, v. 8, n. 6, p. 700, doi. 10.1111/2041-210X.12808

By:

Hermisson, Joachim;
Pennings, Pleuni S.;
Kelley, Joanna

Publication type:

Article

Fighting microbial drug resistance: a primer on the role of evolutionary biology in public health.

Published in:

Evolutionary Applications, 2015, v. 8, n. 3, p. 211, doi. 10.1111/eva.12254

By:

Perron, Gabriel G.;
Inglis, R. Fredrik;
Pennings, Pleuni S.;
Cobey, Sarah

Publication type:

Article

Assessing in vivo mutation frequencies and creating a high-resolution genome-wide map of fitness costs of Hepatitis C virus.

Published in:

PLoS Genetics, 2022, v. 18, n. 5, p. 1, doi. 10.1371/journal.pgen.1010179

By:

Tisthammer, Kaho H.;
Solis, Caroline;
Orcales, Faye;
Nzerem, Madu;
Winstead, Ryan;
Dong, Weiyan;
Joy, Jeffrey B.;
Pennings, Pleuni S.

Publication type:

Article

Evidence for sweep signatures in antibiotic-resistant strains in three species of bacteria.

Published in:

PeerJ, 2024, p. 1, doi. 10.7717/peerj.18178

By:

Pradhananga, Anjani;
Benitez-Rivera, Lorena;
Clark, Candace;
Tisthammer, Kaho H.;
Pennings, Pleuni S.

Publication type:

Article

The population genetics of drug resistance evolution in natural populations of viral, bacterial and eukaryotic pathogens.

Published in:

Molecular Ecology, 2016, v. 25, n. 1, p. 42, doi. 10.1111/mec.13474

By:

Wilson, Benjamin A.;
Garud, Nandita R.;
Feder, Alison F.;
Assaf, Zoe J.;
Pennings, Pleuni S.

Publication type:

Article

HIV-1 Transmission Networks in a Small World.

Published in:

2014

By:

Pennings, Pleuni S.;
Holmes, Susan P.;
Shafer, Robert W.

Publication type:

Editorial

The clarifying role of time series data in the population genetics of HIV.

Published in:

PLoS Genetics, 2021, v. 17, n. 1, p. 1, doi. 10.1371/journal.pgen.1009050

By:

Feder, Alison F.;
Pennings, Pleuni S.;
Petrov, Dmitri A.

Publication type:

Article

Inferring population genetics parameters of evolving viruses using time-series data.

Published in:

Virus Evolution, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1093/ve/vez011

By:

Zinger, Tal;
Gelbart, Maoz;
Miller, Danielle;
Pennings, Pleuni S;
Stern, Adi

Publication type:

Article

Soft Selective Sweeps in Evolutionary Rescue.

Published in:

Genetics, 2017, v. 205, n. 4, p. 1573, doi. 10.1534/genetics.116.191478

By:

Wilson, Benjamin A.;
Pennings, Pleuni S.;
Petrov, Dmitri A.

Publication type:

Article

More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1.

Published in:

eLife, 2016, p. 1, doi. 10.7554/eLife.10670

By:

Feder, Alison F.;
Soo-Yon Rhee;
Holmes, Susan P.;
Shafer, Robert W.;
Petrov, Dmitri A.;
Pennings, Pleuni S.

Publication type:

Article

EVIDENCE OF ADAPTATION FROM ANCESTRAL VARIATION IN YOUNG POPULATIONS OF BEACH MICE.

Published in:

Evolution, 2012, v. 66, n. 10, p. 3209, doi. 10.1111/j.1558-5646.2012.01669.x

By:

Domingues, Vera S.;
Poh, Yu-Ping;
Peterson, Brant K.;
Pennings, Pleuni S.;
Jensen, Jeffrey D.;
Hoekstra, Hopi E.

Publication type:

Article

SPECIALIZATION AND LOCAL ADAPTATION OF A FUNGAL PARASITE ON TWO HOST PLANT SPECIES AS REVEALED BY TWO FITNESS TRAITS.

Published in:

Evolution, 2007, v. 61, n. 1, p. 27, doi. 10.1111/j.1558-5646.2007.00003.X

By:

Sicard, Delphine;
Pennings, Pleuni S.;
Grandclément, Catherine;
Acosta, Jorge;
Kaltz, Oliver;
Shykoff, Jacqui A.

Publication type:

Article

Drivers of within-host genetic diversity in acute infections of viruses.

Published in:

PLoS Pathogens, 2020, v. 16, n. 11, p. 1, doi. 10.1371/journal.ppat.1009029

By:

Gelbart, Maoz;
Harari, Sheri;
Ben-Ari, Ya'ara;
Kustin, Talia;
Wolf, Dana;
Mandelboim, Michal;
Mor, Orna;
Pennings, Pleuni S.;
Stern, Adi

Publication type:

Article

Within-patient mutation frequencies reveal fitness costs of CpG dinucleotides and drastic amino acid changes in HIV.

Published in:

PLoS Genetics, 2018, v. 14, n. 6, p. 1, doi. 10.1371/journal.pgen.1007420

By:

Theys, Kristof;
Feder, Alison F.;
Gelbart, Maoz;
Hartl, Marion;
Stern, Adi;
Pennings, Pleuni S.

Publication type:

Article