Francisco J Ayala

Francisco J Ayala

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Francisco J Ayala

Publications by authors named "Francisco J Ayala"

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Are the multiple Trypanosoma cruzi infections in Louisiana rodents caused by independent genetic clones?

J Microbiol Immunol Infect 2019 Sep 14. Epub 2019 Sep 14.

Catedra Francisco Jose Ayala of Science, Technology, and Religion University of Comillas, 28015 Madrid, Spain; 2 Locke Court, Irvine, CA 92617, USA.

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http://dx.doi.org/10.1016/j.jmii.2019.04.014DOI Listing
September 2019

Chromosomal inversions promote genomic islands of concerted evolution of Hsp70 genes in the Drosophila subobscura species subgroup.

Mol Ecol 2019 03 1;28(6):1316-1332. Epub 2018 Mar 1.

Grup de Genòmica, Bioinformàtica i Biologia Evolutiva (GGBE), Departament de Genètica i de Microbiologia, Universitat Autonòma de Barcelona, Bellaterra, Barcelona, Spain.

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http://dx.doi.org/10.1111/mec.14511DOI Listing
March 2019

How clonal is Trypanosoma congolense? A necessary clarification of the predominant clonal evolution model.

Acta Trop 2019 Feb 1;190:28-29. Epub 2018 Nov 1.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA, 92697, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S0001706X183129
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http://dx.doi.org/10.1016/j.actatropica.2018.10.013DOI Listing
February 2019

Art and brain coevolution.

Prog Brain Res 2018 25;237:41-60. Epub 2018 Apr 25.

CLASSY (Center for the Scientific Study of Creativity: Literature, Arts and Science), School of Biological Sciences, University of California, Irvine, CA, United States.

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http://dx.doi.org/10.1016/bs.pbr.2018.03.013DOI Listing
December 2018

A misleading description of the predominant clonal evolution model in Trypanosoma cruzi.

Acta Trop 2018 11 23;187:13-14. Epub 2018 Jul 23.

Department of Ecology and Evolutionary Biology, University of California at Irvine, Irvine, CA, 92697, USA.

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http://dx.doi.org/10.1016/j.actatropica.2018.07.015DOI Listing
November 2018

Encephalitis is mediated by ROP18 of , a severe pathogen in AIDS patients.

Proc Natl Acad Sci U S A 2018 06 21;115(23):E5344-E5352. Epub 2018 May 21.

Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Anhui Medical University, Hefei 230032, People's Republic of China;

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http://dx.doi.org/10.1073/pnas.1801118115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6003310PMC
June 2018

Extensive flagellar remodeling during the complex life cycle of , an early-branching trypanosomatid.

Proc Natl Acad Sci U S A 2017 10 16;114(44):11757-11762. Epub 2017 Oct 16.

Institute of Parasitology, Biology Centre, Czech Academy of Sciences, 37005 České Budějovice, Czech Republic;

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http://dx.doi.org/10.1073/pnas.1712311114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5676924PMC
October 2017

Nitric oxide blocks the development of the human parasite .

Proc Natl Acad Sci U S A 2017 09 5;114(38):10214-10219. Epub 2017 Sep 5.

Center for Parasitic Organisms, State Key Laboratory of Biocontrol, Key Laboratory of Gene Engineering of the Ministry of Education, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, People's Republic of China;

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http://dx.doi.org/10.1073/pnas.1708578114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617295PMC
September 2017

Complete Mitochondrial Genomes of the Cherskii's Sculpin and Siberian Taimen Reveal GenBank Entry Errors: Incorrect Species Identification and Recombinant Mitochondrial Genome.

Evol Bioinform Online 2017 24;13:1176934317726783. Epub 2017 Aug 24.

Department of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA, USA.

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http://dx.doi.org/10.1177/1176934317726783DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5574479PMC
August 2017

The extension of biology through culture.

Proc Natl Acad Sci U S A 2017 Jul 24. Epub 2017 Jul 24.

Centre for Social Learning and Cognitive Evolution, School of Biology, University of St. Andrews, St. Andrews KY16 9JP, United Kingdom.

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http://dx.doi.org/10.1073/pnas.1707630114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5544333PMC
July 2017

Relevant units of analysis for applied and basic research dealing with neglected transmissible diseases: The predominant clonal evolution model of pathogenic microorganisms.

PLoS Negl Trop Dis 2017 04 27;11(4):e0005293. Epub 2017 Apr 27.

Department of Ecology and Evolutionary Biology, University of California, Irvine, California, United States of America.

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http://dx.doi.org/10.1371/journal.pntd.0005293DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5407763PMC
April 2017

Guanylate-binding protein 1 (GBP1) contributes to the immunity of human mesenchymal stromal cells against Toxoplasma gondii.

Proc Natl Acad Sci U S A 2017 02 25;114(6):1365-1370. Epub 2017 Jan 25.

Center for Stem Cell Biology and Tissue Engineering, The Key Laboratory for Stem Cells and Tissue Engineering, Ministry of Education, Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou 510080, China;

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http://www.pnas.org/lookup/doi/10.1073/pnas.1619665114
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http://dx.doi.org/10.1073/pnas.1619665114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5307439PMC
February 2017

Complete mitochondrial genome of the Kamchatka grayling Thymallus mertensii (Salmoniformes, Salmonidae).

Mitochondrial DNA A DNA Mapp Seq Anal 2017 01 28;28(1):135-136. Epub 2015 Dec 28.

a Department of Ecology and Evolutionary Biology , University of California , Irvine, 321 Steinhaus Hall , Irvine , CA , USA.

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http://dx.doi.org/10.3109/19401736.2015.1111358DOI Listing
January 2017

Complete mitochondrial genome of Siberian taimen, Hucho taimen not introgressed by the lenok subspecies, Brachymystax lenok and B. lenok tsinlingensis.

Mitochondrial DNA A DNA Mapp Seq Anal 2016 20;27(2):815-6. Epub 2014 May 20.

a Department of Ecology and Evolutionary Biology , University of California , Irvine , California , USA .

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http://dx.doi.org/10.3109/19401736.2014.919455DOI Listing
October 2016

Complete mitochondrial genome of blunt-snouted lenok Brachymystax tumensis (Salmoniformes, Salmonidae).

Mitochondrial DNA A DNA Mapp Seq Anal 2016 27;27(2):882-3. Epub 2014 May 27.

a Department of Ecology and Evolutionary Biology , University of California , Irvine, 321 Steinhaus Hall , Irvine , California , USA and.

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http://dx.doi.org/10.3109/19401736.2014.919487DOI Listing
September 2016

Complete mitochondrial genomes of the Northern (Salvelinus malma) and Southern (Salvelinus curilus) Dolly Varden chars (Salmoniformes, Salmonidae).

Mitochondrial DNA A DNA Mapp Seq Anal 2016 12;27(2):1016-7. Epub 2014 Jun 12.

a Department of Ecology and Evolutionary Biology , University of California , Irvine , CA , USA and.

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http://www.tandfonline.com/doi/full/10.3109/19401736.2014.92
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http://dx.doi.org/10.3109/19401736.2014.926531DOI Listing
September 2016

Complete mitochondrial genome of Sakhalin taimen Parahucho perryi (Salmoniformes, Salmonidae) without two frame-disrupting indels in the ND4 gene.

Mitochondrial DNA A DNA Mapp Seq Anal 2016 18;27(2):1020-1. Epub 2014 Jun 18.

a Department of Ecology and Evolutionary Biology , University of California , Irvine , CA , USA and.

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http://dx.doi.org/10.3109/19401736.2014.926534DOI Listing
September 2016

Complete mitochondrial genome of the white char Salvelinus albus (Salmoniformes, Salmonidae).

Mitochondrial DNA A DNA Mapp Seq Anal 2016 09 10;27(5):3753-4. Epub 2015 Sep 10.

a Department of Ecology and Evolutionary Biology , University of California , Irvine , CA , United States of America .

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http://dx.doi.org/10.3109/19401736.2015.1079890DOI Listing
September 2016

Highly rearranged mitochondrial genome in Nycteria parasites (Haemosporidia) from bats.

Proc Natl Acad Sci U S A 2016 08 15;113(35):9834-9. Epub 2016 Aug 15.

Unité Molécules de Communication et Adaptation des Microorganismes (UMR 7245), Sorbonne Universités, Muséum National d'Histoire Naturelle, CNRS, CP52, 75005 Paris, France;

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http://dx.doi.org/10.1073/pnas.1610643113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5024609PMC
August 2016

In the light of evolution X: Comparative phylogeography.

Proc Natl Acad Sci U S A 2016 07;113(29):7957-61

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697-2525;

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http://dx.doi.org/10.1073/pnas.1604338113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4961136PMC
July 2016

Medical Informatics and the "Three Long, One Short" Problem of Large Urban Hospitals in China.

JAMA 2016 Jul;316(3):269-70

Department of Ecology and Evolutionary Biology, University of California, Irvine.

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http://dx.doi.org/10.1001/jama.2016.5487DOI Listing
July 2016

Complete mitochondrial genomes of the anadromous and resident forms of the lamprey Lethenteron camtschaticum.

Mitochondrial DNA A DNA Mapp Seq Anal 2016 05 22;27(3):1730-1. Epub 2014 Sep 22.

a Department of Ecology and Evolutionary Biology , University of California , Irvine , CA , USA and.

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http://dx.doi.org/10.3109/19401736.2014.961143DOI Listing
May 2016

Ape malaria transmission and potential for ape-to-human transfers in Africa.

Proc Natl Acad Sci U S A 2016 May 11;113(19):5329-34. Epub 2016 Apr 11.

Laboratoire Maladies Infectieuses et Vecteurs: Ecologie, Génétique, Evolution et Contrôle, Unité Mixte de Recherche 224-5290 Centre National de la Recherche Scientifique (CNRS), Institut de Recherche pour le Développement (IRD)-Université de Montpellier, Centre IRD de Montpellier, 34394 Montpellier, France; Centre International de Recherches Médicales de Franceville, BP769, Franceville, Gabon;

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http://dx.doi.org/10.1073/pnas.1603008113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4868493PMC
May 2016

DNA polymorphism and selection at the bindin locus in three Strongylocentrotus sp. (Echinoidea).

BMC Genet 2016 05 12;17(1):66. Epub 2016 May 12.

Department of Ecology and Evolutionary Biology, University of California, 321 Steinhaus Hall, Irvine, CA, 92697-2525, USA.

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http://dx.doi.org/10.1186/s12863-016-0374-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4866015PMC
May 2016

Two distinct cytokinesis pathways drive trypanosome cell division initiation from opposite cell ends.

Proc Natl Acad Sci U S A 2016 Mar 29;113(12):3287-92. Epub 2016 Feb 29.

Department of Microbiology and Molecular Genetics, University of Texas Medical School, Houston, TX 77030;

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http://dx.doi.org/10.1073/pnas.1601596113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4812729PMC
March 2016

Wild chimpanzees are infected by Trypanosoma brucei.

Int J Parasitol Parasites Wildl 2015 Dec 16;4(3):277-82. Epub 2015 Jun 16.

Institute of Parasitology, Biology Centre of the Czech Academy of Sciences, České Budějovice (Budweiss), Czech Republic ; Faculty of Sciences, University of South Bohemia, České Budějovice (Budweiss), Czech Republic ; Canadian Institute for Advanced Research, Toronto, Canada.

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http://dx.doi.org/10.1016/j.ijppaw.2015.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4477118PMC
December 2015

Reproductive clonality in protozoan pathogens--truth or artifact? A comment on Ramírez and Llewellyn.

Mol Ecol 2015 Dec;24(23):5778-81

Department of Ecology and Evolutionary Biology, University of California Irvine, 321 Steinhaus Hall, Irvine, CA, 92697-2525, USA.

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http://dx.doi.org/10.1111/mec.13443DOI Listing
December 2015

The population genetics of Trypanosoma cruzi revisited in the light of the predominant clonal evolution model.

Acta Trop 2015 Nov 16;151:156-65. Epub 2015 Jul 16.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1016/j.actatropica.2015.05.006DOI Listing
November 2015

Cloning humans? Biological, ethical, and social considerations.

Proc Natl Acad Sci U S A 2015 Jul 20;112(29):8879-86. Epub 2015 Jul 20.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697

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http://dx.doi.org/10.1073/pnas.1501798112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4517218PMC
July 2015

In the light of evolution IX: Clonal reproduction: Alternatives to sex.

Proc Natl Acad Sci U S A 2015 Jul;112(29):8824-6

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697-2525

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http://dx.doi.org/10.1073/pnas.1508087112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4517246PMC
July 2015

How clonal are Neisseria species? The epidemic clonality model revisited.

Proc Natl Acad Sci U S A 2015 Jul;112(29):8909-13

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697.

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http://dx.doi.org/10.1073/pnas.1502900112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4517260PMC
July 2015

Cancer in the parasitic protozoans Trypanosoma brucei and Toxoplasma gondii.

Proc Natl Acad Sci U S A 2015 Jul 20;112(29):8835-42. Epub 2015 Jul 20.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697

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http://dx.doi.org/10.1073/pnas.1502599112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4517281PMC
July 2015

Malaria continues to select for sickle cell trait in Central Africa.

Proc Natl Acad Sci U S A 2015 Jun 4;112(22):7051-4. Epub 2015 May 4.

Maladies Infectieuses et Vecteurs, Ecologie, Génétique, Evolution et Contrôle (Unité Mixte de Recherche 5290, Centre National de la Recherche Scientifique, Institut de Recherche pour le Développement, Université de Montpellier), 34295 Montpellier, France; Evolutionary Parasitology Departement, Centre International de Recherches Médicales de Franceville, BP 769 Franceville, Gabon;

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http://dx.doi.org/10.1073/pnas.1505665112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4460506PMC
June 2015

Infection by Toxoplasma gondii, a severe parasite in neonates and AIDS patients, causes impaired anion secretion in airway epithelia.

Proc Natl Acad Sci U S A 2015 Apr 23;112(14):4435-40. Epub 2015 Mar 23.

State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, P.R. China; Key Laboratory for Tropical Diseases Control of the Ministry of Education, Zhongshan Medical College, Sun Yat-Sen University, Guangzhou 510080, P.R. China; Ecosystems and Environment Research Centre and Biomedical Research Centre, School of Environment and Life Sciences, University of Salford, Greater Manchester, Salford M5 4WT, United Kingdom; Shenzhen Research and Development Center of State Key Laboratory of Biocontrol, Sun Yat-Sen University, Baoan, Shenzhen 518057, P.R. China

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http://dx.doi.org/10.1073/pnas.1503474112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4394305PMC
April 2015

Computational methods of identification of pseudogenes based on functionality: entropy and GC content.

Methods Mol Biol 2014 ;1167:41-62

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA, USA,

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http://dx.doi.org/10.1007/978-1-4939-0835-6_4DOI Listing
January 2015

Both endo-siRNAs and tRNA-derived small RNAs are involved in the differentiation of primitive eukaryote Giardia lamblia.

Proc Natl Acad Sci U S A 2014 Sep 15;111(39):14159-64. Epub 2014 Sep 15.

State Key Laboratory of Biocontrol and Key Laboratory of Gene Engineering of the Ministry of Education, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, People's Republic of China;

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http://dx.doi.org/10.1073/pnas.1414394111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4191773PMC
September 2014

Null allele, allelic dropouts or rare sex detection in clonal organisms: simulations and application to real data sets of pathogenic microbes.

Parasit Vectors 2014 Jul 15;7:331. Epub 2014 Jul 15.

Centre International de Recherche-Développement sur l'Elevage en zone Subhumide (CIRDES), 01 BP 454 Bobo-Dioulasso 01, Burkina-Faso.

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http://dx.doi.org/10.1186/1756-3305-7-331DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4223633PMC
July 2014

New insights into clonality and panmixia in Plasmodium and toxoplasma.

Adv Parasitol 2014 ;84:253-68

Department of Ecology and Evolutionary Biology, University of California, Irvine, California, USA.

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http://dx.doi.org/10.1016/B978-0-12-800099-1.00005-3DOI Listing
April 2014

Cryptosporidium,Giardia, Cryptococcus, Pneumocystis genetic variability: cryptic biological species or clonal near-clades?

PLoS Pathog 2014 Apr 10;10(4):e1003908. Epub 2014 Apr 10.

Department of Ecology and Evolutionary Biology, University of California, Irvine, California, United States of America.

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http://dx.doi.org/10.1371/journal.ppat.1003908DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983055PMC
April 2014

Mitochondrial DNA variation and introgression in Siberian taimen Hucho taimen.

PLoS One 2013 12;8(8):e71147. Epub 2013 Aug 12.

Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0071147PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3741329PMC
March 2014

Comparative transcriptome analysis of small noncoding RNAs in different stages of Trypanosoma brucei.

RNA 2013 Jul 23;19(7):863-75. Epub 2013 May 23.

State Key Laboratory of Biocontrol, Key Laboratory of Gene Engineering, Ministry of Education, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.

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http://dx.doi.org/10.1261/rna.035683.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3683921PMC
July 2013

How clonal are Trypanosoma and Leishmania?

Trends Parasitol 2013 Jun 17;29(6):264-9. Epub 2013 Apr 17.

Maladies Infectieuses et Vecteurs Ecologie, Génétique, Evolution et Contrôle, Institut de Recherche pour le Développement 224-Centre National de la Recherche Scientifique 5290-Unité Mixte 1/2, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1016/j.pt.2013.03.007DOI Listing
June 2013

Diversity, host switching and evolution of Plasmodium vivax infecting African great apes.

Proc Natl Acad Sci U S A 2013 May 1;110(20):8123-8. Epub 2013 May 1.

Laboratoire Maladies Infectieuses et Vecteur: Ecologie, Génétique, Evolution et Contrôle, Unité Mixte de Recherche 224-5290 Centre National de la Recherche Scientifique (CNRS), Institut de Recherche pour le Développement (IRD)-Université de Montpellier 1 (UM1)-UM2, Centre IRD de Montpellier, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.1306004110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3657773PMC
May 2013

Symbiotic associations in the phenotypically-diverse brown alga Saccharina japonica.

PLoS One 2012 20;7(6):e39587. Epub 2012 Jun 20.

Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0039587PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3379999PMC
November 2012

Reproductive clonality of pathogens: a perspective on pathogenic viruses, bacteria, fungi, and parasitic protozoa.

Proc Natl Acad Sci U S A 2012 Nov 4;109(48):E3305-13. Epub 2012 Sep 4.

Maladies Infectieuses et Vecteurs Ecologie, Génétique, Evolution et Contrôle, Institut de Rercherche pour le Développement 224, Centre National de la Recherche Scientifique 5290, Université Montpellier 1, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.1212452109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3511763PMC
November 2012

Walter Monroe Fitch (May 21, 1929 - March 10, 2011): a memorial tribute.

Infect Genet Evol 2012 Oct;12(7):1587-9

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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October 2012

DNA variation in the phenotypically-diverse brown alga Saccharina japonica.

BMC Plant Biol 2012 Jul 11;12:108. Epub 2012 Jul 11.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697-2525, USA.

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http://dx.doi.org/10.1186/1471-2229-12-108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3490969PMC
July 2012

In the light of evolution VI: brain and behavior.

Proc Natl Acad Sci U S A 2012 Jun 20;109 Suppl 1:10607-11. Epub 2012 Jun 20.

Department of Neurobiology and Behavior, University of California, Irvine, CA 92697-2525, USA.

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http://dx.doi.org/10.1073/pnas.1206166109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3386874PMC
June 2012

Aerobic kinetoplastid flagellate Phytomonas does not require heme for viability.

Proc Natl Acad Sci U S A 2012 Mar 21;109(10):3808-13. Epub 2012 Feb 21.

Biology Centre, Institute of Parasitology, Czech Academy of Sciences and Faculty of Science, University of South Bohemia, 370 05 České Budějovice, Czech Republic.

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http://dx.doi.org/10.1073/pnas.1201089109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3309753PMC
March 2012

Pseudogenes are not pseudo any more.

RNA Biol 2012 Jan 1;9(1):27-32. Epub 2012 Jan 1.

School of Life Sciences and Key Laboratory of Tropical Diseases and Control of the Ministry of Education, Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou, China.

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http://dx.doi.org/10.4161/rna.9.1.18277DOI Listing
January 2012

Complex interplay of evolutionary forces in the ladybird homeobox genes of Drosophila melanogaster.

PLoS One 2011 22;6(7):e22613. Epub 2011 Jul 22.

Department of Ecology and Evolutionary Biology, University of California Irvine, Irvine, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0022613PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3142176PMC
December 2011

The Vein Patterning 1 (VEP1) gene family laterally spread through an ecological network.

PLoS One 2011 26;6(7):e22279. Epub 2011 Jul 26.

Universidad de Santiago de Compostela, CIBERER, Genome Medicine Group, Santiago de Compostela, Spain.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0022279PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3144213PMC
December 2011

Remembrances of Walter M. Fitch.

Mol Biol Evol 2011 Dec;28(12):3405-9

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http://dx.doi.org/10.1093/molbev/msr260DOI Listing
December 2011

African monkeys are infected by Plasmodium falciparum nonhuman primate-specific strains.

Proc Natl Acad Sci U S A 2011 Jul 5;108(29):11948-53. Epub 2011 Jul 5.

Laboratoire Maladies Infectieuses et Vecteurs Écologie, Génétique, Évolution et Controle, Unité Mixte de Recherche 224 Centre National de la Recherche Scientifique-Institut de Recherche pour le Développement-UM1, BP 64501, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.1109368108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3141972PMC
July 2011

In the light of evolution V: cooperation and conflict.

Proc Natl Acad Sci U S A 2011 Jun 20;108 Suppl 2:10787-91. Epub 2011 Jun 20.

Department of Ecology and Evolutionary Biology, Rice University, Houston, TX 77004, USA.

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http://dx.doi.org/10.1073/pnas.1100289108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3131816PMC
June 2011

Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei.

Proc Natl Acad Sci U S A 2011 May 29;108(20):8345-50. Epub 2011 Apr 29.

Center for Parasitic Organisms, State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, People's Republic of China.

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http://dx.doi.org/10.1073/pnas.1103894108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3100955PMC
May 2011

Elixir of life: In vino veritas.

Proc Natl Acad Sci U S A 2011 Mar 3;108(9):3457-8. Epub 2011 Feb 3.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.1019729108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3048131PMC
March 2011

Unresolved direction of host transfer of Plasmodium vivax v. P. simium and P. malariae v. P. brasilianum.

Infect Genet Evol 2011 Jan 16;11(1):209-21. Epub 2010 Sep 16.

Division of Epidemiology, Human Genetics and Environmental Sciences, University of Texas, Health Science Center at Houston, School of Public Health, Brownsville Regional Campus, Brownsville, TX 78520, USA.

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http://dx.doi.org/10.1016/j.meegid.2010.08.007DOI Listing
January 2011

Phylogenetic character mapping of proteomic diversity shows high correlation with subspecific phylogenetic diversity in Trypanosoma cruzi.

Proc Natl Acad Sci U S A 2010 Nov 8;107(47):20411-6. Epub 2010 Nov 8.

Unité Mixte de Recherche, Institut de Recherche pour le Développement/Centre National de la Recherche Scientifique, Génétique et Evolution des Maladies Infectieuses, n° 2724, Centre Institut de Recherche pour le Développement, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.1015496107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2996636PMC
November 2010

Trypanosoma brucei: two steps to spread out from Africa.

Trends Parasitol 2010 Sep 17;26(9):424-7. Epub 2010 Jun 17.

Center for Parasitic Organisms, State Key Laboratory of Biocontrol, Zhongshan Medical School, Sun Yat-Sen University, Guangzhou 510275, P.R. China.

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http://dx.doi.org/10.1016/j.pt.2010.05.007DOI Listing
September 2010

Darwin's explanation of design: from natural theology to natural selection.

Infect Genet Evol 2010 Aug 1;10(6):840-3. Epub 2009 Oct 1.

Department of Ecology and Evolutionary Biology, University of California, 321 Steinhaus Hall, Irvine, CA 92697-2525, USA.

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http://dx.doi.org/10.1016/j.meegid.2009.09.014DOI Listing
August 2010

Colloquium paper: the difference of being human: morality.

Proc Natl Acad Sci U S A 2010 May 5;107 Suppl 2:9015-22. Epub 2010 May 5.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0914616107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3024030PMC
May 2010

Colloquium paper: in the light of evolution IV: the human condition.

Proc Natl Acad Sci U S A 2010 May;107 Suppl 2:8897-901

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.1003214107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3024015PMC
May 2010

Emergence of new alleles of the MSP-3alpha gene in Plasmodium vivax isolates from Korea.

Am J Trop Med Hyg 2010 Apr;82(4):522-4

Department of Laboratory Medicine, Brain Korea 21 Graduate School of Medicine, College of Medicine, Korea University, Seoul, Korea.

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http://dx.doi.org/10.4269/ajtmh.2010.08-0332DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2844544PMC
April 2010

African great apes are natural hosts of multiple related malaria species, including Plasmodium falciparum.

Proc Natl Acad Sci U S A 2010 Jan 19;107(4):1458-63. Epub 2010 Jan 19.

Laboratoire Génétique et Evolution des Maladies Infectieuses, Unité Mixte de Recherche 2724, Centre National de la Recherche Scientifique-Institut de Recherche pour le Développement, Institut de Recherche pour le Développement Montpellier, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.0914440107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2824423PMC
January 2010

The origin of malignant malaria.

Proc Natl Acad Sci U S A 2009 Sep 3;106(35):14902-7. Epub 2009 Aug 3.

Laboratory of Medical Zoology, Division of Entomology (PSIS), University of Massachusetts, Amherst, MA 01003, USA.

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http://dx.doi.org/10.1073/pnas.0907740106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2720412PMC
September 2009

The rhetorical construction of Eldredge and Gould's article on the theory of punctuated equilibria in 1972.

Hist Philos Life Sci 2008 ;30(3-4):317-37

Departamento de Biología Evolutiva, Facultad de Ciencia, UNAM, Mexico DF, México.

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August 2009

Extreme inbreeding in Leishmania braziliensis.

Proc Natl Acad Sci U S A 2009 Jun 4;106(25):10224-9. Epub 2009 Jun 4.

Génétique et Evolution des Maladies Infectieuses, IRD/CNRS/UMI (UMR 2724), Montpellier, France.

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http://dx.doi.org/10.1073/pnas.0904420106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2700931PMC
June 2009

In the light of evolution III: two centuries of Darwin.

Proc Natl Acad Sci U S A 2009 Jun 15;106 Suppl 1:9933-8. Epub 2009 Jun 15.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0903381106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2702790PMC
June 2009

Darwin and the scientific method.

Proc Natl Acad Sci U S A 2009 Jun 15;106 Suppl 1:10033-9. Epub 2009 Jun 15.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0901404106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2702794PMC
June 2009

One hundred fifty years without Darwin are enough!

Genome Res 2009 May;19(5):693-9

University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1101/gr.084285.108DOI Listing
May 2009

Sex-related similarities and differences in the neural correlates of beauty.

Proc Natl Acad Sci U S A 2009 Mar 23;106(10):3847-52. Epub 2009 Feb 23.

Laboratory of Human Systematics, Universidad de las Islas Baleares, 07122 Palma de Mallorca, Spain.

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http://dx.doi.org/10.1073/pnas.0900304106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2656168PMC
March 2009

Darwin at 200.

Proc Natl Acad Sci U S A 2009 Feb 11;106(8):2475-6. Epub 2009 Feb 11.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0900798106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2650285PMC
February 2009

Population genetics of Trypanosoma brucei gambiense, the agent of sleeping sickness in Western Africa.

Proc Natl Acad Sci U S A 2009 Jan 23;106(1):209-14. Epub 2008 Dec 23.

Institut de Recherche pour le Développement, Unité Mixte de Recherche IRD-CIRAD 177, Campus International de Baillarguet, 34398 Montpellier, Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.0811080106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2629214PMC
January 2009

Where is Darwin 200 years later?

J Genet 2008 Dec;87(4):321-5

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1007/s12041-008-0054-yDOI Listing
December 2008

DNA variation and symbiotic associations in phenotypically diverse sea urchin Strongylocentrotus intermedius.

Proc Natl Acad Sci U S A 2008 Oct 13;105(42):16218-23. Epub 2008 Oct 13.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697-2525, USA.

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http://dx.doi.org/10.1073/pnas.0807860105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2571021PMC
October 2008

Mitochondrial localization of human frataxin is necessary but processing is not for rescuing frataxin deficiency in Trypanosoma brucei.

Proc Natl Acad Sci U S A 2008 Sep 3;105(36):13468-73. Epub 2008 Sep 3.

Biology Centre, Institute of Parasitology, Czech Academy of Sciences, and Faculty of Natural Sciences, University of South Bohemia, 37005 Ceské Budejovice, Czech Republic.

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http://dx.doi.org/10.1073/pnas.0806762105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2533213PMC
September 2008

Colloquium paper: in the light of evolution II: biodiversity and extinction.

Proc Natl Acad Sci U S A 2008 Aug 11;105 Suppl 1:11453-7. Epub 2008 Aug 11.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0802504105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2556414PMC
August 2008

The Vatican and evolution.

Hist Philos Life Sci 2007 ;29(2):225-9

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697, USA.

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July 2008

Alternative splicing: a missing piece in the puzzle of intron gain.

Proc Natl Acad Sci U S A 2008 May 7;105(20):7223-8. Epub 2008 May 7.

Grupo de Medicina Xenómica-Centro de Investigación Biomédica en Red de Enfermedades Raras, Hospital Clínico Universitario, Universidade de Santiago de Compostela, 15706 Santiago, Spain.

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http://dx.doi.org/10.1073/pnas.0802941105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2438231PMC
May 2008

Taeniid history, natural selection and antigenic diversity: evolutionary theory meets helminthology.

Trends Parasitol 2008 Feb 7;24(2):96-102. Epub 2008 Jan 7.

Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Porto Alegre, 91501-970 RS, Brazil.

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http://dx.doi.org/10.1016/j.pt.2007.11.004DOI Listing
February 2008

Adaptations of Trypanosoma brucei to gradual loss of kinetoplast DNA: Trypanosoma equiperdum and Trypanosoma evansi are petite mutants of T. brucei.

Proc Natl Acad Sci U S A 2008 Feb 1;105(6):1999-2004. Epub 2008 Feb 1.

Biology Centre, Institute of Parasitology, Czech Academy of Sciences, 37005 Ceské Budejovice, Czech Republic.

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http://dx.doi.org/10.1073/pnas.0711799105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2538871PMC
February 2008

Science, evolution, and creationism.

Proc Natl Acad Sci U S A 2008 Jan 4;105(1):3-4. Epub 2008 Jan 4.

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http://dx.doi.org/10.1073/pnas.0711608105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2224205PMC
January 2008

Nucleotide variation at the dopa decarboxylase (Ddc) gene in natural populations of Drosophila melanogaster.

J Genet 2007 Aug;86(2):125-37

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697-2525, USA.

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http://dx.doi.org/10.1007/s12041-007-0017-8DOI Listing
August 2007

Population genetic structure of Plasmodium falciparum in the two main African vectors, Anopheles gambiae and Anopheles funestus.

Proc Natl Acad Sci U S A 2007 May 30;104(19):7987-92. Epub 2007 Apr 30.

Génétique et Evolution des Maladies Infectieuses, Unité Mixte de Recherche-Institut de Recherche pour le Développement/Centre National de la Recherche Scientifique 2724, B.P. 64501, 34394 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1073/pnas.0702715104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1876559PMC
May 2007

From the Academy: Colloquium Perspective: In the light of evolution I: Adaptation and complex design.

Proc Natl Acad Sci U S A 2007 May 9;104 Suppl 1:8563-6. Epub 2007 May 9.

Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697.

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http://dx.doi.org/10.1073/pnas.0702066104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1876430PMC
May 2007

Darwin's greatest discovery: design without designer.

Proc Natl Acad Sci U S A 2007 May 9;104 Suppl 1:8567-73. Epub 2007 May 9.

Department of Ecology and Evolutionary Biology, University of California, 321 Steinhaus Hall, Irvine, CA 92697, USA.

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http://dx.doi.org/10.1073/pnas.0701072104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1876431PMC
May 2007

Evolutionary and geographical history of the Leishmania donovani complex with a revision of current taxonomy.

Proc Natl Acad Sci U S A 2007 May 21;104(22):9375-80. Epub 2007 May 21.

*Biology Centre, Institute of Parasitology, Czech Academy of Sciences, and Faculty of Biology, University of South Bohemia, 370 05 Ceské Budejovice, Czech Republic.

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http://dx.doi.org/10.1073/pnas.0703678104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1890502PMC
May 2007