المؤلفون: Muyle, Aline, Ross-Ibarra, Jeffrey, Seymour, Danelle K, Gaut, Brandon S

المصدر: Genetics. 218(2)

مصطلحات موضوعية: Biological Sciences, Genetics, Biotechnology, Human Genome, Alleles, Arabidopsis, Cytosine, DNA Methylation, Datasets as Topic, Epigenesis, Genetic, Gene Expression Profiling, Gene Expression Regulation, Plant, Genes, Plant, Plant Leaves, Selection, Genetic, Site frequency spectrum, selection efficacy, DNA methylation, gene expression, Developmental Biology, Biochemistry and cell biology

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/0tn1v1hv
https://escholarship.org/content/qt0tn1v1hv/qt0tn1v1hv.pdf

المؤلفون: Muyle, Aline, Martin, Helene, Zemp, Niklaus, Mollion, Maeva, Gallina, Sophie, Tavares, Raquel, Silva, Alexandre, Bataillon, Thomas, Widmer, Alex, Glemin, Sylvain, Touzet, Pascal, Marais, Gabriel A. B.

المصدر: Molecular biology and evolution. 38(3):805-818

مصطلحات موضوعية: sexual systems, selection efficacy, Allee effect, population genetics, RNA-seq, angiosperms

وصف الملف: electronic

URL الوصول: https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-445823
https://doi.org/10.1093/molbev/msaa229
https://uu.diva-portal.org/smash/get/diva2:1568276/FULLTEXT01.pdf

المؤلفون: Pracana, R, Burns, R, Hammond, RL, Haller, BC, Wurm, Y

مصطلحات موضوعية: Hymenoptera, ants, bees, selection efficacy, haploid males, fate of mutations, interpreting genome scans, arrhenotoky

Relation: GENOME BIOLOGY AND EVOLUTION; ARTN evac062; https://qmro.qmul.ac.uk/xmlui/handle/123456789/93410

الاتاحة: https://qmro.qmul.ac.uk/xmlui/handle/123456789/93410
https://doi.org/10.1093/gbe/evac062

المؤلفون: Aline Muyle (170655), Jeffrey Ross-Ibarra (98899), Danelle K. Seymour (659579), Brandon S. Gaut (49035)

مصطلحات موضوعية: Evolutionary Biology, Plant Biology, Epigenetics (incl. Genome Methylation and Epigenomics), Site frequency spectrum, selection efficacy, DNA methylation, gene expression

Relation: https://figshare.com/articles/journal_contribution/Supplemental_Material_for_Muyle_et_al_2021/14390681

الاتاحة: https://doi.org/10.25386/genetics.14390681.v1

المؤلفون: Thijessen Naidoo, Per Sjödin, Carina Schlebusch, Mattias Jakobsson

المصدر: BMC Genomics, Vol 19, Iss 1, Pp 1-14 (2018)

مصطلحات موضوعية: Regulatory regions, Purifying selection, Selection efficacy, Non-coding DNA, Functional elements, Population genetics, Biotechnology, TP248.13-248.65, Genetics, QH426-470

وصف الملف: electronic resource

Relation: http://link.springer.com/article/10.1186/s12864-017-4422-y; https://doaj.org/toc/1471-2164

URL الوصول: https://doaj.org/article/5984d6e6c6b848b3a60cb709a4d98e74

المؤلفون: Lefébure, Tristan, Morvan, Claire, Malard, Florian, François, Clémentine, Konecny-Dupré, Lara, Guéguen, Laurent, Weiss-Gayet, Michèle, Seguin-Orlando, Andaine, Ermini, Luca, Sarkissian, Clio Der, Charrier, N. Pierre, Eme, David, Mermillod-Blondin, Florian, Duret, L., Vieira, Cristina, Orlando, Ludovic, Douady, Christophe Jean

المساهمون: Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés (LEHNA), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Centre National de la Recherche Scientifique (CNRS), Bioinformatique, phylogénie et génomique évolutive LBBE (BPGE), Département PEGASE LBBE (PEGASE), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Institut NeuroMyoGène (INMG), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Section for GeoGenetics, Globe Institute, Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale (ERABLE), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), Institut universitaire de France (IUF), Ministère de l'Education nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.), Eléments transposables, évolution, populations LBBE, Département génétique, interactions et évolution des génomes LBBE (GINSENG), Anthropologie Moléculaire et Imagerie de Synthèse (AMIS), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), IN2P3, ANR-15-CE32-0005,CONVERGENOMIX,Etude intégrée de la convergence génomique au sein de trois groupes d'espèces(2015)

المصدر: ISSN: 1088-9051.

مصطلحات موضوعية: selection efficacy, Genome size, effective population size, Asellidae, groundwater, transposable elements, [SDE]Environmental Sciences

الاتاحة: https://inria.hal.science/hal-01544879
https://inria.hal.science/hal-01544879v2/document
https://inria.hal.science/hal-01544879v2/file/GenomeSize_57.pdf
https://doi.org/10.1101/gr.212589.116

المؤلفون: Hong Wang, Li Zhong, Zhikun Wu, Xin‐Jia Wang, Wei Zhou, Spencer C. H. Barrett, De-Zhu Li

المصدر: Molecular Biology and Evolution

مصطلحات موضوعية: 0106 biological sciences, Nonsynonymous substitution, deleterious mutations, Outcrossing, Flowers, Self-Fertilization, Biology, AcademicSubjects/SCI01180, 01 natural sciences, Evolution, Molecular, 03 medical and health sciences, Effective population size, Molecular evolution, Genetics, mating system, Heterostyly, Selection, Genetic, Genome, Chloroplast, Molecular Biology, Silent Mutation, Discoveries, Ecology, Evolution, Behavior and Systematics, 030304 developmental biology, 0303 health sciences, Genetic diversity, AcademicSubjects/SCI01130, Selfing, selection efficacy, Mating system, Primula, Evolutionary biology, effective population size, 010606 plant biology & botany

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2436eb3560187eb7d4407424ebbfd0d9
https://doi.org/10.1093/molbev/msaa199

المؤلفون: Guy, Oldrieve, Mylène, Verney, Kamil S, Jaron, Laurent, Hébert, Keith R, Matthews

المصدر: Microbial Genomics

مصطلحات موضوعية: Trypanosoma, asexual, Genotype, DNA, Kinetoplast, Trypanosoma brucei brucei, Short Communications, Pathogens and Epidemiology, selection efficacy, Polymorphism, Single Nucleotide, Chromosomes, Trypanosomiasis, parasitic diseases, Africa, monomorphism, Animals, Horses, Trypanosoma brucei, Phylogeny

URL الوصول: https://explore.openaire.eu/search/publication?articleId=pmid________::ee4030a378647b2e6c58909b2e8411e7
https://pubmed.ncbi.nlm.nih.gov/34397347

المؤلفون: Laurent Hébert, Guy Oldrieve, Mylène Verney, Kamil S. Jaron, Keith R. Matthews

المصدر: Oldrieve, G, Verney, M, Jaron, K S, Hébert, L & Matthews, K R 2021, ' Monomorphic trypanozoon : Towards reconciling phylogeny and pathologies ', Microbial Genomics, vol. 7, no. 8 . https://doi.org/10.1099/mgen.0.000632

مصطلحات موضوعية: asexual, biology, Lineage (evolution), selection efficacy, General Medicine, Trypanosoma brucei, Subspecies, biology.organism_classification, Phylogenetics, Evolutionary biology, Kinetoplast, Polyphyly, monomorphism, parasitic diseases, Subgenus, Clade, trypanosoma brucei

وصف الملف: application/pdf

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::65cb360fa0bf3c96e0a4e242b1c29ef6
https://doi.org/10.1099/mgen.0.000632

المؤلفون: Jeffrey Ross-Ibarra, Aline Muyle, Danelle K. Seymour, Brandon S. Gaut

المساهمون: Wright, S

المصدر: Genetics
Genetics, vol 218, iss 2

مصطلحات موضوعية: Developmental and Behavioral Genetics, AcademicSubjects/SCI01140, AcademicSubjects/SCI00010, Population, Arabidopsis, Datasets as Topic, Population genetics, Biology, Genes, Plant, AcademicSubjects/SCI01180, Epigenesis, Genetic, Cytosine, 03 medical and health sciences, 0302 clinical medicine, Genetic, Gene Expression Regulation, Plant, Genetics, Epigenetics, Selection, Genetic, Allele, education, Selection, Population and Evolutionary Genetics, Gene, Alleles, 030304 developmental biology, 0303 health sciences, education.field_of_study, DNA methylation, Gene Expression Profiling, Human Genome, Plant, selection efficacy, Methylation, Featured, Plant Leaves, Gene Expression Regulation, Genes, Site frequency spectrum, Codon usage bias, gene expression, AcademicSubjects/SCI00960, 030217 neurology & neurosurgery, Epigenesis, Biotechnology, Developmental Biology

وصف الملف: application/pdf

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f386277f97039145ee94af8dbf6300f9
https://doi.org/10.1093/genetics/iyab061

المؤلفون: Lopez, Marie

المساهمون: Génétique Evolutive Humaine - Human Evolutionary Genetics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, Lluis Quintana-Murci

المصدر: Génétique des populations [q-bio.PE]. Sorbonne Université, 2018. Français. ⟨NNT : 2018SORUS605⟩

مصطلحات موضوعية: Pygmées, Pygmies, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE], Population genetics, Natural selection, Polygenic selection, Sélection naturelle, Negative selection, Sélection positive, Sélection polygénique, Afrique, Efficacité de la sélection, Génétique des populations, Africa, Selection efficacy, Sélection négative, Positive Selection

URL الوصول: https://explore.openaire.eu/search/publication?articleId=od______2592::1ea46618aa08ef44cdfd920dc9caa868
https://tel.archives-ouvertes.fr/tel-02968134/document

المؤلفون: Lopez, Marie

المساهمون: Génétique Evolutive Humaine - Human Evolutionary Genetics, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, Lluis Quintana-Murci, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)

المصدر: Génétique des populations [q-bio.PE]. Sorbonne Université, 2018. Français. ⟨NNT : 2018SORUS605⟩

مصطلحات موضوعية: Pygmées, Pygmies, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE], Population genetics, Natural selection, Polygenic selection, Sélection naturelle, Negative selection, Sélection positive, Sélection polygénique, Afrique, Efficacité de la sélection, Génétique des populations, Africa, Selection efficacy, Sélection négative, Positive Selection

URL الوصول: https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::1ea46618aa08ef44cdfd920dc9caa868
https://theses.hal.science/tel-02968134/document

المؤلفون: Lopez, Marie

المساهمون: Génétique Evolutive Humaine - Human Evolutionary Genetics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS), Sorbonne Université, Lluis Quintana-Murci

المصدر: https://theses.hal.science/tel-02968134 ; Génétique des populations [q-bio.PE]. Sorbonne Université, 2018. Français. ⟨NNT : 2018SORUS605⟩.

مصطلحات موضوعية: Population genetics, Natural selection, Negative selection, Positive Selection, Pygmies, Africa, Selection efficacy, Polygenic selection, Génétique des populations, Sélection naturelle, Sélection négative, Sélection positive, Pygmées, Afrique, Efficacité de la sélection, Sélection polygénique, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE]

Relation: NNT: 2018SORUS605

الاتاحة: https://theses.hal.science/tel-02968134
https://theses.hal.science/tel-02968134v1/document
https://theses.hal.science/tel-02968134v1/file/LOPEZ_Marie_2018.pdf

المؤلفون: Lopez, Marie

المساهمون: Sorbonne université, Quintana-Murci, Lluis

مصطلحات موضوعية: Génétique des populations, Sélection naturelle, Sélection négative, Sélection positive, Pygmées, Afrique, Efficacité de la sélection, Sélection polygénique, Population genetics, Natural selection, Negative selection, Positive Selection, Pygmies, Africa, Selection efficacy, Polygenic selection, 579.13

Relation: http://www.theses.fr/2018SORUS605/document

الاتاحة: http://www.theses.fr/2018SORUS605/document

المؤلفون: Tristan Lefébure, Luca Ermini, Lara Konecny-Dupré, Andaine Seguin-Orlando, Cristina Vieira, Clio Der Sarkissian, David Eme, Laurent Guéguen, Ludovic Orlando, Clémentine M. Francois, Florian Mermillod-Blondin, N. Pierre Charrier, Christophe J. Douady, Claire Morvan, Michèle Weiss-Gayet, Laurent Duret, Florian Malard

المساهمون: Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés (LEHNA), Institut National de la Recherche Agronomique (INRA) - Université Claude Bernard Lyon 1 (UCBL) - École Nationale des Travaux Publics de l'État (ENTPE) - Centre National de la Recherche Scientifique (CNRS), Laboratoire de Biométrie et Biologie Evolutive (LBBE), Université Claude Bernard Lyon 1 (UCBL) - Institut National de Recherche en Informatique et en Automatique (Inria) - Centre National de la Recherche Scientifique (CNRS), Institut NeuroMyoGène (INMG), Université Claude Bernard Lyon 1 (UCBL) - Université de Lyon - Institut National de la Santé et de la Recherche Médicale (INSERM) - Centre National de la Recherche Scientifique (CNRS), Centre for Geogenetics, Natural History Museum of Denmark - University of Copenhagen (KU), Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale (ERABLE), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria) - Institut National de Recherche en Informatique et en Automatique (Inria), Institut Universitaire de France (IUF), Ministère de l'Éducation nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.), Laboratoire d’Anthropobiologie Moléculaire et d’Imagerie de Synthèse, Université de Toulouse, University Paul Sabatier, CNRS UMR 5288, Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Centre National de la Recherche Scientifique (CNRS), Bioinformatique, phylogénie et génomique évolutive (BPGE), Département PEGASE [LBBE] (PEGASE), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), Section for GeoGenetics, Globe Institute, Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), Ministère de l'Education nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.), Eléments transposables, évolution, populations, Département génétique, interactions et évolution des génomes [LBBE] (GINSENG), Anthropologie Moléculaire et Imagerie de Synthèse (AMIS), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), IN2P3, Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE), University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Sagot, Marie-France, Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)

المصدر: Genome Research
Genome Research, Cold Spring Harbor Laboratory Press, 2017, <10.1101/gr.212589.116>
Genome Research, Cold Spring Harbor Laboratory Press, 2017, 27, pp.1016-1028. ⟨10.1101/gr.212589.116⟩
Genome Research, 2017, 27, pp.1016-1028. ⟨10.1101/gr.212589.116⟩
Lefébure, T, Morvan, C, Malard, F, François, C, Konecny-Dupré, L, Guéguen, L, Weiss-Gayet, M, Seguin-Orlando, A, Ermini, L, Der Sarkissian, C, Charrier, N P, Eme, D, Mermillod-Blondin, F, Duret, L, Vieira, C, Orlando, L A A & Douady, C J 2017, ' Less effective selection leads to larger genomes ', Genome Research, vol. 27, no. 6, pp. 1016-1028 . https://doi.org/10.1101/gr.212589.116

مصطلحات موضوعية: 0106 biological sciences, 0301 basic medicine, Transposable element, [SDE] Environmental Sciences, Genome size, Genetic Speciation, Biology, 010603 evolutionary biology, 01 natural sciences, Genome, Life history theory, 03 medical and health sciences, Negative selection, Effective population size, Phylogenetics, Decapoda, groundwater, Genetics, Asellidae, Animals, Selection, Genetic, Phylogeny, Genetics (clinical), Selection (genetic algorithm), Polymorphism, Genetic, Research, High-Throughput Nucleotide Sequencing, selection efficacy, [SDV] Life Sciences [q-bio], 030104 developmental biology, Mollusca, [SDE]Environmental Sciences, transposable elements, Transcriptome, effective population size, Isopoda, Microsatellite Repeats

وصف الملف: application/pdf

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e67909cf3e9b2f2264eb31ae9c82a7b7
https://hal.inria.fr/hal-01524872/file/GenomeSize_57.pdf

المؤلفون: Muyle, Aline, Martin, Hélène, Zemp, Niklaus, Mollion, Maleva, Gallina, Sophie, Tavares, Raquel, Silva, Alexandre, Bataillon, Thomas, Glemin, Sylvain, Touzet, Pascal, Marais, Gabriel A.B.

المساهمون: Repositório da Universidade de Lisboa

مصطلحات موضوعية: sexual systems, selection efficacy, Allee effect, population genetics, RNA-seq, angiosperms

وصف الملف: application/pdf

Relation: Mol. Biol. Evol., Advance Access publication September 14, 2020

الاتاحة: http://hdl.handle.net/10400.5/21893

المؤلفون: 張筱涵, Hsiao-Han Chang

المساهمون: 丁照棣, 汪宏達, Chau-Ti Ting, Horng-Dar Wang

مصطلحات موضوعية: 重組, 果蠅, 選汰效率, 新性染色體, recombination, Drosophila, selection efficacy, neo-sex chromosomes

Time: 36

وصف الملف: 155 bytes; text/html

Relation: References Akashi, H. 1994. Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy. Genetics 136:927-935. Almeida, L. M., M. E. Amaral, I. T. Silva, W. A. Silva, Jr., P. K. Riggs, and C. M. Carareto. 2008. Report of a chimeric origin of transposable elements in a bovine-coding gene. Genet Mol Res 7:107-116. Aquadro, C. F., D. J. Begun, and E. C. Kindahl. 1994. Selection, recombination, and DNA polymorphism in Drosophila. Pp. 46–56 in B. Golding, ed. Non-neutral evolution: theories and molecular data. Chapman and Hall, N.Y. Arnheim, N., P. Calabrese, and M. Nordborg. 2003. Hot and cold spots of recombination in the human genome: the reason we should find them and how this can be achieved. Am J Hum Genet 73:5-16. Ashburner M., 1989. Drosophila: a laboratory handbook. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. Bachtrog, D. 2003a. Accumulation of Spock and Worf, two novel non-LTR retrotransposons, on the neo-Y chromosome of Drosophila miranda. Mol Biol Evol 20:173-181. Bachtrog, D. 2003b. Adaptation shapes patterns of genome evolution on sexual and asexual chromosomes in Drosophila. Nat Genet 34:215-219. Bachtrog, D. 2004. Evidence that positive selection drives Y-chromosome degeneration in Drosophila miranda. Nat Genet 36:518-522. Bachtrog, D. 2005. Sex chromosome evolution: molecular aspects of Y-chromosome degeneration in Drosophila. Genome Res 15:1393-1401. Bachtrog, D. 2006a. Expression profile of a degenerating neo-Y chromosome in Drosophila. Curr Biol 16:1694-1699. Bachtrog, D. 2006b. The speciation history of the Drosophila nasuta complex. Genet Res 88:13-26. 50 Bachtrog, D., and B. Charlesworth. 2000. Reduced levels of microsatellite variability on the neo-Y chromosome of Drosophila miranda. Curr Biol 10:1025-1031. Bachtrog, D., and B. Charlesworth. 2002. Reduced adaptation of a non-recombining neo-Y chromosome. Nature 416:323-326. Bachtrog, D., E. Hom, K. M. Wong, X. Maside, and P. de Jong. 2008. Genomic degradation of a young Y chromosome in Drosophila miranda. Genome Biol 9:R30. Bartolome, C., and B. Charlesworth. 2006. Evolution of amino-acid sequences and codon usage on the Drosophila miranda neo-sex chromosomes. Genetics 174:2033-2044. Begun, D. J., and C. F. Aquadro. 1992. Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster. Nature 356:519-520. Begun, D. J., A. K. Holloway, K. Stevens et al. (13 co-authors) 2007. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biol 5:e310. Begun, D. J., and P. Whitley. 2000. Reduced X-linked nucleotide polymorphism in Drosophila simulans. Proc Natl Acad Sci U S A 97:5960-5965. Bergman, C. M., H. Quesneville, D. Anxolabehere, and M. Ashburner. 2006. Recurrent insertion and duplication generate networks of transposable element sequences in the Drosophila melanogaster genome. Genome Biol 7:R112. Betancourt, A. J., and D. C. Presgraves. 2002. Linkage limits the power of natural selection in Drosophila. Proc Natl Acad Sci U S A 99:13616-13620. Bhutkar, A., S. Russo, T. F. Smith, and W. M. Gelbart. 2006. Techniques for multi-genome synteny analysis to overcome assembly limitations. Genome Inform 17:152-161. Birky, C. W., Jr., and J. B. Walsh. 1988. Effects of linkage on rates of molecular 51 evolution. Proc Natl Acad Sci U S A 85:6414-6418. Broman, K. W., J. C. Murray, V. C. Sheffield, R. L. White, and J. L. Weber. 1998. Comprehensive human genetic maps: individual and sex-specific variation in recombination. Am J Hum Genet 63:861-869. Bulmer, M. 1991. The selection-mutation-drift theory of synonymous codon usage. Genetics 129:897-907. Caballero, A. 1994. Developments in the prediction of effective population size. Heredity 73:657-679. Caballero, A. 1995. On the effective size of populations with separate sexes, with particular reference to sex-linked genes. Genetics 139:1007-1011. Carlini, D. B., Y. Chen, and W. Stephan. 2001. The relationship between third-codon position nucleotide content, codon bias, mRNA secondary structure and gene expression in the drosophilid alcohol dehydrogenase genes Adh and Adhr. Genetics 159:623-633. Carlini, D. B., and W. Stephan. 2003. In vivo introduction of unpreferred synonymous codons into the Drosophila Adh gene results in reduced levels of ADH protein. Genetics 163:239-243. Carvalho, A. B., and A. G. Clark. 1999. Intron size and natural selection. Nature 401:344. Carvalho, A. B., B. A. Dobo, M. D. Vibranovski, and A. G. Clark. 2001. Identification of five new genes on the Y chromosome of Drosophila melanogaster. Proc Natl Acad Sci U S A 98:13225-13230. Carvalho, A. B., B. P. Lazzaro, and A. G. Clark. 2000. Y chromosomal fertility factors kl-2 and kl-3 of Drosophila melanogaster encode dynein heavy chain polypeptides. Proc Natl Acad Sci U S A 97:13239-13244. Castillo-Davis, C. I., S. L. Mekhedov, D. L. Hartl, E. V. Koonin, and F. A. Kondrashov. 2002. Selection for short introns in highly expressed genes. Nat 52 Genet 31:415-418. Chang, H., and F.-J. Lin. 1995. The interaction between chromosomal inversion and recessive lethals in Drosophila albomicans. Zool. Studies 34:47-54. Chang, H., D. G. Wang, and F. J. Ayala. 1989. Mitochondrial DNA evolution in the Drosophila nasuta subgroup of species. J Mol Evol 28:337-348. Chang, T.-P., T.-H. Tsai, and H. Chang. 2008. Fusions of Muller’s elements during the chromosome evolution of Drosophila albomicans. Zool. Studies. (in press) Chang, T.-P. 2008. Evolution of neo-sex chromosomes in Drosophila albomicans. Graduate Institute of Entomology, National Taiwan University, Taiwan, ROC. (Ph.D. thesis, in Chinese) Chao, L., T. T. Tran, and T. T. Tran. 1997. The advantage of sex in the RNA virus phi6. Genetics 147:953-959. Charlesworth, B. 1996. The evolution of chromosomal sex determination and dosage compensation. Curr Biol 6:149-162. Charlesworth, B. 1994. The effect of background selection against deleterious mutations on weakly selected, linked variants. Genet Res 63:213-227. Charlesworth, B., and D. Charlesworth. 2000. The degeneration of Y chromosomes. Philos Trans R Soc Lond B Biol Sci 355:1563-1572. Charlesworth, B., D. Charlesworth, J. Hnilicka, A. Yu, and D. S. Guttman. 1997. Lack of degeneration of loci on the neo-Y chromosome of Drosophila americana americana. Genetics 145:989-1002. Charlesworth, B., and C. H. Langley. 1989. The population genetics of Drosophila transposable elements. Annu Rev Genet 23:251-287. Charlesworth, B., M. T. Morgan, and D. Charlesworth. 1993. The effect of deleterious mutations on neutral molecular variation. Genetics 134:1289-1303. Comeron, J. M., and M. Kreitman. 2002. Population, evolutionary and genomic consequences of interference selection. Genetics 161:389-410. 53 Davis, M. B., J. Dietz, D. M. Standiford, and C. P. Emerson, Jr. 1998. Transposable element insertions respecify alternative exon splicing in three Drosophila myosin heavy chain mutants. Genetics 150:1105-1114. Dietrich, W. F., J. Miller, R. Steen, M. A. Merchant, D. Damron-Boles, Z. Husain, R. Dredge, M. J. Daly, K. A. Ingalls, and T. J. O'Connor. 1996. A comprehensive genetic map of the mouse genome. Nature 380:149-152. Duan, J., M. S. Wainwright, J. M. Comeron, N. Saitou, A. R. Sanders, J. Gelernter, and P. V. Gejman. 2003. Synonymous mutations in the human dopamine receptor D2 (DRD2) affect mRNA stability and synthesis of the receptor. Hum Mol Genet 12:205-216. Duret, L., G. Marais, and C. Biemont. 2000. Transposons but not retrotransposons are located preferentially in regions of high recombination rate in Caenorhabditis elegans. Genetics 156:1661-1669. Felsenstein, J. 1974. The evolutionary advantage of recombination. Genetics 78:737-756. Filatov, D. A., F. Moneger, I. Negrutiu, and D. Charlesworth. 2000. Low variability in a Y-linked plant gene and its implications for Y-chromosome evolution. Nature 404:388-390. Finnegan, D. J. 1992. Transposable elements. Curr Opin Genet Dev 2:861-867. Fontanillas, P., D. L. Hartl, and M. Reuter. 2007. Genome organization and gene expression shape the transposable element distribution in the Drosophila melanogaster euchromatin. PLoS Genet 3:e210. Fu, Y. X., and W. H. Li. 1993. Statistical tests of neutrality of mutations. Genetics 133:693-709. Gerrard, D.T., and D.A. Filatov. 2005. Positive and negative selection on mammalian Y chromosomes. Mol Biol Evol 22:1423-1432. Goldman, A. S., and M. Lichten. 1996. The efficiency of meiotic recombination 54 between dispersed sequences in Saccharomyces cerevisiae depends upon their chromosomal location. Genetics 144:43-55. Goldman, N., and Z. Yang. 1994. A codon-based model of nucleotide substitution for protein-coding DNA sequences. Mol Biol Evol 11:725-736. Haddrill, P. R., D. L. Halligan, D. Tomaras, and B. Charlesworth. 2007. Reduced efficacy of selection in regions of the Drosophila genome that lack crossing over. Genome Biol 8:R18. Hasegawa, M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 22:160-174. Hawley, R. S. 1988. Exchange and chromosomal segregation in eukaryotes. Pp. 497-527 in R. Kuchewati and G . R. Smitha, eds. Genetic Recombination. American Society for Microbiology, Washington, DC. Heger, A., and C. P. Ponting. 2007. Evolutionary rate analyses of orthologs and paralogs from 12 Drosophila genomes. Genome Res 17:1837-1849. Hellborg, L., and H. Ellegren. 2004. Low levels of nucleotide diversity in mammalian Y chromosomes. Mol Biol Evol 21:158-163. Hey, J. 1998. Selfish genes, pleiotropy and the origin of recombination. Genetics 149:2089-2097. Hey, J., and R. M. Kliman. 2002. Interactions between natural selection, recombination and gene density in the genes of Drosophila. Genetics 160:595-608. Higgins, D.G., A.J. Bleasby, and R. Fuchs. 1991. CLUSTAL V: improved software for multiple sequence alignment. CABIOS. 8:189-191. Hill, W. G., and A. Robertson. 1966. The effect of linkage on limits to artificial selection. Genet Res 8:269-294. Hobza, R., M. Lengerova, J. Svoboda, H. Kubekova, E. Kejnovsky, and B. Vyskot. 2006. An accumulation of tandem DNA repeats on the Y chromosome in 55 Silene latifolia during early stages of sex chromosome evolution. Chromosoma 115:376-382. Hudson, R. R., and N. L. Kaplan. 1995. Deleterious background selection with recombination. Genetics 141:1605-1617. Izban, M. G., and D. S. Luse. 1992. Factor-stimulated RNA polymerase II transcribes at physiological elongation rates on naked DNA but very poorly on chromatin templates. J Biol Chem 267:13647-13655. Jeffreys, A. J., J. K. Holloway, L. Kauppi, C. A. May, R. Neumann, M. T. Slingsby, and A. J. Webb. 2004. Meiotic recombination hot spots and human DNA diversity. Philos Trans R Soc Lond B Biol Sci 359:141-152. Kaplan, N. L., R. R. Hudson, and C. H. Langley. 1989. The "hitchhiking effect" revisited. Genetics 123:887-899. Kauppi, L., A. J. Jeffreys, and S. Keeney. 2004. Where the crossovers are: recombination distributions in mammals. Nat Rev Genet 5:413-424. Keightley, P. D., and S. P. Otto. 2006. Interference among deleterious mutations favours sex and recombination in finite populations. Nature 443:89-92. Kejnovsky, E., Z. Kubat, R. Hobza, M. Lengerova, S. Sato, S. Tabata, K. Fukui, S. Matsunaga, and B. Vyskot. 2006. Accumulation of chloroplast DNA sequences on the Y chromosome of Silene latifolia. Genetica 128:167-175. Kim, Y., and W. Stephan. 2000. Joint effects of genetic hitchhiking and background selection on neutral variation. Genetics 155:1415-1427. Kimura, M. 1983. The neutral theory of molecular evolution. Cambridge University Press, Cambridge, MA. Kliman, R. M., and J. Hey. 1993. Reduced natural selection associated with low recombination in Drosophila melanogaster. Mol Biol Evol 10:1239-1258. Kondrashov, A. S. 1988. Deleterious mutations and the evolution of sexual reproduction. Nature 336:435-440. 56 Kong, A., D. F. Gudbjartsson, J. Sainz et al. (16 co-authors) 2002. A high-resolution recombination map of the human genome. Nat Genet 31:241-247. Krawchuk, M. D. and W. P. Wahls. 1999. Centromere mapping functions for aneuploid meiotic products: analysis of rec8, rec10, and rec11 mutants of the fission yeast Schizosaccharomyces pombe. Genetics 153:49-55. Langley, C. H., R. A. Voelker, A. J. Brown, S. Ohnishi, B. Dickson, and E. Montgomery. 1981. Null allele frequencies at allozyme loci in natural populations of Drosophila melanogaster. Genetics 99:151-156. Leslie, J. F., and R. C. Vrijenhoek. 1978. Genetic Dissection of Clonally Inherited Genomes of Poeciliopsis. I. Linkage Analysis and Preliminary Assessment of Deleterious Gene Loads. Genetics 90:801-811. Lynch, M., and J. L. Blanchard. 1998. Deleterious mutation accumulation in organelle genomes. Genetica 102-103:29-39. Macknight, R. H. 1939. The Sex-Determining Mechanism of Drosophila Miranda. Genetics 24:180-201. Marais, G., D. Mouchiroud, and L. Duret. 2001. Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes. Proc Natl Acad Sci U S A 98:5688-5692. Marais, G. A., M. Nicolas, R. Bergero, P. Chambrier, E. Kejnovsky, F. Moneger, R. Hobza, A. Widmer, and D. Charlesworth. 2008. Evidence for degeneration of the Y chromosome in the dioecious plant Silene latifolia. Curr Biol 18:545-549. McAllister, B. F., and B. Charlesworth. 1999. Reduced sequence variability on the Neo-Y chromosome of Drosophila americana americana. Genetics 153:221-233. McDonald, J. H., and M. Kreitman. 1991. Adaptive protein evolution at the Adh locus in Drosophila. Nature 351:652-654. 57 Medstrand, P., L. N. van de Lagemaat, and D. L. Mager. 2002. Retroelement distributions in the human genome: variations associated with age and proximity to genes. Genome Res 12:1483-1495. Molnar, M., J. Bahler, M. Sipiczki, and J. Kohli. 1995. The rec8 gene of Schizosaccharomyces pombe is involved in linear element formation, chromosome pairing and sister-chromatid cohesion during meiosis. Genetics 141:61-73. Montgomery, E., B. Charlesworth, and C. H. Langley. 1987. A test for the role of natural selection in the stabilization of transposable element copy number in a population of Drosophila melanogaster. Genet Res 49:31-41. Montgomery, E. A., S. M. Huang, C. H. Langley, and B. H. Judd. 1991. Chromosome rearrangement by ectopic recombination in Drosophila melanogaster: genome structure and evolution. Genetics 129:1085-1098. Morgan, T. H. 1914. No crossing over in the male of Drosophila of genes in the second and third pairs of chromosomes. Biol. Bull. Wood’s Hole 26:195-204. Morton, B. R. 1993. Chloroplast DNA codon use: evidence for selection at the psb A locus based on tRNA availability. J Mol Evol 37:273-280. Negrutiu, I., B. Vyskot, N. Barbacar, S. Georgiev, and F. Moneger. 2001. Dioecious plants. A key to the early events of sex chromosome evolution. Plant Physiol 127:1418-1424. Nei, M. 1987. Molecular Evolutionary Genetics. Columbia University Press, N.Y. Nunney, L. 1993. The influence of mating system and overlapping generations on effective population size. Evolution 47:1329-1341. Presgraves, D. C. 2005. Recombination enhances protein adaptation in Drosophila melanogaster. Curr Biol 15:1651-1656. Rannala, B., and Z. Yang. 1996. Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J Mol Evol 43:304-311. 58 Rice, W. R. 1994. Degeneration of a nonrecombining chromosome. Science 263:230-232. Rice, W. R. 1996. Evolution of the Y sex chromosome in animals. BioScience 46:331-343. Rice, W. R., and A. K. Chippindale. 2001. Sexual recombination and the power of natural selection. Science 294:555-559. Rizzon, C., G. Marais, M. Gouy, and C. Biemont. 2002. Recombination rate and the distribution of transposable elements in the Drosophila melanogaster genome. Genome Res 12:400-407. Rozas, J., J. C. Sanchez-DelBarrio, X. Messeguer, and R. Rozas. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19:2496-2497. Russo, C., N. Takezaki, and M. Nei. 1995. Molecular phylogeny and divergence time of drosophilid species. Mol Biol Evol 12:391-404. Sharp, P. M., and W. H. Li. 1986. An evolutionary perspective on synonymous codon usage in unicellular organisms. J Mol Evol 24:28-38. Sherman, S. L., M. B. Peterson, S. B. Freeman, J. Hersey, D. Pettay, L. Taft, M. Frantzen, M. Mikkelsen, and T. J. Hassold. 1994. Non-disjunction of chromosome 21 in maternal meiosis I: evidence for a maternal age-dependent mechanism involving reduced recombination. Hum. Mol. Genet. 3:1529-1535. Shields, D. C., P. M. Sharp, D. G. Higgins, and F. Wright. 1988. "Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons. Mol Biol Evol 5:704-716. Shifman, S., J. T. Bell, R. R. Copley, M. S. Taylor, R. W. Williams, R. Mott, and J. Flint. 2006. A high-resolution single nucleotide polymorphism genetic map of the mouse genome. PLoS Biol 4:e395. Singh, N. D., P. F. Arndt, and D. A. Petrov. 2005. Genomic heterogeneity of 59 background substitutional patterns in Drosophila melanogaster. Genetics 169:709-722. Skaletsky, H., T. Kuroda-Kawaguchi, P. J. Minx et al. (40 co-authors) 2003. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature 423:825-837. Smith, J. M., and J. Haigh. 1974. The hitch-hiking effect of a favourable gene. Genet Res 23:23-35. Steinemann, M., and S. Steinemann. 1991. Preferential Y chromosomal location of TRIM, a novel transposable element of Drosophila miranda, obscura group. Chromosoma 101:169-179. Steinemann, M., and S. Steinemann. 1992. Degenerating Y chromosome of Drosophila miranda: a trap for retrotransposons. Proc Natl Acad Sci U S A 89:7591-7595. Steinemann, M., and S. Steinemann. 1997. The enigma of Y chromosome degeneration: TRAM, a novel retrotransposon is preferentially located on the neo-Y chromosome of Drosophila miranda. Genetics 145:261-266. Steinemann, M., S. Steinemann., and F. Lottspeich. 1993. How Y chromosomes become genetically inert. Proc Natl Acad Sci U S A 90:5737-5741. Tajima, F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585-595. Throckmorton, L. H. 1982. The virilis species group. Pp. 227–296 in M. Ashburner, H. L. Carson, and J. N. Thompson, Jr., eds. The genetics and biology of Drosophila, Vol. 3b. Academic Press, N.Y. Tsai, T.-H. 2008. Phylogeny of Drosophila albomicans chromosomes. Graduate Institute of Entomology, National Taiwan University, Taiwan, ROC. (Master's thesis) Virgin, J. B., and J. P. Bailey. 1998. The M26 hotspot of Schizosaccharomyces pombe 60 stimulates meiotic ectopic recombination and chromosomal rearrangements. Genetics 149:1191-1204. Wang, R. L., and J. Hey. 1996. The speciation history of Drosophila pseudoobscura and close relatives: inferences from DNA sequence variation at the period locus. Genetics 144:1113-1126. Watterson, G. A. 1975. On the number of segregating sites in genetical models without recombination. Theor Popul Biol 7:256-276. Wright, F. 1990. The 'effective number of codons' used in a gene. Gene 87:23-29. Wright, S. I., N. Agrawal, and T. E. Bureau. 2003. Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana. Genome Res 13:1897-1903. Yang, Z., and R. Nielsen. 2000. Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol Biol Evol 17:32-43. Yang, Z., and B. Rannala. 1997. Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo Method. Mol Biol Evol 14:717-724. Yu, Y. C., F. J. Lin, and H. Chang. 1999. Stepwise chromosome evolution in Drosophila albomicans. Heredity 83:39-45. Zurovcova, M., and W. F. Eanes. 1999. Lack of nucleotide polymorphism in the Y-linked sperm flagellar dynein gene Dhc-Yh3 of Drosophila melanogaster and D. simulans. Genetics 153:1709-1715.; http://nthur.lib.nthu.edu.tw/dspace/handle/987654321/32975

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المؤلفون: Muyle, Aline, Martin, Hélène, Zemp, Niklaus, Mollion, Maéva, Gallina, Sophie, Tavares, Raquel, Silva, Alexandre, Bataillon, Thomas, Widmer, Alex, Glémin, Sylvain, Touzet, Pascal, Marais, Gabriel A.B.

مصطلحات موضوعية: Allee effect, population genetics, selection efficacy, 15. Life on land, RNA-seq, angiosperms, sexual systems

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_________::ce303824c04b8cde01c7e2e00a735ef9

المؤلفون: Naidoo, Thijessen, Sjödin, Per, Schlebusch, Carina, Jakobsson, Mattias

مصطلحات الفهرس: Regulatory regions, Purifying selection, Selection efficacy, Non-coding DNA, Functional elements, Population genetics, Genetics, Genetik, Developmental Biology, Utvecklingsbiologi, Article in journal, info:eu-repo/semantics/article, text

URL: http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-343792
BMC Genomics, 2018, 19