Subject: Molecular Biology and Evolution Table of Contents for January 2020 ------=_Part_312453613.1580441231303 Content-Type: text/plain;charset=UTF-8 Oxford Academic *** Molecular Biology and Evolution *** Volume 37, Issue 1, 1 January 2020 Read this issue (https://academic.oup.com/mbe/issue/37/1) ============================= Editorial ============================MBE Emerging Classics 2020 Sudhir Kumar, Heather Rowe (https://academic.oup.com/mbe/article/37/1/1/5680518) ============================= Review ============================Legacy Data Confound Genomics Studies Luke Anderson-Trocmé, Rick Farouni, Mathieu Bourgey, Yoichiro Kamatani, Koichiro Higasa (https://academic.oup.com/mbe/article/37/1/2/5556817) ============================= Perspective ============================Improving Cancer Drug Discovery by Studying Cancer across the Tree of Life Jason A Somarelli, Amy M Boddy, Heather L Gardner, Suzanne Bartholf DeWitt, Joanne Tuohy (https://academic.oup.com/mbe/article/37/1/11/5613170) ============================= Discoveries ============================Discovery of Novel Sequences in 1,000 Swedish Genomes Jesper Eisfeldt, Gustaf Mårtensson, Adam Ameur, Daniel Nilsson, Anna Lindstrand (https://academic.oup.com/mbe/article/37/1/18/5555682) Phylogenetic Shifts in Gene Body Methylation Correlate with Gene Expression and Reflect Trait Conservation Danelle K Seymour, Brandon S Gaut (https://academic.oup.com/mbe/article/37/1/31/5555419) Ancient Mitochondrial Gene Transfer between Fungi and the Orchids Brandon T Sinn, Craig F Barrett (https://academic.oup.com/mbe/article/37/1/44/5556297) Stochastic Gene Expression Influences the Selection of Antibiotic Resistance Mutations Lei Sun, Peter Ashcroft, Martin Ackermann, Sebastian Bonhoeffer (https://academic.oup.com/mbe/article/37/1/58/5556819) Can the RNA World Still Function without Cytidine? Andrew S Tupper, Ralph E Pudritz, Paul G Higgs (https://academic.oup.com/mbe/article/37/1/71/5559277) Adaptive Radiation of the Flukes of the Family Fasciolidae Inferred from Genome-Wide Comparisons of Key Species Young-Jun Choi, Santiago Fontenla, Peter U Fischer, Thanh Hoa Le, Alicia Costábile (https://academic.oup.com/mbe/article/37/1/84/5566252) Evolutionary History of GLIS Genes Illuminates Their Roles in Cell Reprograming and Ciliogenesis Yuuri Yasuoka, Masahito Matsumoto, Ken Yagi, Yasushi Okazaki (https://academic.oup.com/mbe/article/37/1/100/5561102) Gene Expression Modularity Reveals Footprints of Polygenic Adaptation in Theobroma cacao Tuomas Hämälä, Mark J Guiltinan, James H Marden, Siela N Maximova, Claude W dePamphilis (https://academic.oup.com/mbe/article/37/1/110/5566251) Archaeal Ribosomal Proteins Possess Nuclear Localization Signal-Type Motifs: Implications for the Origin of the Cell Nucleus Sergey Melnikov, Hui-Si Kwok, Kasidet Manakongtreecheep, Antonia van den Elzen, Carson C Thoreen (https://academic.oup.com/mbe/article/37/1/124/5566250) Genomic and Phenotypic Analyses Reveal Mechanisms Underlying Homing Ability in Pigeon Yong Shao, Hang-Yu Tian, Jing-Jing Zhang, Hamed Kharrati-Koopaee, Xing Guo (https://academic.oup.com/mbe/article/37/1/134/5566491) "Lost and Found": snoRNA Annotation in the Xenopus Genome and Implications for Evolutionary Studies Svetlana Deryusheva, Gaëlle J S Talhouarne, Joseph G Gall (https://academic.oup.com/mbe/article/37/1/149/5564192) Recombining Your Way Out of Trouble: The Genetic Architecture of Hybrid Fitness under Environmental Stress Zebin Zhang, Devin P Bendixsen, Thijs Janzen, Arne W Nolte, Duncan Greig (https://academic.oup.com/mbe/article/37/1/167/5569557) The Genome of the Endangered Dryas Monkey Provides New Insights into the Evolutionary History of the Vervets Tom van der Valk, Catalina M Gonda, Henri Silegowa, Sandra Almanza, Itzel Sifuentes-Romero (https://academic.oup.com/mbe/article/37/1/183/5570178) The Genetic Background Modulates the Evolution of Fluoroquinolone-Resistance in Mycobacterium tuberculosis Rhastin A D Castro, Amanda Ross, Lujeko Kamwela, Miriam Reinhard, Chloé Loiseau (https://academic.oup.com/mbe/article/37/1/195/5571370) Patterns of Genomic Differentiation in the Drosophila nasuta Species Complex Dat Mai, Matthew J Nalley, Doris Bachtrog (https://academic.oup.com/mbe/article/37/1/208/5574007) Stress-Driven Transposable Element De-repression Dynamics and Virulence Evolution in a Fungal Pathogen Simone Fouché, Thomas Badet, Ursula Oggenfuss, Clémence Plissonneau, Carolina Sardinha Francisco (https://academic.oup.com/mbe/article/37/1/221/5573762) Comparative Transcriptomics Analyses across Species, Organs, and Developmental Stages Reveal Functionally Constrained lncRNAs Fabrice Darbellay, Anamaria Necsulea (https://academic.oup.com/mbe/article/37/1/240/5572125) ============================= Methods ============================Polymorphism Data Assist Estimation of the Nonsynonymous over Synonymous Fixation Rate Ratio ω for Closely Related Species Carina F Mugal, Verena E Kutschera, Fidel Botero-Castro, Jochen B W Wolf, Ingemar Kaj (https://academic.oup.com/mbe/article/37/1/260/5556818) Reliable Confidence Intervals for RelTime Estimates of Evolutionary Divergence Times Qiqing Tao, Koichiro Tamura, Beatriz Mello, Sudhir Kumar (https://academic.oup.com/mbe/article/37/1/280/5602325) ============================= Resources ============================ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models Diego Darriba, David Posada, Alexey M Kozlov, Alexandros Stamatakis, Benoit Morel (https://academic.oup.com/mbe/article/37/1/291/5552155) HyPhy 2.5'A Customizable Platform for Evolutionary Hypothesis Testing Using Phylogenies Sergei L Kosakovsky Pond, Art F Y Poon, Ryan Velazquez, Steven Weaver, N Lance Hepler (https://academic.oup.com/mbe/article/37/1/295/5555420) ============================= Society Reports ============================A Report by the Editor-in-Chief for Molecular Biology and Evolution (MBE), Volume 35 Sudhir Kumar (https://academic.oup.com/mbe/article/37/1/300/5716299) Society for Molecular Biology and Evolution, Council and Business Meetings, 2019, Manchester, United Kingdom David D Pollock (https://academic.oup.com/mbe/article/37/1/301/5716316) ============================= News ============================Genomic Fluke: Whole-Genome Comparative Analyses of Liver and Intestinal Parasites Reveal Evolutionary History and Shift in Organs, Animals of Choice Joseph Caspermeyer (https://academic.oup.com/mbe/article/37/1/304/5688657) Scientists Identify Rare Evolutionary Intermediates That Help to Understand the Origin of Eukaryotes Joseph Caspermeyer (https://academic.oup.com/mbe/article/37/1/305/5688668) Improved Mapping of Swedish Genes Joseph Caspermeyer (https://academic.oup.com/mbe/article/37/1/306/5688667) Unsubscribe (http://cp20.com/unsubscribe) Manage email alerts (https://academic.oup.com/my-account/email-alerts) Written requests to unsubscribe can be sent to: Journals Marketing, Oxford University Press, Great Clarendon Street, Oxford, OX2 6DP, UK. Our Privacy Policy (http://global.oup.com/privacy) sets out how Oxford University Press handles your personal information. The content of this email is protected by copyright. Oxford University Press This email is intended for bionet@evol.biology.mcmaster.ca. ------=_Part_312453613.1580441231303 Content-Type: text/html;charset=UTF-8 Oxford Academic
 
 
 
oxford_logo.jpg
 
 
 
 
New issue alert
 
 
 
 
 
 
Molecular Biology and Evolution  
Volume 37 Issue 1
 
January 2020
 
button-issue.png
 
 
Editorial
 
 
 
MBE Emerging Classics 2020 
 
Sudhir Kumar; Heather Rowe
 
 
 
Review
 
 
 
Legacy Data Confound Genomics Studies 
 
Luke Anderson-Trocmé; Rick Farouni; Mathieu Bourgey ; Yoichiro Kamatani; Koichiro Higasa ...
 
 
 
Perspective
 
 
 
Improving Cancer Drug Discovery by Studying Cancer across the Tree of Life 
 
Jason A Somarelli; Amy M Boddy; Heather L Gardner ; Suzanne Bartholf DeWitt; Joanne Tuohy ...
 
 
 
Discoveries
 
 
 
Discovery of Novel Sequences in 1,000 Swedish Genomes border= 
 
Jesper Eisfeldt; Gustaf Mårtensson; Adam Ameur; Daniel Nilsson; Anna Lindstrand
 
 
Phylogenetic Shifts in Gene Body Methylation Correlate with Gene Expression and Reflect Trait Conservation 
 
Danelle K Seymour; Brandon S Gaut
 
 
Ancient Mitochondrial Gene Transfer between Fungi and the Orchids 
 
Brandon T Sinn; Craig F Barrett
 
 
Stochastic Gene Expression Influences the Selection of Antibiotic Resistance Mutations border= 
 
Lei Sun ; Peter Ashcroft; Martin Ackermann; Sebastian Bonhoeffer
 
 
Can the RNA World Still Function without Cytidine? 
 
Andrew S Tupper; Ralph E Pudritz; Paul G Higgs
 
 
Adaptive Radiation of the Flukes of the Family Fasciolidae Inferred from Genome-Wide Comparisons of Key Species 
 
Young-Jun Choi; Santiago Fontenla; Peter U Fischer ; Thanh Hoa Le; Alicia Costábile ...
 
 
Evolutionary History of GLIS Genes Illuminates Their Roles in Cell Reprograming and Ciliogenesis border= 
 
Yuuri Yasuoka ; Masahito Matsumoto; Ken Yagi; Yasushi Okazaki
 
 
Gene Expression Modularity Reveals Footprints of Polygenic Adaptation in Theobroma cacao 
 
Tuomas Hämälä; Mark J Guiltinan; James H Marden ; Siela N Maximova; Claude W dePamphilis ...
 
 
Archaeal Ribosomal Proteins Possess Nuclear Localization Signal-Type Motifs: Implications for the Origin of the Cell Nucleus 
 
Sergey Melnikov; Hui-Si Kwok; Kasidet Manakongtreecheep ; Antonia van den Elzen; Carson C Thoreen ...
 
 
Genomic and Phenotypic Analyses Reveal Mechanisms Underlying Homing Ability in Pigeon 
 
Yong Shao; Hang-Yu Tian; Jing-Jing Zhang ; Hamed Kharrati-Koopaee; Xing Guo ...
 
 
"Lost and Found": snoRNA Annotation in the Xenopus Genome and Implications for Evolutionary Studies border= 
 
Svetlana Deryusheva; Gaëlle J S Talhouarne; Joseph G Gall
 
 
Recombining Your Way Out of Trouble: The Genetic Architecture of Hybrid Fitness under Environmental Stress border= 
 
Zebin Zhang ; Devin P Bendixsen; Thijs Janzen; Arne W Nolte; Duncan Greig ...
 
 
The Genome of the Endangered Dryas Monkey Provides New Insights into the Evolutionary History of the Vervets border= 
 
Tom van der Valk ; Catalina M Gonda; Henri Silegowa; Sandra Almanza; Itzel Sifuentes-Romero ...
 
 
The Genetic Background Modulates the Evolution of Fluoroquinolone-Resistance in Mycobacterium tuberculosis  border= 
 
Rhastin A D Castro; Amanda Ross ; Lujeko Kamwela; Miriam Reinhard; Chloé Loiseau ...
 
 
Patterns of Genomic Differentiation in the Drosophila nasuta Species Complex border= 
 
Dat Mai; Matthew J Nalley ; Doris Bachtrog
 
 
Stress-Driven Transposable Element De-repression Dynamics and Virulence Evolution in a Fungal Pathogen 
 
Simone Fouché; Thomas Badet; Ursula Oggenfuss ; Clémence Plissonneau; Carolina Sardinha Francisco ...
 
 
Comparative Transcriptomics Analyses across Species, Organs, and Developmental Stages Reveal Functionally Constrained lncRNAs border= 
 
Fabrice Darbellay ; Anamaria Necsulea
 
 
 
Methods
 
 
 
Polymorphism Data Assist Estimation of the Nonsynonymous over Synonymous Fixation Rate Ratio ω for Closely Related Species border= 
 
Carina F Mugal; Verena E Kutschera ; Fidel Botero-Castro; Jochen B W Wolf; Ingemar Kaj
 
 
Reliable Confidence Intervals for RelTime Estimates of Evolutionary Divergence Times border= 
 
Qiqing Tao ; Koichiro Tamura; Beatriz Mello; Sudhir Kumar
 
 
 
Resources
 
 
 
ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models border= 
 
Diego Darriba ; David Posada; Alexey M Kozlov; Alexandros Stamatakis; Benoit Morel ...
 
 
HyPhy 2.5'A Customizable Platform for Evolutionary Hypothesis Testing Using Phylogenies 
 
Sergei L Kosakovsky Pond; Art F Y Poon; Ryan Velazquez ; Steven Weaver; N Lance Hepler ...
 
 
 
Society Reports
 
 
 
A Report by the Editor-in-Chief for Molecular Biology and Evolution (MBE), Volume 35 
 
Sudhir Kumar
 
 
Society for Molecular Biology and Evolution, Council and Business Meetings, 2019, Manchester, United Kingdom 
 
David D Pollock
 
 
 
News
 
 
 
Genomic Fluke: Whole-Genome Comparative Analyses of Liver and Intestinal Parasites Reveal Evolutionary History and Shift in Organs, Animals of Choice  
 
Joseph Caspermeyer
 
 
Scientists Identify Rare Evolutionary Intermediates That Help to Understand the Origin of Eukaryotes 
 
Joseph Caspermeyer
 
 
Improved Mapping of Swedish Genes 
 
Joseph Caspermeyer
 
 
Unsubscribe       Manage email alerts
 
Written requests to unsubscribe can be sent to: Journals Marketing, Oxford University Press, Great Clarendon Street, Oxford, OX2 6DP, UK.

Our Privacy Policy sets out how Oxford University Press handles your personal information.

The content of this email is protected by copyright.
 
oxforde_university.jpg
 
 
 
                                 


This email is intended for bionet@evol.biology.mcmaster.ca. ------=_Part_312453613.1580441231303--