Search Results - "Genome biology and evolution"

Exploring the Natural Origins of SARS-CoV-2 in the Light of Recombination by Lytras, Spyros, Hughes, Joseph, Martin, Darren, Swanepoel, Phillip, de Klerk, Arné, Lourens, Rentia, Kosakovsky Pond, Sergei L, Xia, Wei, Jiang, Xiaowei, Robertson, David L

“…Abstract The lack of an identifiable intermediate host species for the proximal animal ancestor of SARS-CoV-2, and the large geographical distance between…”
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Sex Chromosome Evolution: So Many Exceptions to the Rules by Furman, Benjamin L S, Metzger, David C H, Darolti, Iulia, Wright, Alison E, Sandkam, Benjamin A, Almeida, Pedro, Shu, Jacelyn J, Mank, Judith E

“…Abstract Genomic analysis of many nonmodel species has uncovered an incredible diversity of sex chromosome systems, making it possible to empirically test the…”
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The Pseudomonas aeruginosa Pan-Genome Provides New Insights on Its Population Structure, Horizontal Gene Transfer, and Pathogenicity by Freschi, Luca, Vincent, Antony T, Jeukens, Julie, Emond-Rheault, Jean-Guillaume, Kukavica-Ibrulj, Irena, Dupont, Marie-Josée, Charette, Steve J, Boyle, Brian, Levesque, Roger C

“…Abstract The huge increase in the availability of bacterial genomes led us to a point in which we can investigate and query pan-genomes, for example, the full…”
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A phylogenomic view of ecological specialization in the Lachnospiraceae, a family of digestive tract-associated bacteria by Meehan, Conor J, Beiko, Robert G

“…Several bacterial families are known to be highly abundant within the human microbiome, but their ecological roles and evolutionary histories have yet to be…”
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Evolution and Diversity of Transposable Elements in Vertebrate Genomes by Sotero-Caio, Cibele G., Platt, Roy N., Suh, Alexander, Ray, David A.

“…Transposable elements (TEs) are selfish genetic elements that mobilize in genomes via transposition or retrotransposition and often make up large fractions of…”
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The Prevalence and Impact of Model Violations in Phylogenetic Analysis by Naser-Khdour, Suha, Minh, Bui Quang, Zhang, Wenqi, Stone, Eric A, Lanfear, Robert

“…In phylogenetic inference, we commonly use models of substitution which assume that sequence evolution is stationary, reversible, and homogeneous (SRH)…”
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Long Reads Are Revolutionizing 20 Years of Insect Genome Sequencing by Hotaling, Scott, Sproul, John S, Heckenhauer, Jacqueline, Powell, Ashlyn, Larracuente, Amanda M, Pauls, Steffen U, Kelley, Joanna L, Frandsen, Paul B

“…Abstract The first insect genome assembly (Drosophila melanogaster) was published two decades ago. Today, nuclear genome assemblies are available for a…”
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Mutation Rates and Selection on Synonymous Mutations in SARS-CoV-2 by De Maio, Nicola, Walker, Conor R, Turakhia, Yatish, Lanfear, Robert, Corbett-Detig, Russell, Goldman, Nick

“…Abstract The COVID-19 pandemic has seen an unprecedented response from the sequencing community. Leveraging the sequence data from more than 140,000 SARS-CoV-2…”
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Comparative analysis of transposable elements highlights mobilome diversity and evolution in vertebrates by Chalopin, Domitille, Naville, Magali, Plard, Floriane, Galiana, Delphine, Volff, Jean-Nicolas

“…Transposable elements (TEs) are major components of vertebrate genomes, with major roles in genome architecture and evolution. In order to characterize both…”
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Environmental Epigenetics and a Unified Theory of the Molecular Aspects of Evolution: A Neo-Lamarckian Concept that Facilitates Neo-Darwinian Evolution by Skinner, Michael K

“…Environment has a critical role in the natural selection process for Darwinian evolution. The primary molecular component currently considered for…”
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Genomic Insights into Plastid Evolution by Sibbald, Shannon J, Archibald, John M

“…Abstract The origin of plastids (chloroplasts) by endosymbiosis stands as one of the most important events in the history of eukaryotic life. The genetic,…”
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A Nearly Complete Genome of Ciona intestinalis Type A (C. robusta) Reveals the Contribution of Inversion to Chromosomal Evolution in the Genus Ciona by Satou, Yutaka, Nakamura, Ryohei, Yu, Deli, Yoshida, Reiko, Hamada, Mayuko, Fujie, Manabu, Hisata, Kanako, Takeda, Hiroyuki, Satoh, Noriyuki

“…Since its initial publication in 2002, the genome of Ciona intestinalis type A (Ciona robusta), the first genome sequence of an invertebrate chordate, has…”
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The complete genome sequence of the phytopathogenic fungus Sclerotinia sclerotiorum reveals insights into the genome architecture of broad host range pathogens by Derbyshire, Mark, Denton-Giles, Matthew, Hegedus, Dwayne, Seifbarghy, Shirin, Rollins, Jeffrey, van Kan, Jan, Seidl, Michael F, Faino, Luigi, Mbengue, Malick, Navaud, Olivier, Raffaele, Sylvain, Hammond-Kosack, Kim, Heard, Stephanie, Oliver, Richard

“…Sclerotinia sclerotiorum is a phytopathogenic fungus with over 400 hosts including numerous economically important cultivated species. This contrasts many…”
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Evolutionary Genetics of Cytoplasmic Incompatibility Genes cifA and cifB in Prophage WO of Wolbachia by Lindsey, Amelia R I, Rice, Danny W, Bordenstein, Sarah R, Brooks, Andrew W, Bordenstein, Seth R, Newton, Irene L G

“…Abstract The bacterial endosymbiont Wolbachia manipulates arthropod reproduction to facilitate its maternal spread through host populations. The most common…”
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On the immortality of television sets: "function" in the human genome according to the evolution-free gospel of ENCODE by Graur, Dan, Zheng, Yichen, Price, Nicholas, Azevedo, Ricardo B R, Zufall, Rebecca A, Elhaik, Eran

“…A recent slew of ENCyclopedia Of DNA Elements (ENCODE) Consortium publications, specifically the article signed by all Consortium members, put forward the idea…”
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A Comprehensive Survey on the Terpene Synthase Gene Family Provides New Insight into Its Evolutionary Patterns by Jiang, Shu-Ye, Jin, Jingjing, Sarojam, Rajani, Ramachandran, Srinivasan

“…Abstract Terpenes are organic compounds and play important roles in plant growth and development as well as in mediating interactions of plants with the…”
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Family-Level Sampling of Mitochondrial Genomes in Coleoptera: Compositional Heterogeneity and Phylogenetics by Timmermans, Martijn J T N, Barton, Christopher, Haran, Julien, Ahrens, Dirk, Culverwell, C Lorna, Ollikainen, Alison, Dodsworth, Steven, Foster, Peter G, Bocak, Ladislav, Vogler, Alfried P

“…Mitochondrial genomes are readily sequenced with recent technology and thus evolutionary lineages can be densely sampled. This permits better phylogenetic…”
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Methanogenesis and the Wood-Ljungdahl Pathway: An Ancient, Versatile, and Fragile Association by Borrel, Guillaume, Adam, Panagiotis S, Gribaldo, Simonetta

“…Methanogenesis coupled to the Wood-Ljungdahl pathway is one of the most ancient metabolisms for energy generation and carbon fixation in the Archaea. Recent…”
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The genomic diversification of the whole Acinetobacter genus: origins, mechanisms, and consequences by Touchon, Marie, Cury, Jean, Yoon, Eun-Jeong, Krizova, Lenka, Cerqueira, Gustavo C, Murphy, Cheryl, Feldgarden, Michael, Wortman, Jennifer, Clermont, Dominique, Lambert, Thierry, Grillot-Courvalin, Catherine, Nemec, Alexandr, Courvalin, Patrice, Rocha, Eduardo P C

“…Bacterial genomics has greatly expanded our understanding of microdiversification patterns within a species, but analyses at higher taxonomical levels are…”
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Animal Mitochondrial DNA as We Do Not Know It: mt-Genome Organization and Evolution in Nonbilaterian Lineages by Lavrov, Dennis V, Pett, Walker

“…Animal mitochondrial DNA (mtDNA) is commonly described as a small, circular molecule that is conserved in size, gene content, and organization. Data collected…”
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