All Stories

  1. On Protein Loops, Prior Molecular States and Common Ancestors of Life
  2. AlphaFold2 Reveals Structural Patterns of Seasonal Haplotype Diversification in SARS-CoV-2 Spike Protein Variants
  3. Advances in Molecular Exploration of Crop Plants under Environmental Stresses from Genetic and Genomic Perspectives
  4. Evolution of Intrinsic Disorder in Protein Loops
  5. Evolution of Intrinsic Disorder in Protein Loops
  6. Seasonal effects decouple SARS-CoV-2 haplotypes worldwide
  7. Dissecting “Evolution – The origins and mechanisms of diversity” by Jonathan Bard
  8. The origin and language-like evolutionary behavior of proteins and translation
  9. Menzerath–Altmann’s Law of Syntax in RNA Accretion History
  10. The tree of life describes a tripartite cellular world
  11. Temperature and Latitude Correlate with SARS-CoV-2 Epidemiological Variables but not with Genomic Change Worldwide
  12. Dual RNase and β-lactamase Activity of a Single Enzyme Encoded in Archaea
  13. The origin and evolution of viruses inferred from fold family structure
  14. Editorial: Viruses, Genetic Exchange, and the Tree of Life
  15. New Pathways of Mutational Change in SARS-CoV-2 Proteomes Involve Regions of Intrinsic Disorder Important for Virus Replication and Release
  16. MANET 3.0: Hierarchy and modularity in evolving metabolic networks
  17. Genome-Wide Identification and Characterization of the Vacuolar H+-ATPase Subunit H Gene Family in Crop Plants
  18. Testing Empirical Support for Evolutionary Models that Root the Tree of Life
  19. Emergence of Hierarchical Modularity in Evolving Networks Uncovered by Phylogenomic Analysis
  20. Correction to: Genome-wide analysis of the MYB-CC gene family of maize
  21. Evolution of Macromolecular Structure: A ‘Double Tale’ of Biological Accretion and Diversification
  22. Genome-wide analysis of the MYB-CC gene family of maize
  23. Archaea-First and the Co-Evolutionary Diversification of Domains of Life
  24. Order and polarity in character state transformation models that root the tree of life
  25. Commercial Applications of DNA Profiling by Amplification with Arbitrary Oligonucleotide Primers
  26. Rooting Phylogenies and the Tree of Life While Minimizing Ad Hoc and Auxiliary Assumptions
  27. RubisCO and the Search for Biomolecular Culprits of Planetary Change
  28. Long-term evolution of viruses: A Janus-faced balance
  29. Identification of Capsid/Coat Related Protein Folds and Their Utility for Virus Classification
  30. Commentary: History of the ribosome and the origin of translation
  31. The Compressed Vocabulary of the Proteins of Archaea
  32. RNA World ☆
  33. Piecemeal Buildup of the Genetic Code, Ribosomes, and Genomes from Primordial tRNA Building Blocks
  34. The early history and emergence of molecular functions and modular scale-free network behavior
  35. The Phylogenomic Roots of Translation
  36. Arguments Reinforcing the Three-Domain View of Diversified Cellular Life
  37. A phylogenomic data-driven exploration of viral origins and evolution
  38. Ancestral Insertions and Expansions of rRNA do not Support an Origin of the Ribosome in Its Peptidyl Transferase Center
  39. Untangling the origin of viruses and their impact on cellular evolution
  40. Untangling Molecular Biodiversity
  41. Computing the origin and evolution of the ribosome from its structure — Uncovering processes of macromolecular accretion benefiting synthetic biology
  42. A Tree of Cellular Life Inferred from a Genomic Census of Molecular Functions
  43. The Natural History of Biocatalytic Mechanisms
  44. The importance of using realistic evolutionary models for retrodicting proteomes
  45. Global Patterns of Protein Domain Gain and Loss in Superkingdoms
  46. The Origin and Evolution of the Archaeal Domain
  47. Archaea: The First Domain of Diversified Life
  48. A Phylogenomic Census of Molecular Functions Identifies Modern Thermophilic Archaea as the Most Ancient Form of Cellular Life
  49. Structural Phylogenomics Retrodicts the Origin of the Genetic Code and Uncovers the Evolutionary Impact of Protein Flexibility
  50. CLUSTOM: A Novel Method for Clustering 16S rRNA Next Generation Sequences by Overlap Minimization
  51. Origin and Evolution of Protein Fold Designs Inferred from Phylogenomic Analysis of CATH Domain Structures in Proteomes
  52. Structural Phylogenomics Reveals Gradual Evolutionary Replacement of Abiotic Chemistries by Protein Enzymes in Purine Metabolism
  53. Evolutionary Optimization of Protein Folding
  54. Molecular Clock
  55. RNA World
  56. Cellular structure predated diversified life
  57. 23 The phylogenomic roots of modern biochemistry, translation, and the genetic code
  58. The Coevolutionary Roots of Biochemistry and Cellular Organization Challenge the RNA World Paradigm
  59. Comparative Analysis of Proteomes and Functionomes Provides Insights into Origins of Cellular Diversification
  60. Comparative Analysis of Barophily-Related Amino Acid Content in Protein Domains ofPyrococcus abyssiandPyrococcus furiosus
  61. A General Framework of Persistence Strategies for Biological Systems Helps Explain Domains of Life
  62. Fast Folding as a Constraint in the Evolution of Protein Structures
  63. Stress induces biphasic-rewiring and modularization patterns in the metabolomic networks of Escherichia coli
  64. Viral evolution
  65. Structural phylogenomics uncovers the early and concurrent origins of cysteine biosynthesis and iron-sulfur proteins
  66. The Impact of Oxygen on Metabolic Evolution: A Chemoinformatic Investigation
  67. Ribosomal History Reveals Origins of Modern Protein Synthesis
  68. Erratum to: The Phylogenomic Roots of Modern Biochemistry: Origins of Proteins, Cofactors and Protein Biosynthesis
  69. Biphasic patterns of diversification and the emergence of modules
  70. The Phylogenomic Roots of Modern Biochemistry: Origins of Proteins, Cofactors and Protein Biosynthesis
  71. Benefits of using molecular structure and abundance in phylogenomic analysis
  72. Evolution of Protein Architecture for Mechanical Function
  73. Protein Domain Structure Uncovers the Origin of Aerobic Metabolism and the Rise of Planetary Oxygen
  74. The evolutionary history of protein fold families and proteomes confirms that the archaeal ancestor is more ancient than the ancestors of other superkingdoms
  75. Giant viruses coexisted with the cellular ancestors and represent a distinct supergroup along with superkingdoms Archaea, Bacteria and Eukarya
  76. Evolutionary Genomics and Systems Biology . Edited by Gustavo Caetano‐Anollés. Hoboken (New Jersey): Wiley‐Blackwell. $125.00. xix + 465 p. + 32 pl.; ill.; index. ISBN: 978‐0‐470‐19514‐7. 2010.
  77. Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms
  78. Evolution of protein architectures inferred from phylogenomic analysis of CATH
  79. Integration of statistical models and visualization tools to characterize microRNA networks influencing cancer
  80. The functional make up of proteomes is remarkably conserved
  81. Additive and multiplicative genome-wide association models identify genes associated with growth
  82. Reductive evolution of proteomes and protein structures
  83. The proteomic complexity and rise of the primordial ancestor of diversified life
  84. Genetic structure and diversity of Phakopsora pachyrhizi isolates from soyabean
  85. Evolution of vacuolar proton pyrophosphatase domains and volutin granules: clues into the early evolutionary origin of the acidocalcisome
  86. Proteome Evolution and the Metabolic Origins of Translation and Cellular Life
  87. A Universal Molecular Clock of Protein Folds and Its Power in Tracing the Early History of Aerobic Metabolism and Planet Oxygenation
  88. Reply to Mulkidjanian and Galperin: Zn may have constrained evolution during the Proterozoic but not the Archean
  89. BioEssays 8/2010
  90. Exploring the interplay of stability and function in protein evolution
  91. Frontmatter
  92. Index
  93. Color Plates
  94. Modularity and Dissipation in Evolution of Macromolecular Structures, Functions, and Networks
  95. Phylogenetic Utility of RNA Structure: Evolution's Arrow and Emergence of Early Biochemistry and Diversified Life
  96. The Origin of Modern 5S rRNA: A Case of Relating Models of Structural History to Phylogenetic Data
  97. History of biological metal utilization inferred through phylogenomic analysis of protein structures
  98. Emergence and Evolution of Modern Molecular Functions Inferred from Phylogenomic Analysis of Ontological Data
  99. The ancient history of the structure of ribonuclease P and the early origins of Archaea
  100. Evolutionary Genomics and Systems Biology
  101. Comparative Genomic and Phylogenetic Analyses Reveal the Evolution of the Core Two-Component Signal Transduction Systems in Enterobacteria
  102. The Evolutionary History of the Structure of 5S Ribosomal RNA
  103. The evolutionary significance of the long variable arm in transfer RNA
  104. The origin, evolution and structure of the protein world
  105. The origin and evolution of modern metabolism
  106. The Evolutionary Mechanics of Domain Organization in Proteomes and the Rise of Modularity in the Protein World
  107. Transfer RNA and the Origins of Diversified Life
  108. An approach of orthology detection from homologous sequences under minimum evolution
  109. Evolutionary Patterns in the Sequence and Structure of Transfer RNA: A Window into Early Translation and the Genetic Code
  110. NOBAI: a web server for character coding of geometrical and statistical features in RNA structure
  111. Evolutionary Patterns in the Sequence and Structure of Transfer RNA: Early Origins of Archaea and Viruses
  112. Origins and evolution of modern biochemistry: insights from genomes and molecular structure
  113. Evolutionary Genomics: Linking Macromolecular Structure, Genomes and Biological Networks
  114. Introductory Editorial
  115. The Origin and Evolution of tRNA Inferred from Phylogenetic Analysis of Structure
  116. Reductive evolution of architectural repertoires in proteomes and the birth of the tripartite world
  117. The origin of modern metabolic networks inferred from phylogenomic analysis of protein architecture
  118. Common evolutionary trends for SINE RNA structures
  119. Gene-interleaving patterns of synteny in the Saccharomyces cerevisiae genome: are they proof of an ancient genome duplication event?
  120. Global Phylogeny Determined by the Combination of Protein Domains in Proteomes
  121. A phylogenomic reconstruction of the protein world based on a genomic census of protein fold architecture
  122. Grass Evolution Inferred from Chromosomal Rearrangements and Geometrical and Statistical Features in RNA Structure
  123. Universal Sharing Patterns in Proteomes and Evolution of Protein Fold Architecture and Life
  124. Evolution of Genome Size in the Grasses
  125. Population Genetics and Spatial Structure of the Fairy Ring Fungus Marasmius oreades in a Norwegian Sand Dune Ecosystem
  126. An Evolutionarily Structured Universe of Protein Architecture
  127. Extensive and specific responses of a eukaryote to bacterial quorum-sensing signals
  128. Tracing the evolution of RNA structure in ribosomes
  129. Evolved RNA Secondary Structure and the Rooting of the Universal Tree of Life
  130. DNA Markers: Protocols, Applications, and Overview. Edited by Gustavo Caetano-Anollés and Peter M. Gresshoff
  131. High genome-wide mutation rates in vegetatively propagated bermudagrass
  132. DNA Analysis of Turfgrass Genetic Diversity
  133. Arbitrary oligonucleotides: primers for amplification and direct identification of nucleic acids, genes and organisms
  134. Molecular dissection and improvement of the nodule symbiosis in legumes
  135. DNA Amplification Fingerprinting
  136. Fingerprint Tailoring
  137. Recovering Amplified DNA from Silver Stained Gels
  138. The Origin of Bermudagrass (Cynodon) Off-Types Inferred by DNA Amplification Fingerprinting
  139. Resolving DNA Amplification Products Using Polyacrylamide Gel Electrophoresis and Silver Staining
  140. Molecular and Genetic Insights into Shoot Control of Nodulation in Soybean
  141. Scanning of nucleic acids by in vitro amplification: New developments and applications
  142. Nucleic Acid Scanning-by-Hybridization of Enterohemorrhagic Escherichia Coli Isolates Using Oligodeoxynucleotide Arrays
  143. Molecular phylogeny and DNA amplification fingerprinting of Petunia taxa
  144. Advances in the positional cloning of nodulation genes in soybean
  145. DNA Amplification Fingerprinting Provides Evidence That Discula destructiva, the Cause of Dogwood Anthracnose in North America, Is an Introduced Pathogen
  146. DNA Amplification Fingerprinting and Hybridization Analysis of Centipedegrass
  147. Positional Cloning of Nodulation Genes in Soybean: Coupling Dna Amplification and Bulked Segregant Analysis
  148. Nodulation of white clover (Trifolium repens) in the absence ofRhizobium
  149. Buffer components tailor DNA amplification with arbitrary primers.
  150. DNA Amplification Fingerprinting Using Arbitrary Mini-hairpin Oligonucleotide Primers
  151. DNA amplification fingerprinting: A general tool with applications in breeding, identification and phylogenetic analysis of plants
  152. Amplifying DNA with arbitrary oligonucleotide primers.
  153. DNA amplification fingerprinting using arbitrary oligonucleotide primers
  154. Silver staining of DNA in polyacrylamide gels
  155. Nodule Morphogenesis in the Absence of Rhizobium
  156. DNA Fingerprinting: MAAPing out a RAPD Redefinition?
  157. Growth and Movement of Spot Inoculated Rhizobium meliloti on the Root Surface of Alfalfa
  158. Anatomical analysis of nodule development in soybean reveals an additional autoregulatory control point
  159. DNA amplification fingerprinting: A strategy for genome analysis
  160. Plant Genetic Control of Nodulation
  161. Excision of Nodules Induced by Rhizobium meliloti Exopolysaccharide Mutants Releases Autoregulation in Alfalfa
  162. Fast and sensitive silver staining of DNA in polyacrylamide gels
  163. DNA Amplification Fingerprinting Using Very Short Arbitrary Oligonucleotide Primers
  164. Alfalfa Controls Nodulation during the Onset of Rhizobium-induced Cortical Cell Division
  165. Mature Nodules and Root Tips Control Nodulation in Soybean
  166. Plant Genetic Control Of Nodulation
  167. Plant Genetic Control of Nodulation in Legumes
  168. Chemotaxis, induced gene expression and competitiveness in the rhizosphere
  169. Rhizobium meliloti exopolysaccharide Mutants Elicit Feedback Regulation of Nodule Formation in Alfalfa
  170. Optimization of Surface Sterilization for Legume Seed
  171. Early induction of feedback regulatory responses governing nodulation in soybean
  172. Adsorption ofRhizobium meliloti to alfalfa roots: Dependence on divalent cations and pH
  173. Role of Motility and Chemotaxis in Efficiency of Nodulation by Rhizobium meliloti
  174. Plant genotyping using arbitrarily amplified DNA.