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1. Full Text Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes
by Treangen, Todd J and Rocha, Eduardo P.C
PLoS Genetics, ISSN 1553-7390, 2011, Volume 7, Issue 1, p. e1001284
Gene duplication followed by neo- or sub-functionalization deeply impacts the evolution of protein families and is regarded as the main source of adaptive... 
MAXIMUM-LIKELIHOOD | AMPLIFICATION | MODELS | COMPARATIVE GENOMICS | PHYLOGENETIC ANALYSIS | GENETICS & HEREDITY | BACTERIAL GENOMES | INTERACTION NETWORKS | GENE-TRANSFER | INSERTION SEQUENCES | ADAPTIVE EVOLUTION | Multigene Family - genetics | Bradyrhizobiaceae - genetics | Helicobacter - genetics | Genome, Bacterial | Computational Biology | Enterobacteriaceae - genetics | Bacillus - genetics | Gene Transfer, Horizontal | Phylogeny | Bacteria - genetics | Sulfolobus - genetics | Streptococcus - genetics | Gene Duplication - genetics | Neisseria - genetics | Pseudomonas - genetics | Evolution, Molecular | Genetic aspects | Genetic transformation | Research | Prokaryotes | Bacterial proteins | Natural history | Life Sciences | Quantitative Methods | Bioinformatics | Computer Science | Proteins | Evolution | Genetics | Genes | Genomics
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2. Full Text CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea
by Marraffini, Luciano A and Sontheimer, Erik J
Nature Reviews Genetics, ISSN 1471-0056, 03/2010, Volume 11, Issue 3, pp. 181 - 190
Sequence-directed genetic interference pathways control gene expression and preserve genome integrity in all kingdoms of life. The importance of such pathways... 
COMPLETE GENOME SEQUENCE | YERSINIA-PESTIS | THERMUS-THERMOPHILUS HB8 | GENETICS & HEREDITY | PROVIDES ACQUIRED-RESISTANCE | RESISTANT STAPHYLOCOCCUS-AUREUS | SULFOLOBUS-SOLFATARICUS P2 | HORIZONTAL GENE-TRANSFER | MYCOBACTERIUM-TUBERCULOSIS COMPLEX | SHORT PALINDROMIC REPEATS | RAY CRYSTAL-STRUCTURE | Bacteria - metabolism | Bacteria - genetics | Bacteriophages - immunology | Adaptive Immunity - genetics | Archaea - metabolism | Bacteria - immunology | RNA Interference | Virulence - genetics | Virulence - immunology | RNA, Archaeal - metabolism | Bacteriophages - genetics | RNA, Bacterial - genetics | Archaea - genetics | Archaea - immunology | Bacteria - pathogenicity | Models, Genetic | RNA, Archaeal - genetics | RNA, Bacterial - metabolism | Inverted Repeat Sequences | Evolution, Molecular | Genetic aspects | Immune response | Research | Bacterial genetics | Archaeabacteria
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3. Full Text Extrachromosomal Element Capture and the Evolution of Multiple Replication Origins in Archaeal Chromosomes
by Nicholas P. Robinson and Stephen D. Bell
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 4/2007, Volume 104, Issue 14, pp. 5806 - 5811
In all three domains of life, DNA replication begins at specialized loci termed replication origins. In bacteria, replication initiates from a single, clearly... 
Replication origin | Proteins | Whips | Plasmids | Archaea | Genetic loci | Evolution | Sulfolobus | Genomes | Open reading frames | Viral integration | DNA replication | PLASMIDS | CELLS | MULTIDISCIPLINARY SCIENCES | SULFOLOBUS-SOLFATARICUS | EUKARYOTES | CRENARCHAEON | GENOME | archaea | DNA-REPLICATION | SEQUENCE | viral integration | PROTEINS | VIRUSES | Archaeal Proteins - isolation & purification | Origin Recognition Complex | Sulfolobus acidocaldarius - genetics | Sulfolobus solfataricus - genetics | Archaeal Proteins - chemistry | Molecular Sequence Data | Restriction Mapping | Base Sequence | Cell Cycle Proteins - genetics | Archaeal Proteins - genetics | Aeropyrum - genetics | Extrachromosomal Inheritance - genetics | Amino Acid Sequence | Genes, Archaeal | Protein Structure, Tertiary - genetics | Saccharomyces cerevisiae Proteins - genetics | DNA-Binding Proteins - genetics | Open Reading Frames - genetics | Sequence Homology, Nucleic Acid | DNA Footprinting | Sequence Homology, Amino Acid | Replication Origin - genetics | DNA Replication - genetics | Chromosomes, Archaeal - genetics | Evolution, Molecular | Replicon - genetics | Genetic aspects | Research | Extrachromosomal DNA | Archaeabacteria | Biological Sciences
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4. Full Text Inter‐viral conflicts that exploit host CRISPR immune systems of Sulfolobus
by Erdmann, Susanne and Le Moine Bauer, Sven and Garrett, Roger A
Molecular Microbiology, ISSN 0950-382X, 03/2014, Volume 91, Issue 5, pp. 900 - 917
Summary Infection of Sulfolobus islandicus REY15A with mixtures of different Sulfolobus viruses, including STSV2, did not induce spacer acquisition by the host... 
DYNAMIC PROPERTIES | PROTEIN | MECHANISM | DNA | BIOCHEMISTRY & MOLECULAR BIOLOGY | ESCHERICHIA-COLI | MICROBIOLOGY | MEDIATED VIRUS DEFENSE | SOLFATARICUS | ARCHAEAL VIRUS | SHORT PALINDROMIC REPEATS | LIPOTHRIXVIRUS | Viruses - isolation & purification | Viruses - genetics | Virus Replication - genetics | Genome, Viral - genetics | Molecular Sequence Data | Microbial Viability - genetics | Genetic Loci | DNA, Intergenic - genetics | Cold-Shock Response - genetics | Viral Proteins - metabolism | Host-Pathogen Interactions - immunology | Sulfolobus - immunology | DNA, Bacterial - genetics | Sulfolobus - genetics | Base Sequence | DNA Replication - genetics | Protein Binding | Virion - ultrastructure | Sulfolobus - virology | Clone Cells | Clustered Regularly Interspaced Short Palindromic Repeats - genetics | DNA, Viral - genetics | Sulfolobus - ultrastructure | Virus diseases | Protein binding
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5. Full Text Prespacer processing and specific integration in a Type I-A CRISPR system
by Rollie, Clare and Graham, Shirley and Rouillon, Christophe and White, Malcolm F
Nucleic Acids Research, ISSN 0305-1048, 02/2018, Volume 46, Issue 3, pp. 1007 - 1020
Abstract The CRISPR-Cas system for prokaryotic adaptive immunity provides RNA-mediated protection from viruses and mobile genetic elements. Adaptation is... 
ARCHAEAL | CHROMATIN PROTEIN | FOREIGN DNA | SULFOLOBUS | COMPLEX | BIOCHEMISTRY & MOLECULAR BIOLOGY | ADAPTATION | BINDING-PROTEIN | HOST FACTOR | CAS SYSTEM | SPACER ACQUISITION | Chromatin - metabolism | Endonucleases - genetics | RNA, Guide - genetics | RNA, Guide - metabolism | Sulfolobus solfataricus - genetics | DNA, Archaeal | Endonucleases - metabolism | Integration Host Factors - metabolism | Adenosine Triphosphate - metabolism | Base Sequence | DNA, Intergenic - metabolism | Cloning, Molecular | Clustered Regularly Interspaced Short Palindromic Repeats | Endodeoxyribonucleases - metabolism | Escherichia coli - metabolism | Sulfolobus solfataricus - metabolism | Archaeal Proteins - genetics | Chromatin - chemistry | Archaeal Proteins - metabolism | Recombinant Proteins - metabolism | Gene Expression | CRISPR-Associated Proteins - genetics | Escherichia coli Proteins - metabolism | Recombinant Proteins - genetics | DNA, Intergenic - genetics | Plasmids - metabolism | Integration Host Factors - genetics | Endodeoxyribonucleases - genetics | Escherichia coli - genetics | CRISPR-Associated Proteins - metabolism | CRISPR-Cas Systems | Plasmids - chemistry | Escherichia coli Proteins - genetics | NAR Breakthrough
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6. Full Text CRISPRTarget
: Bioinformatic prediction and analysis of crRNA targets
by Biswas, Ambarish and Gagnon, Joshua N and Brouns, Stan J.J and Fineran, Peter C and Brown, Chris M
RNA Biology, ISSN 1547-6286, 05/2013, Volume 10, Issue 5, pp. 817 - 827
The bacterial and archaeal CRISPR/Cas adaptive immune system targets specific protospacer nucleotide sequences in invading organisms. This requires base... 
CRISPR | Cas | R-loop | bioinformatics | phage resistance | horizontal gene transfer | crRNA | small RNA targets | short palindromic repeats | cas systems | streptococcus-thermophilus | bacterial immune-system | pectobacterium-atrosepticum | salmonella-enterica | genome sequence | antiviral defense | dynamic properties | adaptive immunity | Small RNA targets | Bioinformatics | Horizontal gene transfer | Phage resistance | COMPLEX | MECHANISM | BIOCHEMISTRY & MOLECULAR BIOLOGY | SMALL-RNA | BACTERIAL | IMMUNE-SYSTEM | ANTIVIRAL DEFENSE | GENOME SEQUENCE | DNA | RESISTANCE | INTERFERENCE | Streptococcus Phages - genetics | Sulfolobus solfataricus - genetics | Molecular Sequence Data | Streptococcus thermophilus - virology | Base Sequence | Clustered Regularly Interspaced Short Palindromic Repeats | Sulfolobus solfataricus - metabolism | Bacteriophages - genetics | RNA, Bacterial - genetics | Archaeal Proteins - genetics | Streptococcus thermophilus - genetics | Bacteria - virology | Archaeal Proteins - metabolism | Bacteria - metabolism | Computational Biology - methods | CRISPR-Associated Proteins - genetics | Bacterial Proteins - genetics | DNA, Intergenic - genetics | Bacteria - genetics | Sequence Alignment | Base Pairing | CRISPR-Associated Proteins - metabolism | Bacterial Proteins - metabolism | Archaeal Viruses - genetics | Evolution, Molecular | Research Paper
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7. Full Text Genetic Techniques for the Archaea
by Farkas, Joel A and Picking, Jonathan W and Santangelo, Thomas J
Annual Review of Genetics, ISSN 0066-4197, 11/2013, Volume 47, Issue 1, pp. 539 - 561
Genetic techniques for the Archaea have undergone a rapid expansion in complexity, resulting in increased exploration of the role of Archaea in the environment... 
Thermococcales | shuttle vector | methanogen | selection/counterselection | plasmid | halophile | Sulfolobales | transformation | archaea | Plasmid | Transformation | Selection/counterselection | Methanogen | Archaea | Shuttle vector | Halophile | TRANSCRIPTION IN-VITRO | AMMONIA-OXIDIZING ARCHAEA | HYPERTHERMOPHILIC ARCHAEON | SULFOLOBUS-SOLFATARICUS | METHANOSARCINA-ACETIVORANS C2A | HALOFERAX-VOLCANII | MODEL HALOPHILIC ARCHAEON | GREEN FLUORESCENT PROTEIN | GENETICS & HEREDITY | ARCHAEBACTERIUM METHANOCOCCUS-VOLTAE | THERMOCOCCUS-KODAKARENSIS | Archaea - physiology | DNA, Archaeal - genetics | Gene Transfer Techniques | Promoter Regions, Genetic | Genes, Archaeal | Gene Expression Regulation, Archaeal | Selection, Genetic | Genotype | Phylogeny | Biodiversity | Genetic Techniques | Archaea - classification | Genetic Vectors - genetics | Phenotype | Archaeal Proteins - physiology | Plasmids - genetics | Archaeal Proteins - genetics | Archaea - genetics | Microbiological Techniques | Genes, Reporter | Genetic vectors | Physiological aspects | Genetic aspects | Research | Archaeabacteria | Genetic screening | Methods
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