Evolutionary relationships of bacterial and archaeal glutamine synthetase genes | SpringerLinkEvolutionary relationships of bacterial and archaeal glutamine synthetase genes | SpringerLink

Genes for GSI have been found only in bacteria... ... that several lateral gene transfers of archaeal GSI genes to ... In order to study the evolution of GS, we cloned and sequenced GSI genes from two divergent archaeal species: the extreme ... Genes for GSI have been found only in bacteria (eubacteria) and archaea (archaebacteria), while GSII genes only occur in ... Cyanobacterial genes lack adenylylation regulation of GS and may have secondarily lost it. The GSI gene of Sulfolobus ...
more infohttps://link.springer.com/article/10.1007/BF00175876

Comparative Analysis of the Methanogen Diversity in Horse and Pony by Using mcrA Gene and Archaeal 16S rRNA Gene Clone LibrariesComparative Analysis of the Methanogen Diversity in Horse and Pony by Using mcrA Gene and Archaeal 16S rRNA Gene Clone Libraries

The archaeal 16S rRNA genes and deduced amino acid sequences of mcrA gene were aligned with Clustal X ver. 2.0 [35], and ... Phylogenetic Analysis of the mcrA Gene and the Archaeal 16S rRNA Gene. No chimeric sequence was found in the present study. A ... Table 5: General information and diversity indices of the mcrA gene and archaeal 16S rRNA gene clone libraries recovered from ... Comparative Analysis of the Methanogen Diversity in Horse and Pony by Using mcrA Gene and Archaeal 16S rRNA Gene Clone ...
more infohttps://www.hindawi.com/journals/archaea/2014/483574/

Absynte: a web tool to analyze the evolution of orthologous archaeal and bacterial gene clusters.  - PubMed - NCBIAbsynte: a web tool to analyze the evolution of orthologous archaeal and bacterial gene clusters. - PubMed - NCBI

Absynte: a web tool to analyze the evolution of orthologous archaeal and bacterial gene clusters.. Despalins A1, Marsit S, ... Absynte (Archaeal and Bacterial Synteny Explorer) is a web-based service designed to display local syntenies in completely ... Each gene composing the synteny can be further queried interactively using either local or remote databases. Absynte results ... chromosomes from the publicly available archaeal and bacterial genomes. The results consist in a dynamic web page where a ...
more infohttps://www.ncbi.nlm.nih.gov/pubmed/21840875

Archaeal integrases and mechanisms of gene capture | Biochemical Society TransactionsArchaeal integrases and mechanisms of gene capture | Biochemical Society Transactions

... horizontal gene transfer; int, integrase gene; intN and intC, N-terminal and C-terminal part of integrase gene; ORF, open ... Archaeal integrases and mechanisms of gene capture. Q. She, B. Shen, L. Chen ... Archaeal integrases and mechanisms of gene capture Message Subject (Your Name) has forwarded a page to you from Biochemical ... Archaeal integrases facilitate the formation of two distinctive types of integrated element within archaeal chromosomes: the ...
more infohttp://www.biochemsoctrans.org/content/32/2/222

Life | Free Full-Text | Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for Analysis of Shared...Life | Free Full-Text | Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for Analysis of Shared...

We report an update of the collection of archaeal Clusters of Orthologous Genes (arCOGs) to cover, on average, 91% of the ... accurate identification of gene orthology and availability of readily expandable clusters of orthologous genes are essential ... protein-coding genes in 168 archaeal genomes. The new arCOGs were constructed using refined algorithms for orthology ... A new level of classification is introduced, superclusters that untie two or more arCOGs and more completely reflect gene ...
more infohttps://www.mdpi.com/2075-1729/5/1/818

Integrative modeling of gene and genome evolution roots the archaeal tree of lifeIntegrative modeling of gene and genome evolution roots the archaeal tree of life

This model uses evidence from gene duplications, horizontal transfers, and gene losses contained in 31,236 archaeal gene ... Integrative modeling of gene and genome evolution roots the archaeal tree of life. ... a relatively small-genomed archaeal ancestor that subsequently increased in complexity via gene duplication and horizontal gene ... A root for the archaeal tree is essential for reconstructing the metabolism and ecology of early cells and for testing ...
more infohttps://library.wur.nl/WebQuery/wurpubs/562821

MED: a new non-supervised gene prediction algorithm for bacterial and archaeal genomes | BMC Bioinformatics | Full TextMED: a new non-supervised gene prediction algorithm for bacterial and archaeal genomes | BMC Bioinformatics | Full Text

It continues to be interesting to develop new ab initio algorithms which not only accurately predict genes, but also facilitate ... a lack of comprehensive understanding of prokaryotic gene structures prevents from further elucidation of differences among ... Despite a remarkable success in the computational prediction of genes in Bacteria and Archaea, ... It is still problematic to evaluate gene prediction for archaeal genomes due to the insufficient number of genes confirmed by ...
more infohttps://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-8-97

Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea | Biology Direct |...Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea | Biology Direct |...

Horizontal Gene TransferGene GainArchaeal GenomeDescendant NodeReverse Gyrase. Background. A robust classification of genes ... The arCOGs were used to reconstruct gene loss and gene gain events during archaeal evolution and gene sets of ancestral forms. ... The Last Archaeal Common Ancestor (LACA) is conservatively estimated to possess 996 genes compared to 1245 and 1335 genes for ... The archaeal gene core (protein-coding genes found in all 41 genome) consists of 166 arCOGs. ...
more infohttps://0-biologydirect-biomedcentral-com.brum.beds.ac.uk/articles/10.1186/1745-6150-2-33

Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea | Biology Direct |...Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea | Biology Direct |...

The arCOGs were used to reconstruct gene loss and gene gain events during archaeal evolution and gene sets of ancestral forms. ... The Last Archaeal Common Ancestor (LACA) is conservatively estimated to possess 996 genes compared to 1245 and 1335 genes for ... The archaeal gene core (protein-coding genes found in all 41 genome) consists of 166 arCOGs. ... New Archaeal Clusters of Orthologous Genes (arCOGs) were constructed for 41 archaeal genomes (13 Crenarchaeota, 27 ...
more infohttps://biologydirect.biomedcentral.com/articles/10.1186/1745-6150-2-33/figures/2

Stabilization of an archaeal DNA-sliding clamp protein, PCNA, by proteasome-activating nucleotidase gene knockout in Haloferax...Stabilization of an archaeal DNA-sliding clamp protein, PCNA, by proteasome-activating nucleotidase gene knockout in Haloferax...

Stabilization of an archaeal DNA-sliding clamp protein, PCNA, by proteasome-activating nucleotidase gene knockout in Haloferax ... Watson JD, Baker TA, Bell SP, Gann A, Levine M & Losick R (2008) Molecular Biology of the Gene. Cold Spring Harbor Laboratory ... Baumann A, Lange C & Soppa J (2007) Transcriptome changes and cAMP oscillations in an archaeal cell cycle. BMC Cell Biol 8: 21 ... Kirkland, P. A. and Maupin-Furlow, J. A. (2009), Stabilization of an archaeal DNA-sliding clamp protein, PCNA, by proteasome- ...
more infohttp://onlinelibrary.wiley.com/doi/10.1111/j.1574-6968.2009.01547.x/references

When evaluating bacterial and archaeal genomes for genes, why must researchers evaluate six open reading frames? - AnswerMenuWhen evaluating bacterial and archaeal genomes for genes, why must researchers evaluate six open reading frames? - AnswerMenu

When evaluating bacterial and archaeal genomes for genes, why must researchers evaluate six open reading frames? ... To map genes of a bacterial strain, conjugation must be interrupted at given times. Suppose you have Hfr cells of genotype a+b+ ... For codominant genes, a superscript is used. For example, the human blood type A allele is indicated as IA and the Type B ... For codominant genes, the standard procedure of using capital and lowercase letters for the different alleles is inadequate. ...
more infohttp://www.answermenu.com/3189/evaluating-bacterial-archaeal-researchers-evaluate-reading

Bootstrap analysis of the distribution of PAM distances | Open-iBootstrap analysis of the distribution of PAM distances | Open-i

Results: We have developed a suite of programs that automate three essential steps to study conservation of gene order, and ... Results: We have developed a suite of programs that automate three essential steps to study conservation of gene order, and ... Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data. ... Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data. ...
more infohttps://openi.nlm.nih.gov/detailedresult.php?img=PMC2238764_1471-2148-7-237-5&req=4

Cryo-electron microscopy of AMD plasma cells with putat | Open-iCryo-electron microscopy of AMD plasma cells with putat | Open-i

Mentions: In addition to flagellar assembly genes, a number of the AMD plasma genomes contain genes for Type II secretion or ... Bottom Line: These results greatly expand genomic information available for this archaeal order.These results indicate that ... Mentions: In addition to flagellar assembly genes, a number of the AMD plasma genomes contain genes for Type II secretion or ... Only Aplasma and Eplasma have a full suite of flagellar genes whereas all but the Ferroplasma spp. have genes for pili ...
more infohttps://openi.nlm.nih.gov/detailedresult.php?img=PMC3750248_1471-2164-14-485-5&req=4

A Molecular View of Microbial Diversity and the Biosphere | ScienceA Molecular View of Microbial Diversity and the Biosphere | Science

... other archaeal genes seem decidedly eukaryotic in nature; still other archaeal genes are unique. Nonetheless, the recently ... of domain-specific oligonucleotide probes to rRNA genes obtained by PCR indicates that bacterial genes outnumber archaeal genes ... Some metabolic archaeal genes, for instance, appear much more highly related to specific bacterial versions than to their ... "Shotgun libraries" of random DNA fragments are a source of rRNA, as well as other genes, but require sorting of rRNA genes from ...
more infohttps://science.sciencemag.org/content/276/5313/734?ijkey=11146c2b103e767a03433d3a0311708f9287fb71&keytype2=tf_ipsecsha

Frontiers | Organic Matter Regulates Ammonia-Oxidizing Bacterial and Archaeal Communities in the Surface Sediments of...Frontiers | Organic Matter Regulates Ammonia-Oxidizing Bacterial and Archaeal Communities in the Surface Sediments of...

... and concentrations of TOC and urease were found to be significantly correlated with the prominent archaeal amoA genotype ... The archaeal and bacterial amoA gene sequences in this study were found to be closely related with those detected in soil and ... Phylogeny of Bacterial and Archaeal amoA Genes. Ammonia-Oxidizing Bacteria (AOB). A total of 45 AOB OTUs were detected in all ... amoA Gene Abundances and Potential Ammonia Oxidation Rates. The copy number of AOB amoA genes ranged from 1.07 × 105 to 2.90 × ...
more infohttps://www.frontiersin.org/articles/10.3389/fmicb.2018.02290/full

Frontiers | Formate-Dependent Microbial Conversion of CO2 and the Dominant Pathways of Methanogenesis in Production Water of...Frontiers | Formate-Dependent Microbial Conversion of CO2 and the Dominant Pathways of Methanogenesis in Production Water of...

FIGURE 2. Phylogenetic tree of archaeal genes retrieved from five samples (shown with different color). Sequences were ... FIGURE 3. Phylogenetic tree of bacterial genes retrieved from five samples (shown with different color). Sequences were ... By using bacterial gene specific primers, a total of 365 sequences were obtained and then analyzed with the 97% similarity to ... The partial gene sequences for bacteria and archaea obtained from the clone libraries were submitted to GenBank database under ...
more infohttps://www.frontiersin.org/articles/10.3389/fmicb.2016.00365/full

Debian -- jessie のサブセクション science に含まれるソフトウェアパッケージDebian -- "jessie" のサブセクション science に含まれるソフトウェアパッケージ

Microbial (bacterial and archaeal) gene finding program. profbval (1.0.22-1). predictor of flexible/rigid protein residues from ... predictor of Gene Ontology terms from protein sequence - data files. metastudent-data-2 (1.0.0-1). predictor of Gene Ontology ... bayesian estimation of gene trees taking the species tree into account. primer3 (2.3.6-1). DNA 増幅用隣接オリゴヌクレオチド設計ツール. proalign ( ... location of genes from DNA sequence with hidden markov model. snaphu (1.4.2-2) [non-free]. Statistical-Cost, Network-Flow ...
more infohttps://packages.debian.org/ja/jessie/all/science/

Debian -- Пакети в „jessie, Под-раздел scienceDebian -- Пакети в „jessie", Под-раздел science

Microbial (bacterial and archaeal) gene finding program. profbval (1.0.22-1). predictor of flexible/rigid protein residues from ... predictor of Gene Ontology terms from protein sequence - data files. metastudent-data-2 (1.0.0-1). predictor of Gene Ontology ... Gene detection in archea and bacteria. timbl (6.4.4-4). Tilburg Memory Based Learner. timblserver (1.7-4). Server extensions ... location of genes from DNA sequence with hidden markov model. snaphu (1.4.2-2) [non-free]. Statistical-Cost, Network-Flow ...
more infohttps://packages.debian.org/bg/jessie/powerpc/science/

Gene expression - ConservapediaGene expression - Conservapedia

What happens to all this excess RNA? Eukaryotic genes (and some Archaeal gene) contain internal junk (discovered in 1977). ... Genes are segments of DNA that contain the information required to make a protein. Gene expression refers to all the processes ... The size of introns is species-specific: yeasts have very few, some human genes can have 50 in a single gene! Typically there ... Gene expression is the process by which a DNA sequence yields a functional product such as, for example, protein.[1] If the DNA ...
more infohttps://www.conservapedia.com/index.php?title=Gene_expression

Effects of Rhizophora mangle leaf litter and seedlings on carbon and nitrogen cycling in salt marshes - potential consequences...Effects of Rhizophora mangle leaf litter and seedlings on carbon and nitrogen cycling in salt marshes - potential consequences...

1)Archaeal gene for ammonia monooxygenase subunit A, (2) bacterial gene for ammonia monooxygenase subunit A, (3) gene for the ... the bacterial amoA gene, the nxrB gene, the nirK gene, the nirS gene, the norB gene, the nosZ gene, and the nifH gene were 58 ° ... Like the abundance of the archaeal amoA gene, the abundance of the nxrB gene, which is a key gene of nitrite-oxidizing bacteria ... The gene abundances within cluster C1, containing the archaeal amoA, the bacterial amoA, the norB, and the nifH genes, were ...
more infohttps://link.springer.com/article/10.1007%2Fs11104-018-3611-z

tbp - TATA-box-binding protein - Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330...tbp - TATA-box-binding protein - Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330...

General factor that plays a role in the activation of archaeal genes transcribed by RNA polymerase. Binds specifically to the ... General factor that plays a role in the activation of archaeal genes transcribed by RNA polymerase. Binds specifically to the ... p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source ... Four distinct tokens exist: Name, Synonyms, Ordered locus names and ORF names.,p>,a href=/help/gene_name target=_top ...
more infohttp://www.uniprot.org/uniprot/O27664

tbp - TATA-box-binding protein - Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) - tbp...tbp - TATA-box-binding protein - Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) - tbp...

General factor that plays a role in the activation of archaeal genes transcribed by RNA polymerase. Binds specifically to the ... General factor that plays a role in the activation of archaeal genes transcribed by RNA polymerase. Binds specifically to the ... p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source ... Four distinct tokens exist: Name, Synonyms, Ordered locus names and ORF names.,p>,a href=/help/gene_name target=_top ...
more infohttp://www.uniprot.org/uniprot/O58737

Crump BC[au] - PubMed - NCBICrump BC[au] - PubMed - NCBI

Seasonal changes in bacterial and archaeal gene expression patterns across salinity gradients in the Columbia River coastal ... Microspatial gene expression patterns in the Amazon River Plume.. Satinsky BM, Crump BC, Smith CB, Sharma S, Zielinski BL, ... Expression patterns of elemental cycling genes in the Amazon River Plume.. Satinsky BM, Smith CB, Sharma S, Landa M, Medeiros ... Microbial Gene Abundance and Expression Patterns across a River to Ocean Salinity Gradient. ...
more infohttps://www.ncbi.nlm.nih.gov/pubmed?cmd=search&term=Crump+BC%5Bau%5D&dispmax=50

Antievolution.org - Antievolution.org Discussion Board -Topic::The Origins of PhotosynthesisAntievolution.org - Antievolution.org Discussion Board -Topic::The Origins of Photosynthesis

2000 How Much Did Horizontal Gene Transfer Contribute to Early Evolution?:. Quantifying Archaeal Genes in Two Bacterial ... Gene duplication has generated a heterodimeric reaction center that subsequently evolved to the PSI present in cyanobacteria, ... Further insight into the evolution of photosynthesis will have to rely on additional broader sampling of photosynthesis genes ... Further insight into the evolution of photosynthesis will have to rely on additional broader sampling of photosynthesis genes ...
more infohttp://www.antievolution.org/cgi-bin/ikonboard/ikonboard.cgi?s=59ead8ea899ef7f3