Diversity of Eukaryotic Translational Initiation Factor eIF4E in Protists
These features challenge some of the concepts and assumptions about regulation of gene expression in eukaryotes. In this paper ... and other related processes are most closely related to archaeal genes, whereas operational genes such as those involved in ... 2. Origin of Eukaryotes. Eubacteria and Archaea show tremendous diversity in their metabolic capabilities but have limited ... These features challenge some of the concepts and assumptions about the regulation of gene expression in eukaryotes. Like ...https://www.hindawi.com/journals/ijg/2012/134839/
Sandwalk: Answering two questions from Vincent Torley
You could start by asking Stephen Meyer what he means by 'epigenetic information.' If it's just regulation of gene expression ... So nucleosomes were already used to turn genes on and off, and eukaryotes just evolved a more complex way of doing so. With ... archaea use nucleosomes for gene regulation, but do not use histone modifications. ... The interplay between nucleoid organization and transcription in archaeal genomes. Peeters et al. Nature Reviews Microbiology ...http://sandwalk.blogspot.com/2016/01/answering-two-questions-from-vincent.html
Evolutionary relationships of bacterial and archaeal glutamine synthetase genes | SpringerLink
Genes for GSI have been found only in bacteria... ... Molecular analysis and regulation of the glnA gene of the Gram- ... and archaea (archaebacteria), while GSII genes only occur in eukaryotes and a few soil-dwelling bacteria. GSIII genes have been ... Possot O, Sibold L, Aubert JP (1989) Nucleotide sequence and expression of the glutamine synthetase gene, glnA of the archaea ... Cyanobacterial genes lack adenylylation regulation of GS and may have secondarily lost it. The GSI gene of Sulfolobus ...https://link.springer.com/article/10.1007/BF00175876
Protein Acetylation in Archaea, Bacteria, and Eukaryotes
Published since 2002, Archaea provides a unique venue for exchanging information about these extraordinary prokaryotes. ... Open Access journal that publishes original research articles as well as review articles dealing with all aspects of archaea, ... therefore differential acetylation is a means for the regulation of gene expression via differential DNA compaction. Several ... the presence of several genes for HATs and HDACs in archaeal genomes, essentiality of HdaI and Pat2/Elp3 in H. volcanii, and ...https://www.hindawi.com/journals/archaea/2010/820681/
Uniting sex and eukaryote origins in an emerging oxygenic world
In most archaea, the genes for the HerA ATPase and the NurA nuclease, the enzymes implicated in DNA pumping during both binary ... those involved in gene expression, transcription, and translation) were less affected by replacements via HGT or EGT because ... The deep archaeal roots of eukaryotes. Mol Biol Evol. 2008;25(8):1619-1630. doi: 10.1093/molbev/msn108. [PubMed] [Cross Ref] ... allosteric regulation, redox sensitivity, and new enzymatic activities [79-81]. This resulted in a phylogenetic profile that is ...http://pubmedcentralcanada.ca/pmcc/articles/PMC2933680/
Irreducible Complexity Demystified
Biologists usually call this regulation of gene expression, or just gene regulation. From another point of view, it is called ... The Eukaryote Cilium. The Archaeal Flagellum. The Bacterial Flagellum. IC Cores. How Does Irreducible Complexity Get Its Charm? ... Most genes are members of gene families that have grown through gene duplication over time. The time since a particular ... The Archaeal Flagellum Archaebacteria, or Archaea for short, have recently been recognized as an important group of microbes ...http://www.talkdesign.org/faqs/icdmyst/ICDmyst.html
Li C. Xia's Profile | Stanford Profiles
We applied the eLSA technique to microbial community and gene expression datasets, where unique time-dependent associations ... Marine bacterial, archaeal and protistan association networks reveal ecological linkages ISME JOURNAL Steele, J. A., Countway, ... CoreProbe: A Novel Algorithm for Estimating Relative Abundance Based on Metagenomic Reads. Genes Ai, D., Pan, H., Huang, R., ... The analysis revealed a progression of microbial communities through time, and also a group of unknown eukaryotes that were ...https://profiles.stanford.edu/lixia
The organization, expression, function and evolution of some essential genes from the hyperthermophilic eubacterium thermotoga...
Gene, 109: 39-45. Dean, D., and Nomura, M. (1980) Feedback regulation of ribosomal protein gene expression in Escherichia coli ... In eukaryotes, these genes are not linked (Newton et al., 1990) and the L12 gene has undergone a very ancient duplication that ... Gene, 28: 351-359. Hensel, R., Jakob, I., Scheer, H., and Lottspeich, F. (1992) Proteins from hyperthermophilic archaea: ... represents a novel heterotrophic marine archaeal hyperthermophile growing at 110°C. System. Appl. Microbiol., 14: 245-2533. ...https://open.library.ubc.ca/cIRcle/collections/ubctheses/831/items/1.0098821
Responses of hyperthermophilic crenarchaea to UV irradiation | Genome Biology | Full Text
Archaeal information processing pathways resemble those in eukaryotes, but archaeal damage response pathways remain poorly ... No increase in expression of DNA repair genes following UV irradiation was observed. There was, however, a clear ... A clear response to DNA damage was observed, with down-regulation of the DNA replication machinery, changes in transcriptional ... Differential effects on the expression of the three transcription factor B (tfb) genes hint at a mechanism for the modulation ...https://genomebiology.biomedcentral.com/articles/10.1186/gb-2007-8-10-r220
Expanding genetic code: Amino acids 21 and 22, selenocysteine and pyrrolysine, Russian Journal of Genetics | 10.1134...
Heterologous Expression of Archaeal Selenoprotein Genes Directed by the SECIS Element Located in the 3' Non-Translated Region ... The Trimethylamine Methyltransferase Gene and Multiple Dimethylamine Methyltransferase Genes of Methanosarcina barkeri Contain ... Selenoprotein Synthesis in Archaea: Identification of an mRNA Element of Methanococcus jannaschii Probably Directing ... Selenocysteylation in Eukaryotes Necessitates the Uniquely Long Aminoacyl Acceptor Stem of Selenocysteine tRNA ...https://www.deepdyve.com/lp/springer_journal/expanding-genetic-code-amino-acids-21-and-22-selenocysteine-and-Ku0kQ9nltY
Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes | Genome Biology |...
A candidate riboswitch termed crcB is represented in both bacteria and archaea. Another RNA motif may control gene expression ... and gene regulation. Structured RNAs can be detected by comparative genomics, in which homologous sequences are identified and ... we expect that far more structured RNAs remain to be discovered from bacterial and archaeal organisms. ... This work greatly expands the variety of highly structured noncoding RNAs known to exist in bacteria and archaea and provides a ...https://genomebiology.biomedcentral.com/articles/10.1186/gb-2010-11-3-r31
The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism
Dorman CJ, Deighan P. Regulation of gene expression by histone-like proteins in bacteria. Curr Opin Genet Dev. 2003;13:179-184. ... Homologs of Alba were also detected in most other archaea and certain eukaryotes [10,12] suggesting that it was an ancient ... The interaction of Alba, a conserved archaeal chromatin protein, with Sir2 and its regulation by acetylation. Science. 2002;296 ... Genes Dev. 1998;12:1678-1690. [PubMed]. *Eder PS, Kekuda R, Stolc V, Altman S. Characterization of two scleroderma autoimmune ...http://pubmedcentralcanada.ca/pmcc/articles/PMC328453/?lang=en-ca
The microbial selenoproteome of the Sargasso Sea | Genome Biology | Full Text
We identified 310 selenoprotein genes that clustered into 25 families, including 101 new selenoprotein genes that belonged to ... Several bacterial selenoproteins previously thought to be restricted to eukaryotes were detected by analyzing eukaryotic and ... precluding identification of selenoprotein genes by available annotation tools. Information on full sets of selenoproteins ( ... Thanbichler M, Böck A: The function of SECIS RNA in translational control of gene expression in Escherichia coli. EMBO J. 2002 ...https://genomebiology.biomedcentral.com/articles/10.1186/gb-2005-6-4-r37
RNA degradation can be an essential aspect in the regulation of - Structure of Rhomboid Protease in Complex with β-Lactam...
This complicated orthologous towards the RNA degrading exosome of eukarya is situated in all the archaeal genomes sequenced so ... adding to controlled gene expression thus. Microarray technology allows the scholarly research of mRNA half-lives of ... offering the first proof that mRNA decay can be an 1010411-21-8 supplier important part of gene legislation in archaea. ... genes encoding the counterparts from the primary subunits of the exosome aren't within the genomes of NRC-1 and (22). Latest ...http://rectalcancersite.com/rna-degradation-can-be-an-essential-aspect-in-the-regulation-of/
How Likely Are We? Evolution of Organismal Complexity | SpringerLink
I discuss the differences between bacteria and archaea... ... All complex multicellular organisms are eukaryotes. How did the ... Eukaryotes can generate substantially more energy per gene than prokaryotes, and this has been suggested as the key enabler of ... Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. Nat ... Xie Y, Reeve JN (2004) Transcription by an Archaeal RNA polymerase is slowed but not blocked by an Archaeal nucleosome. J ...https://link.springer.com/chapter/10.1007%2F978-3-319-41324-2_15
The Alternative Route to Heme in the Methanogenic Archaeon Methanosarcina barkeri
Archaea is a peer-reviewed, Open Access journal that publishes original research articles as well as review articles dealing ... with all aspects of research on the archaea, including bioinformatics, biotechnology, environmental adaptation, enzymology, ... a third mechanism might be that heme-bound AhbAB might somehow influence gene expression of the heme biosynthesis genes. In ... represents another example for a feedback-regulation by heme. In this case, gene expression and protein stability were reported ...https://www.hindawi.com/journals/archaea/2014/327637/
SMART: Secondary literature for RPOL9 domain
Gene within gene configuration and expression of the Drosophila melanogaster genes lethal(2) neighbour of tid [l(2)not] and ... a role for yeast EAP-like proteins in regulation of gene expression by glucose. ... The transcription of nucleus-encoded genes in eukaryotes is performed by three distinct RNA polymerases termed I, II, and III, ... Hs10 beta, but not the archaeal subunit, complemented an S. cerevisiae mutant (rpb10-delta 1::HIS3) lacking Sc10 beta. Hs8 ...http://smart.embl-heidelberg.de/smart/show_secondary.cgi?domain=RPOL9
Carl Woese - Wikipedia
... a locus of intense activity on the molecular biology of gene expression and gene regulation. While in Paris, he met Sol ... Having defined Archaea as a new "urkingdom" (later domain) which were neither bacteria nor eukaryotes, Woese redrew the ... "Archaeal phylogenomics provides evidence in support of a methanogenic origin of the Archaea and a thaumarchaeal origin for the ... level of complexity and connectedness that made genes from other organisms much less able to displace an individual's own genes ...https://en.wikipedia.org/wiki/Carl_Woese
Polyadenylation - Wikipedia
... forms part of the larger process of gene expression. The process of polyadenylation begins as the transcription of a gene ... This enzyme is found in bacteria, mitochondria, plastids and as a constituent of the archaeal exosome (in those archaea that ... Colgan, D. F.; Manley, J. L. (1997). "Mechanism and regulation of mRNA polyadenylation". Genes & Development. 11 (21): 2755-66 ... It is presumed that the horizontal transfer of bacterial CCA-adding enzyme to eukaryotes allowed the archaeal-like CCA-adding ...https://en.wikipedia.org/wiki/Polyadenylation
MARINE-EXPRESS: taking advantage of high throughput cloning and expression strategies for the post-genomic analysis of marine...
Genes were PCR amplified and cloned in parallel into expression vectors pFO4 and pGEX-4T-1, in order to express proteins N- ... soluble protein expression from marine bacteria, archaea as well as eukaryotic organisms. This success rate compares favorably ... Small-scale expression and purification permitted isolation of 84 soluble proteins and 34 insoluble proteins, which could also ... Our set up of a medium throughput strategy applied to genes from marine organisms had a mean success rate of 44% ...https://microbialcellfactories.biomedcentral.com/articles/10.1186/1475-2859-9-45
The Bridge Helix of RNA Polymerase Acts as a Central Nanomechanical Switchboard for Coordinating Catalysis and Substrate...
... which is responsible for the highly regulated expression of all protein-encoding genes in eukaryotes. Archaeal RNAP subunits ... Regulation of gene expression via the core promoter and the basal transcriptional machinery. Developmental Biology. 2010;339(2 ... archaea, and eukaryotes), there appears to be a clearly discernible divergence in the structural features of BH-HN between ... Control regions of an archaeal gene. A TATA box and an initiator element promote cell-free transcription of the tRNA(Val) gene ...http://pubmedcentralcanada.ca/pmcc/articles/PMC3270539/
The Tubular Sheaths Encasing Methanosaeta thermophila Filaments Are Functional Amyloids
Archaea form a distinct domain in the tree of life that is separate and unique from bacteria and eukarya (1). Upon their ... Increased knowledge about the constituents of the archaeal cell envelopes is essential for understanding how specific archaea ... Genes Dev. 17, 1714-1726 [PubMed]. 53. Elliot M. A., Karoonuthaisiri N., Huang J., Bibb M. J., Cohen S. N., Kao C. M., Buttner ... M. S. D. designed and constructed vectors for expression of recombinant MspA. M. S. D., M. R. S., B. S. V., and A. B. performed ...http://pubmedcentralcanada.ca/pmcc/articles/PMC4536462/
The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism |...
Dorman CJ, Deighan P: Regulation of gene expression by histone-like proteins in bacteria. Curr Opin Genet Dev. 2003, 13: 179- ... Homologs of Alba were also detected in most other archaea and certain eukaryotes [10, 12] suggesting that it was an ancient ... The Alba superfamily contains two eukaryote-specific families and one archaeal family. We present different lines of evidence ... Genes Dev. 1998, 12: 1678-1690.PubMedPubMed CentralView ArticleGoogle Scholar. ...https://genomebiology.biomedcentral.com/articles/10.1186/gb-2003-4-10-r64
Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks | BMC...
... that detects putative co-regulated gene groupings by integrating the biclustering of gene expression data and various ... clustering of genes and conditions) is more appropriate than standard clustering. Co-regulated genes are also often ... We have applied this procedure to the archaeon Halobacterium NRC-1, as part of our efforts to decipher its regulatory network. ... and find that cMonkey biclusters are more parsimonious with all available evidence for co-regulation. ...https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-7-280
Microbial genetics - Wikipedia
... in order to develop the operon model of gene expression, which lay down the basis of gene expression and regulation. ... Chambers, Cecilia R.; Patrick, Wayne M. (2015). "Archaeal Nucleic Acid Ligases and Their Potential in Biotechnology". Archaea. ... E. coli conjugation is mediated by expression of plasmid genes, whereas mycobacterial conjugation is mediated by genes on the ... They share a common ancestor with bacteria, but are more closely related to eukaryotes in comparison to bacteria. Some ...https://en.wikipedia.org/wiki/Microbial_Genetics