Translational selection is operative for synonymous codon usage in
... is not skewed and there is a low (but detectable) level of heterogeneity among genes, codon usage does not appear to be influenced simply by mutational biases or translational selection (Lafay et al., 2000). Furthermore, in Mycobacterium tuberculosis, although the ‘classical’ factors are apparent, i ...
... is not skewed and there is a low (but detectable) level of heterogeneity among genes, codon usage does not appear to be influenced simply by mutational biases or translational selection (Lafay et al., 2000). Furthermore, in Mycobacterium tuberculosis, although the ‘classical’ factors are apparent, i ...
Berleman, J. Analysis of inter-species interactions and
... Firmicutes, and the furanosyl borate diester (commonly called autoinducer 2, or AI-2) which is dependent on activity of the LuxS protein and present in many domains of bacteria. However, analysis of 818 currently available complete bacterial genomes indicates that only 322 (39%) of these genomes con ...
... Firmicutes, and the furanosyl borate diester (commonly called autoinducer 2, or AI-2) which is dependent on activity of the LuxS protein and present in many domains of bacteria. However, analysis of 818 currently available complete bacterial genomes indicates that only 322 (39%) of these genomes con ...
Figures and figure supplements
... ERV-Fc phylogenies (right); dashed lines match species and the ERV-Fc found within their genome. The host phylogeny was adapted from (BinindaEmonds et al., 2007), while the ERV-Fc phylogeny is a supertree generated using Matrix Representation Parsimony (MRP) based on CA and Gag amino acid phylogenie ...
... ERV-Fc phylogenies (right); dashed lines match species and the ERV-Fc found within their genome. The host phylogeny was adapted from (BinindaEmonds et al., 2007), while the ERV-Fc phylogeny is a supertree generated using Matrix Representation Parsimony (MRP) based on CA and Gag amino acid phylogenie ...
Taxonomic characterization of Ochrobactrum sp. isolates from soil
... O. anthropi in soils makes them an ideal tool for ecological studies on microbial diversity at different scales of taxonomic resolution and for an evaluation of exogenous influences on microbial diversity in soil. It is, however, an essential prerequisite for such studies to unambiguously identify a ...
... O. anthropi in soils makes them an ideal tool for ecological studies on microbial diversity at different scales of taxonomic resolution and for an evaluation of exogenous influences on microbial diversity in soil. It is, however, an essential prerequisite for such studies to unambiguously identify a ...
Nucleic Acids Research
... the 2.0 kb BamHI to HindIII segment from the right side of fragment HindIII22 (Fig. 1). This 2.0 kb BamHI-HindIII fragment was isolated from pMON69 and inserted into similarly cleaved pBR327 to yield pMON99. The 2.0 kb insert was mapped by cleavage with various restriction endonucleases to provide t ...
... the 2.0 kb BamHI to HindIII segment from the right side of fragment HindIII22 (Fig. 1). This 2.0 kb BamHI-HindIII fragment was isolated from pMON69 and inserted into similarly cleaved pBR327 to yield pMON99. The 2.0 kb insert was mapped by cleavage with various restriction endonucleases to provide t ...
Cloning and functional expression of invertebrate connexins from
... E-mail address: [email protected] (T.W. White). ...
... E-mail address: [email protected] (T.W. White). ...
Molecular evolutionary analysis of the American pika
... confer a fitness advantage in a changing environment or improvement of the competitive ability of individuals or phenotypes within a population (Kimura 1984; Nei 1987). We often consider that this process occurs after the initial appearance of a new allele that has ...
... confer a fitness advantage in a changing environment or improvement of the competitive ability of individuals or phenotypes within a population (Kimura 1984; Nei 1987). We often consider that this process occurs after the initial appearance of a new allele that has ...
Amino Acid Phylogeny
... organisms that appear to have few physical similarities may have similar sequences of amino acids in their proteins and be closely related through evolution. Many researchers believe that the greater the similarity in the amino-acid sequences of two organisms, the more closely related they are in an ...
... organisms that appear to have few physical similarities may have similar sequences of amino acids in their proteins and be closely related through evolution. Many researchers believe that the greater the similarity in the amino-acid sequences of two organisms, the more closely related they are in an ...
Plant and Soil.
... are advantageous because they allow recognition of closely related strains and they are easy and fast to perform. RFLP analysis of ribosomal genes or PCRfragments of ribosomal genes are useful to distinguish groups. Bradyrhizobium specific probes, Rhizobium and Bradyrhizobium species-specific and ev ...
... are advantageous because they allow recognition of closely related strains and they are easy and fast to perform. RFLP analysis of ribosomal genes or PCRfragments of ribosomal genes are useful to distinguish groups. Bradyrhizobium specific probes, Rhizobium and Bradyrhizobium species-specific and ev ...
Distribution and phylogenies of enzymes of the Embden
... has gained wide acceptance, although it has detractors. However, even a putative RNA-based “organism” could have arisen only from a prebiotic chemical environment conducive to its existence (Poole et al. 1999). Although these theories and their associated predictions have done much to provide explan ...
... has gained wide acceptance, although it has detractors. However, even a putative RNA-based “organism” could have arisen only from a prebiotic chemical environment conducive to its existence (Poole et al. 1999). Although these theories and their associated predictions have done much to provide explan ...
Deoxyribonucleic Acid Base Compositions and Nucleotide
... tide distribution, (TI + guanine-plus-cytosine (G+C) frequency curves (6), describe an additional physicochemical quality of the bacterial genome. The DNA nucleotide distributions of some 2,500 bacterial strains were found to be “quite similar within each genus,” but varied considerably between gene ...
... tide distribution, (TI + guanine-plus-cytosine (G+C) frequency curves (6), describe an additional physicochemical quality of the bacterial genome. The DNA nucleotide distributions of some 2,500 bacterial strains were found to be “quite similar within each genus,” but varied considerably between gene ...
What is a Multiple Sequence Alignment?
... It does not separate the process of scoring an alignment from the optimization algorithm It does not directly optimize any global scoring scoring function of “alignment correctness”. It is fast, efficient and the results are reasonable. We will illustrate this using ClustalW. ...
... It does not separate the process of scoring an alignment from the optimization algorithm It does not directly optimize any global scoring scoring function of “alignment correctness”. It is fast, efficient and the results are reasonable. We will illustrate this using ClustalW. ...
USGENE - Chemical Abstracts Service
... The GETSIM and BLAST run packages are available to search the USGENE database for protein and nucleotide sequence data by similarity (homology). BLAST is provided in USGENE with the permission of the National Center for Biotechnology Information (NCBI) of the National Library of Medicine (NLM). GETS ...
... The GETSIM and BLAST run packages are available to search the USGENE database for protein and nucleotide sequence data by similarity (homology). BLAST is provided in USGENE with the permission of the National Center for Biotechnology Information (NCBI) of the National Library of Medicine (NLM). GETS ...
Characterization of the unique intron
... HI LHCPIIs can not be classified as type I or II based on amino acid sequence and their genes often contain multiple introns. Euglena gracilis, a unicellular protist, has a LHCPII precursor (pLHCPII) that is a polyprotein containing multiple copies of LHCPII covalently joined by a conserved decapept ...
... HI LHCPIIs can not be classified as type I or II based on amino acid sequence and their genes often contain multiple introns. Euglena gracilis, a unicellular protist, has a LHCPII precursor (pLHCPII) that is a polyprotein containing multiple copies of LHCPII covalently joined by a conserved decapept ...
Why Sequence Alignment?
... • Based on the idea that the sequences we usually want to align are phylogenetically related: a pairwise alignment algorithm is used iteratively, first to align the most closely related pair of sequences, then the next most similar one to that pair. •Rule “once a gap, always a gap”: The gaps between ...
... • Based on the idea that the sequences we usually want to align are phylogenetically related: a pairwise alignment algorithm is used iteratively, first to align the most closely related pair of sequences, then the next most similar one to that pair. •Rule “once a gap, always a gap”: The gaps between ...
exon junctions of Euglena gene(s) - DigitalCommons@University of
... photosystem II (LHCPLI) are a group of abundant, highly conserved thylakoid proteins. LHCPIIs are encoded by a nuclear multigene family comprising approximately 3-20 members depending upon the organism studied (1). LHCPIIs have been classified into three types based on the amino acids found at 14 po ...
... photosystem II (LHCPLI) are a group of abundant, highly conserved thylakoid proteins. LHCPIIs are encoded by a nuclear multigene family comprising approximately 3-20 members depending upon the organism studied (1). LHCPIIs have been classified into three types based on the amino acids found at 14 po ...
Relationships Analyzing Amino-Acid Sequences to Determine
... 2. In the study of hemoglobin, which vertebrate is most closely related to humans? Least closely related? 3. Why can it be said that proteins behave like molecular clocks? 4. When the portions of the gorilla and human hemoglobin molecules were compared, there was only one difference in the amino-aci ...
... 2. In the study of hemoglobin, which vertebrate is most closely related to humans? Least closely related? 3. Why can it be said that proteins behave like molecular clocks? 4. When the portions of the gorilla and human hemoglobin molecules were compared, there was only one difference in the amino-aci ...
Standard for the presentation of nucleotide and amino acid
... Table 2, but shall not be shown explicitly in the nucleotide sequence; (iv) “amino acids” are those L-amino acids commonly found in naturally occurring proteins and are listed in Appendix 2, Table 3. Those amino acid sequences containing at least one D-amino acid are not intended to be embraced by t ...
... Table 2, but shall not be shown explicitly in the nucleotide sequence; (iv) “amino acids” are those L-amino acids commonly found in naturally occurring proteins and are listed in Appendix 2, Table 3. Those amino acid sequences containing at least one D-amino acid are not intended to be embraced by t ...
1 Single molecule sequencing of THCA synthase reveals
... may unveil additional diverged pseudogenes. A few intermittent haplogroups had depressed consensus accuracy and are detectable with appropriate quality filtering tools. As a result of these conditions we do not ...
... may unveil additional diverged pseudogenes. A few intermittent haplogroups had depressed consensus accuracy and are detectable with appropriate quality filtering tools. As a result of these conditions we do not ...
Glaudina Mostert
... might still be found or evolve from existing ones. The assignment of isolates to VCG is a time-consuming exercise, which unnecessarily delays the identification of Foc strains associated with new outbreaks of banana Fusarium wilt. Un Until recently, DNA technologies proved insufficient for the devel ...
... might still be found or evolve from existing ones. The assignment of isolates to VCG is a time-consuming exercise, which unnecessarily delays the identification of Foc strains associated with new outbreaks of banana Fusarium wilt. Un Until recently, DNA technologies proved insufficient for the devel ...
ST.25 - WIPO
... (ii) sequences which are included are any unbranched sequences of four or more amino acids or unbranched sequences of ten or more nucleotides. Branched sequences, sequences with fewer than four specifically defined nucleotides or amino acids as well as sequences comprising nucleotides or amino acids ...
... (ii) sequences which are included are any unbranched sequences of four or more amino acids or unbranched sequences of ten or more nucleotides. Branched sequences, sequences with fewer than four specifically defined nucleotides or amino acids as well as sequences comprising nucleotides or amino acids ...
Multiple Manner Transposons in Flatworms and Hydras Are Related
... would be detected. Using this homology PCR approach at least five distinct kinds of mariner family elements were discovered in the genome of D. tigrina, two other flatworms were found to have additional kinds of mariners in their genomes, and two hydras also have multiple mariners in their genomes. ...
... would be detected. Using this homology PCR approach at least five distinct kinds of mariner family elements were discovered in the genome of D. tigrina, two other flatworms were found to have additional kinds of mariners in their genomes, and two hydras also have multiple mariners in their genomes. ...
Theme and variations in the evolutionary pathways to virulence of
... out with a single isolate, is extended here to a range of isolates of the main strains. Isolates representative of the genetic and geographic diversity of RYMV in Africa were inoculated to Rymv1-2-resistant accessions made of cultivars Gigante and Bekarosaka and of four nearly isogenic lines (NILs). ...
... out with a single isolate, is extended here to a range of isolates of the main strains. Isolates representative of the genetic and geographic diversity of RYMV in Africa were inoculated to Rymv1-2-resistant accessions made of cultivars Gigante and Bekarosaka and of four nearly isogenic lines (NILs). ...
Document
... out with a single isolate, is extended here to a range of isolates of the main strains. Isolates representative of the genetic and geographic diversity of RYMV in Africa were inoculated to Rymv1-2-resistant accessions made of cultivars Gigante and Bekarosaka and of four nearly isogenic lines (NILs). ...
... out with a single isolate, is extended here to a range of isolates of the main strains. Isolates representative of the genetic and geographic diversity of RYMV in Africa were inoculated to Rymv1-2-resistant accessions made of cultivars Gigante and Bekarosaka and of four nearly isogenic lines (NILs). ...
Sequence Alignment
... Guide to the Analysis of Genes and Proteins) For nucleotide based searches, one should look for hits with E-values of 10-6 or less and sequence identity of 70% or more For protein based searches, one should look for hits with E-values of 10-3 or less and sequence identity of 25% or more ...
... Guide to the Analysis of Genes and Proteins) For nucleotide based searches, one should look for hits with E-values of 10-6 or less and sequence identity of 70% or more For protein based searches, one should look for hits with E-values of 10-3 or less and sequence identity of 25% or more ...