All life depends on the reliable translation of RNA to protein according to complex interactions between translation machinery and RNA sequence features. While ribosomal occupancy and codon frequencies vary across coding regions, well-established metrics for computing coding potential of RNA do not capture such positional dependence. Here, we investigate position-dependent...
Cuphea is an herbaceous genus having species whose seed
storage lipids are predominantly medium-chain triglycerides (MCTs).
Cuphea lanceolate Ait, and Cuphea viscosissima Jacq. are central to
the breeding of Cuphea as a new commercial source of MCTs. The
objectives of this thesis were to develop a reliable method to
extract...
Gene transfer via interspecific hybridization within Phaseolus has
been limited by abnormal hybrid development and the rapid loss of
hybridity in subsequent generations. The most advanced embryo
development occurs in P. vulgaris x P. coccineus where mature seeds
form. However, the reciprocal cross still results in abnormal embryos
unable to...
Rainbow trout cystatin C cDNA has been isolated from
trout liver. The full-length cystatin cDNA (674 bp)
included the 5'untranslated region and the polyadenylation
signal sequence AATAAA in the 3' region. Translation of
the cDNA defines 132 amino acid residues. Comparison of
the amino acid sequence with those of family...
The United States Pacific Northwest is well known for its shellfish farming. Historically, commercial harvests were dominated by the native Olympia oyster, Ostrea lurida, but over-exploitation, habitat degradation, and competition and predation by non-native species has drastically depleted their densities and extirpated many local populations. As a result, shellfish aquaculture...
Cooperative behaviors in bacteria are increasingly appreciated for their relevance to microbial ecology and utility as model systems for social evolution. One example is the secretion of siderophores, a structurally diverse group of compounds that chelate extracellular iron. Siderophore production is considered cooperative because the benefits can be shared with...
The Gene Ontology (GO) Consortium (http://www.geneontology.org) (GOC) continues to develop,
maintain and use a set of structured, controlled
vocabularies for the annotation of genes, gene
products and sequences. The GO ontologies
are expanding both in content and in structure.
Several new relationship types have been introduced
and used, along with...
Hop (Humulus lupulus L. var. lupulus) is a diploid, dioecious plant with an extensive history of cultivation and use in brewing, as a textile, and for its therapeutic properties. Hop is prized for its ability to produce a variety of aromatic and flavor compounds, as well as compounds with anti-microbial...
A new functional gene database, FOAM (Functional
Ontology Assignments for Metagenomes), was developed
to screen environmental metagenomic sequence
datasets. FOAM provides a new functional
ontology dedicated to classify gene functions relevant
to environmental microorganisms based on Hidden
Markov Models (HMMs). Sets of aligned protein
sequences (i.e. ‘profiles’) were tailored to...
Full Text:
Metagenomes): a Hidden
Markov Model (HMM) database with environmental focus
Prestat, E., David, M. M
Hop powdery mildew [Podosphaera macularis (Wallr.) U. Braun & S. Takam.] is best controlled via the production of resistant varieties. Recent evidence supports selection against plant susceptibility genes to fungal pathogens as a more durable resistance mechanism than selection for resistance genes. The objective of this study was to identify...