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Proteorhodopsin
Proteorhodopsin (PR or pRhodopsin) belongs to the Protein family, family of Bacteria, bacterial Transmembrane protein, transmembrane Rhodopsin, rhodopsins (Retinylidene protein, retinylidene proteins). In 1971, the first Microorganism, microbial Transmembrane protein, transmembrane rhodopsin - Bacteriorhodopsin was discovered in Archaea, archea domain by Dieter Oesterhelt and Walther Stoeckenius. Later in 2000, the first Bacteria, bacterial Transmembrane protein, transmembrane Rhodopsin, rhodopsins was discovered by Oded Beja, Oded Béjà and Edward DeLong. The Proteorhodopsin is widely expressed in various type of aquatic habitats. It functions as light-driven Proton pump, proton pumps with the help of retinal chromophore at the active site. The light-driven proton pump gives bacteria energy in the form of adenosine triphosphate (ATP). Discovery Efforts by Oded Beja, Oded Béjà from Edward DeLong research group in pioneering bacterial artificial chromosome metagenomics analysi ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Edward DeLong
Edward Francis DeLong (born 1958), is a marine microbiologist and professor in the Department of Oceanography at the University of Hawaii, Manoa, and is considered a pioneer in the field of metagenomics. He is best known for his discovery of the bacterial use of the rhodopsin protein in converting sunlight to biochemical energy in marine microbial communities. Early life and education DeLong was born in Sonoma, California. He studied biology at Santa Rosa Junior College and obtained an Associate of Science degree in 1980. While continuing his education at the University of California, Davis, DeLong had originally planned on becoming a medical technologist, but after a meeting and working as an undergraduate researcher with bacteriologist Paul Baumann, he found a new interest in marine microbiology. He graduated with a Bachelor of Science degree in bacteriology at UCD in 1982 and moved to the Scripps Institution of Oceanography, where he received a Ph.D. in marine biology after ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Oded Beja
Oded Béjà () is a professor in the Technion-Israel Institute of Technology, in the field of marine microbiology and metagenomics. Academic work Oded Béjà is best known for discovering the first bacterial rhodopsin naming it proteorhodopsin, during his postdoctoral fellowship in the laboratory of Edward DeLong. Oded Béjà's laboratory focuses currently on the role and diversity of photosynthetic viruses infecting cyanobacteria in the oceans, and the use of functional metagenomics for the discovery of new light sensing proteins. In 2018, the team of Oded Beja discovered a new family of rhodopsins with an inverted membrane topology, which can be found in bacteria, algae, algal viruses and archaea. Members of the new family were named heliorhodopsins. Early life and education Oded Béjà graduated with a B.Sc. degree from the Robert H. Smith Faculty of Agriculture, Food and Environment - Hebrew University of Jerusalem. He earned his M.Sc. and Ph.D. from the Weizmann I ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Bacteriorhodopsin
Bacteriorhodopsin (Bop) is a protein used by Archaea, most notably by Haloarchaea, a class of the Euryarchaeota. It acts as a proton pump; that is, it captures light energy and uses it to move protons across the membrane out of the cell. The resulting proton gradient is subsequently converted into chemical energy. Function Bacteriorhodopsin is a light-driven H+ ion transporter found in some Haloarchaea, most notably ''Halobacterium salinarum'' (formerly known as syn. ''H. halobium''). The proton-motive force generated by the protein is used by ATP synthase to generate adenosine triphosphate (ATP). By expressing Bacteriorhodopsin, the archaea cells are able to synthesise ATP in the absence of a carbon source. Structure Bacteriorhodopsin is a 27'' '' kDa integral membrane protein usually found in two-dimensional crystalline patches known as "purple membrane", which can occupy almost 50% of the surface area of the archaeal cell. The repeating element of the hexa ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Protein Family
A protein family is a group of evolutionarily related proteins. In many cases, a protein family has a corresponding gene family, in which each gene encodes a corresponding protein with a 1:1 relationship. The term "protein family" should not be confused with family as it is used in taxonomy. Proteins in a family descend from a common ancestor and typically have similar three-dimensional structures, functions, and significant sequence similarity. Sequence similarity (usually amino-acid sequence) is one of the most common indicators of homology, or common evolutionary ancestry. Some frameworks for evaluating the significance of similarity between sequences use sequence alignment methods. Proteins that do not share a common ancestor are unlikely to show statistically significant sequence similarity, making sequence alignment a powerful tool for identifying the members of protein families. Families are sometimes grouped together into larger clades called superfamilies based on st ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Adenosine Triphosphate
Adenosine triphosphate (ATP) is a nucleoside triphosphate that provides energy to drive and support many processes in living cell (biology), cells, such as muscle contraction, nerve impulse propagation, and chemical synthesis. Found in all known forms of life, it is often referred to as the "molecular unit of currency" for intracellular energy transfer. When consumed in a Metabolism, metabolic process, ATP converts either to adenosine diphosphate (ADP) or to adenosine monophosphate (AMP). Other processes regenerate ATP. It is also a Precursor (chemistry), precursor to DNA and RNA, and is used as a coenzyme. An average adult human processes around 50 kilograms (about 100 mole (unit), moles) daily. From the perspective of biochemistry, ATP is classified as a nucleoside triphosphate, which indicates that it consists of three components: a nitrogenous base (adenine), the sugar ribose, and the Polyphosphate, triphosphate. Structure ATP consists of three parts: a sugar, an amine base ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Bacterial Artificial Chromosome
A bacterial artificial chromosome (BAC) is a DNA construct, based on a functional fertility plasmid (or F-plasmid), used for transforming and cloning in bacteria, usually '' E. coli''. F-plasmids play a crucial role because they contain partition genes that promote the even distribution of plasmids after bacterial cell division. The bacterial artificial chromosome's usual insert size is 150–350 kbp. A similar cloning vector called a PAC has also been produced from the DNA of P1 bacteriophage. BACs were often used to sequence the genomes of organisms in genome projects, for example the Human Genome Project, though they have been replaced by more modern technologies. In BAC sequencing, short piece of the organism's DNA is amplified as an insert in BACs, and then sequenced. Finally, the sequenced parts are rearranged '' in silico'', resulting in the genomic sequence of the organism. BACs were replaced with faster and less laborious sequencing methods like whole genome shot ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Metagenomics
Metagenomics is the study of all genetics, genetic material from all organisms in a particular environment, providing insights into their composition, diversity, and functional potential. Metagenomics has allowed researchers to profile the microbial composition of Natural environment, environmental and clinical samples without the need for time-consuming Microbiological culture, culture of individual species. Metagenomics has transformed microbial ecology and evolutionary biology by uncovering previously hidden biodiversity and metabolic capabilities. As the cost of DNA sequencing continues to decline, metagenomic studies now routinely profile hundreds to thousands of samples, enabling large-scale exploration of microbial communities and their roles in health and global ecosystems. Metagenomic studies most commonly employ shotgun sequencing though Third-generation sequencing, long-read sequencing is being increasingly utilised as technologies advance. The field is also referre ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Gammaproteobacteria
''Gammaproteobacteria'' is a class of bacteria in the phylum ''Pseudomonadota'' (synonym ''Proteobacteria''). It contains about 250 genera, which makes it the most genus-rich taxon of the Prokaryotes. Several medically, ecologically, and scientifically important groups of bacteria belong to this class. All members of this class are Gram-negative. It is the most phylogenetically and physiologically diverse class of the ''Pseudomonadota''. Members of ''Gammaproteobacteria'' live in several terrestrial and marine environments, in which they play various important roles, including in extreme environments such as hydrothermal vents. They can have different shapes, rods, curved rods, cocci, spirilla, and filaments, and include free living bacteria, biofilm formers, commensals and symbionts; some also have the distinctive trait of being bioluminescent. Diverse metabolisms are found in ''Gammaproteobacteria''; there are both aerobic and anaerobic (obligate or facultative) species, chem ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Monterey Bay
Monterey Bay is a bay of the Pacific Ocean located on the coast of the U.S. state of California, south of the San Francisco Bay Area. San Francisco itself is further north along the coast, by about 75 miles (120 km), accessible via California State Route 1, CA 1 and U.S. Route 101 in California, US 101. Santa Cruz, California, Santa Cruz is located at the north end of the bay, and Monterey, California, Monterey is on the Monterey Peninsula at the south end. The "Monterey Bay Area" is a regional term used to describe the Monterey Bay-adjacent Central Coast (California), Central Coast communities of Santa Cruz County, California, Santa Cruz, Monterey County, California, Monterey, and San Benito County, California, San Benito counties. The three counties, along with Monterey Bay-adjacent cities, collaborate in the Association of Monterey Bay Governments (AMBAG) on regional issues and come together for events like the State of the Region hosted by the Monterey Bay Economic Partnersh ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Ribotyping
Ribotyping is a molecular technique for bacterial identification and characterization that uses information from rRNA-based phylogenetic analyses. It is a rapid and specific method widely used in clinical diagnostics and analysis of microbial communities in food, water, and beverages. All bacteria have ribosomal genes, but the exact sequence is unique to each species, serving as a genetic fingerprint. Therefore, sequencing the particular 16S gene and comparing it to a database would yield identification of the particular species. Technique Ribotyping involves the digestion of bacterial genomic DNA with specific restriction enzymes. Each restriction enzyme cuts DNA at a specific nucleotide sequence, resulting in fragments of different lengths. Those fragments are then run on a Gel electrophoresis, where they are separated according to size: the application of electrical field to the gel in which they are suspended causes the movement of DNA fragments (all negatively charged due to ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Proton Pump
A proton pump is an integral membrane protein pump that builds up a proton gradient across a biological membrane. Proton pumps catalyze the following reaction: : n one side of a biological membrane/sub> + energy n the other side of the membrane/sub> Mechanisms are based on energy-induced conformational changes of the protein structure or on the Q cycle. During evolution, proton pumps have arisen independently on multiple occasions. Thus, not only throughout nature, but also within single cells, different proton pumps that are evolutionarily unrelated can be found. Proton pumps are divided into different major classes of pumps that use different sources of energy, exhibiting different polypeptide compositions and evolutionary origins. Function Transport of the positively charged proton is typically electrogenic, i.e.: it generates an electric field across the membrane also called the membrane potential. Proton transport becomes electrogenic if not neutralized electrica ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
Water Column
The (oceanic) water column is a concept used in oceanography to describe the physical (temperature, salinity, light penetration) and chemical ( pH, dissolved oxygen, nutrient salts) characteristics of seawater at different depths for a defined geographical point. Generally, vertical profiles are made of temperature, salinity, chemical parameters at a defined point along the water column. The water column is the largest, yet one of the most under-explored, habitats on the planet; it is explored to better understand the ocean as a whole, including the huge biomass that lives there and its importance to the global carbon and other biogeochemical cycles. Studying the water column also provides understanding on the links between living organisms and environmental parameters, large-scale water circulation and the transfer of matter between water masses. Water columns are used chiefly for environmental studies evaluating the stratification or mixing of thermal or chemically stratif ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] [Amazon] |
