Bacteria in the context of Rhizobia

Marine life, sea life or ocean life is the collective ecological communities that encompass all aquatic animals, plants, algae, fungi, protists, single-celled microorganisms and associated viruses living in the saline water of marine habitats, either the sea water of marginal seas and oceans, or the brackish water of coastal wetlands, lagoons, estuaries and inland seas. As of 2023, more than 242,000 marine species have been documented, and perhaps two million marine species are yet to be documented. An average of 2,332 new species per year are being described. Marine life is studied scientifically in both marine biology and in biological oceanography.

By volume, oceans provide about 90% of the living space on Earth, and served as the cradle of life and vital biotic sanctuaries throughout Earth's geological history. The earliest known life forms evolved as anaerobic prokaryotes (archaea and bacteria) in the Archean oceans around the deep sea hydrothermal vents, before photoautotrophs appeared and allowed the microbial mats to expand into shallow water marine environments. The Great Oxygenation Event of the early Proterozoic significantly altered the marine chemistry, which likely caused a widespread anaerobe extinction event but also led to the evolution of eukaryotes through symbiogenesis between surviving anaerobes and aerobes. Complex life eventually arose out of marine eukaryotes during the Neoproterozoic, and which culminated in a large evolutionary radiation event of mostly sessile macrofaunae known as the Avalon Explosion. This was followed in the early Phanerozoic by a more prominent radiation event known as the Cambrian Explosion, where actively moving eumetazoan became prevalent. These marine life also expanded into fresh waters, where fungi and green algae that were washed ashore onto riparian areas started to take hold later during the Ordovician before rapidly expanding inland during the Silurian and Devonian, paving the way for terrestrial ecosystems to develop.

The salinity of water bodies varies widely, being lower near the surface and the mouths of large rivers and higher in the depths of the ocean; however, the relative proportions of dissolved salts vary little across the oceans. The most abundant solid dissolved in seawater is sodium chloride. The water also contains salts of magnesium, calcium, potassium, and mercury, among other elements, some in minute concentrations. A wide variety of organisms, including bacteria, protists, algae, plants, fungi, and animals live in various marine habitats and ecosystems throughout the seas. These range vertically from the sunlit surface and shoreline to the great depths and pressures of the cold, dark abyssal zone, and in latitude from the cold waters under polar ice caps to the warm waters of coral reefs in tropical regions. Many of the major groups of organisms evolved in the sea and life may have started there.

The Black Death was a bubonic plague pandemic that occurred in Europe from 1346 to 1353. It was one of the most fatal pandemics in human history; as many as 50 million people perished, perhaps 50% of Europe's 14th-century population. The disease is caused by the bacterium Yersinia pestis and spread by fleas and through the air. One of the most significant events in European history, the Black Death had far-reaching population, economic, and cultural impacts. It was the beginning of the second plague pandemic. The plague created religious, social and economic upheavals, with profound effects on the course of European history.

The origin of the Black Death is disputed. Genetic analysis suggests Yersinia pestis bacteria evolved approximately 7,000 years ago, at the beginning of the Neolithic, with flea-mediated strains emerging around 3,800 years ago during the late Bronze Age. The immediate territorial origins of the Black Death and its outbreak remain unclear, with some evidence pointing towards Central Asia, China, the Middle East, and Europe. The pandemic was reportedly first introduced to Europe during the siege of the Genoese trading port of Kaffa in Crimea by the Golden Horde army of Jani Beg in 1347. From Crimea, it was most likely carried by fleas living on the black rats that travelled on Genoese ships, spreading through the Mediterranean Basin and reaching North Africa, West Asia, and the rest of Europe via Constantinople, Sicily, and the Italian Peninsula. There is evidence that once it came ashore, the Black Death mainly spread from person-to-person as pneumonic plague, thus explaining the quick inland spread of the epidemic, which was faster than would be expected if the primary vector was rat fleas causing bubonic plague. In 2022, it was discovered that there was a sudden surge of deaths in what is today Kyrgyzstan from the Black Death in the late 1330s; when combined with genetic evidence, this implies that the initial spread may have pre-dated, by nearly two decades, the 14th-century Mongol conquests previously postulated as the cause.

A microorganism, or microbe, is an organism of microscopic size, which may exist in its single-celled form or as a colony of cells. The possible existence of unseen microbial life was suspected from antiquity, with an early attestation in Jain literature authored in 6th-century BC India. The scientific study of microorganisms began with their observation under the microscope in the 1670s by Anton van Leeuwenhoek. In the 1850s, Louis Pasteur found that microorganisms caused food spoilage, debunking the theory of spontaneous generation. In the 1880s, Robert Koch discovered that microorganisms caused the diseases tuberculosis, cholera, diphtheria, and anthrax.

Microorganisms are extremely diverse, representing most unicellular organisms in all three domains of life: two of the three domains, Archaea and Bacteria, only contain microorganisms. The third domain, Eukaryota, includes all multicellular organisms as well as many unicellular protists and protozoans that are microbes. Some protists are related to animals and some to green plants. Many multicellular organisms are also microscopic, namely micro-animals, some fungi, and some algae.

Empirical evidence is evidence obtained through sense experience or experimental procedure. It is of central importance to the sciences and plays a role in various other fields, like epistemology and law.

There is no general agreement on how the terms evidence and empirical are to be defined. Often different fields work with quite different conceptions. In epistemology, evidence is what justifies beliefs or what determines whether holding a certain belief is rational. This is only possible if the evidence is possessed by the person, which has prompted various epistemologists to conceive evidence as private mental states like experiences or other beliefs. In philosophy of science, on the other hand, evidence is understood as that which confirms or disconfirms scientific hypotheses and arbitrates between competing theories. For this role, evidence must be public and uncontroversial, like observable physical objects or events and unlike private mental states, so that evidence may foster scientific consensus. The term empirical comes from Greek ἐμπειρία empeiría, i.e. 'experience'. In this context, it is usually understood as what is observable, in contrast to unobservable or theoretical objects. It is generally accepted that unaided perception constitutes observation, but it is disputed to what extent objects accessible only to aided perception, like bacteria seen through a microscope or positrons detected in a cloud chamber, should be regarded as observable.

The cell is the basic structural and functional unit of all forms of life or organisms. The term comes from the Latin word cellula meaning 'small room'. A biological cell basically consists of a semipermeable cell membrane enclosing cytoplasm that contains genetic material. Most cells are only visible under a microscope. Except for highly-differentiated cell types (examples include red blood cells and gametes) most cells are capable of replication, and protein synthesis. Some types of cell are motile. Cells emerged on Earth about four billion years ago.

All organisms are grouped into prokaryotes, and eukaryotes. Prokaryotes are single-celled, and include archaea, and bacteria. Eukaryotes can be single-celled or multicellular, and include protists, plants, animals, most types of fungi, and some species of algae. All multicellular organisms are made up of many different types of cell. The diploid cells that make up the body of a plant or animal are known as somatic cells, and in animals excludes the haploid gametes.

In the study of the biological sciences, biocommunication is any specific type of communication within (intraspecific) or between (interspecific) species of plants, animals, fungi, protozoa and microorganisms. Communication means sign-mediated interactions following three levels of rules (syntactic, pragmatic and semantic). Signs in most cases are chemical molecules (semiochemicals), but also tactile, or as in animals also visual and auditive. Biocommunication of animals may include vocalizations (as between competing bird species), or pheromone production (as between various species of insects), chemical signals between plants and animals (as in tannin production used by vascular plants to warn away insects), and chemically mediated communication between plants and within plants.

Biocommunication of fungi demonstrates that mycelia communication integrates interspecific sign-mediated interactions between fungal organisms, soil bacteria and plant root cells without which plant nutrition could not be organized. Biocommunication of Ciliates identifies the various levels and motifs of communication in these unicellular eukaryotes. Biocommunication of Archaea represents key levels of sign-mediated interactions in the evolutionarily oldest akaryotes. Biocommunication of phages demonstrates that the most abundant living agents on this planet coordinate and organize by sign-mediated interactions. Biocommunication is the essential tool to coordinate behavior of various cell types of immune systems.

Marine microorganisms are defined by their habitat as microorganisms living in a marine environment, that is, in the saltwater of a sea or ocean or the brackish water of a coastal estuary. A microorganism (or microbe) is any microscopic living organism or virus, which is invisibly small to the unaided human eye without magnification. Microorganisms are very diverse. They can be single-celled or multicellular and include bacteria, archaea, viruses, and most protozoa, as well as some fungi, algae, and animals, such as rotifers and copepods. Many macroscopic animals and plants have microscopic juvenile stages. Some microbiologists also classify viruses as microorganisms, but others consider these as non-living.

Marine microorganisms have been variously estimated to make up between 70 and 90 percent of the biomass in the ocean. Taken together they form the marine microbiome. Over billions of years this microbiome has evolved many life styles and adaptations and come to participate in the global cycling of almost all chemical elements. Microorganisms are crucial to nutrient recycling in ecosystems as they act as decomposers. They are also responsible for nearly all photosynthesis that occurs in the ocean, as well as the cycling of carbon, nitrogen, phosphorus and other nutrients and trace elements. Marine microorganisms sequester large amounts of carbon and produce much of the world's oxygen.

Marine prokaryotes are marine bacteria and marine archaea. They are defined by their habitat as prokaryotes that live in marine environments, that is, in the saltwater of seas or oceans or the brackish water of coastal estuaries. All cellular life forms can be divided into prokaryotes and eukaryotes. Eukaryotes are organisms whose cells have a nucleus enclosed within membranes, whereas prokaryotes are the organisms that do not have a nucleus enclosed within a membrane. The three-domain system of classifying life adds another division: the prokaryotes are divided into two domains of life, the microscopic bacteria and the microscopic archaea, while everything else, the eukaryotes, become the third domain.

Prokaryotes play important roles in ecosystems as decomposers recycling nutrients. Some prokaryotes are pathogenic, causing disease and even death in plants and animals. Marine prokaryotes are responsible for significant levels of the photosynthesis that occurs in the ocean, as well as significant cycling of carbon and other nutrients.

A unicellular organism, also known as a single-celled organism, is an organism that consists of a single cell, unlike a multicellular organism that consists of multiple cells. Organisms fall into two general categories: prokaryotic organisms and eukaryotic organisms. Most prokaryotes are unicellular and are classified into bacteria and archaea. Many eukaryotes are multicellular, but some are unicellular such as protozoa, unicellular algae, and unicellular fungi. Unicellular organisms are thought to be the oldest form of life, with early organisms emerging 3.5–3.8 billion years ago.

Although some prokaryotes live in colonies, they are not specialised cells with differing functions. These organisms live together, and each cell must carry out all life processes to survive. In contrast, even the simplest multicellular organisms have cells that depend on each other to survive.

Marine viruses are defined by their habitat as viruses that are found in marine environments, that is, in the saltwater of seas or oceans or the brackish water of coastal estuaries. Viruses are small infectious agents that can only replicate inside the living cells of a host organism, because they need the replication machinery of the host to do so. They can infect all types of life forms, from animals and plants to microorganisms, including bacteria and archaea.

When not inside a cell or in the process of infecting a cell, viruses exist in the form of independent particles called virions. A virion contains a genome (a long molecule that carries genetic information in the form of either DNA or RNA) surrounded by a capsid (a protein coat protecting the genetic material). The shapes of these virus particles range from simple helical and icosahedral forms for some virus species to more complex structures for others. Most virus species have virions that are too small to be seen with an optical microscope. The average virion is about one one-hundredth the linear size of the average bacterium.

An anaerobic organism or anaerobe is any organism that does not require molecular oxygen for its growth. It may react negatively or even die in the presence of free oxygen. Anaerobic organisms do not use oxygen as a terminal electron acceptor in their respiration process to produce energy, but a less powerful oxidizing agent, such as nitrate, ferric ion, Mn(IV), sulfate or bicarbonate anions. In contrast, an aerobic organism (aerobe) is an organism that requires a sufficiently oxygenated environment to respire, produce its energy, and thrive. Because the anaerobic energy production was the first mechanism to be used by living microorganisms in their evolution and is much less efficient than the aerobic pathway, anaerobes are practically, de facto, always unicellular organisms (e.g. bacteria and archaea (prokaryotes), or protozoans (eukaryotes). However, a minuscule multicellular organism, with an exceptionally rare metabolism and surviving in a hypersaline brine pool in the darkness of the bottom of the Mediterranean Sea, has been recently discovered. Meanwhile, it remains a scientific curiosity, as the much higher energy requirements of most multicellular organisms cannot be met by anaerobic respiration. Most fungi (eukaryotes) are obligate aerobes, requiring oxygen to survive and grow; however, some species, such as the Chytridiomycota that reside in the rumen of cattle, are obligate anaerobes; for these species, anaerobic respiration is used because oxygen would disrupt their metabolism or kill them. The deep seafloor and its underlying unconsolidated sediments ranks among the largest potential habitats for anaerobic microorganisms on Earth. Moreover, chemoautotroph microbes also thrive around hydrothermal vents, discharging hot water on the ocean seabed near mid-ocean ridges, where anaerobic conditions prevail. These microbes produce energy in the absence of sunlight or oxygen through a process called anaerobic respiration, whereby inorganic compounds and ions such as protons (H), elemental sulfur and its derivatives (SO2−4, S₂O2−3), or ferric ions, are reduced to drive oxidative phosphorylation.

A prokaryote (/proʊˈkærioʊt, -ət/; less commonly spelled procaryote) is a microorganism whose usually single cell lacks a nucleus or other membrane-bound organelles. The word prokaryote comes from the Ancient Greek πρό (pró), meaning 'before', and κάρυον (káruon), meaning 'nut' or 'kernel'. In the earlier two-empire system, prokaryotes formed the empire Prokaryota. In the three-domain system, based upon molecular phylogenetics, prokaryotes are divided into two domains: Bacteria and Archaea. A third domain, Eukaryota, consists of organisms with nuclei.

Prokaryotes evolved before eukaryotes, and lack nuclei, mitochondria, and most of the other distinct organelles that characterize the eukaryotic cell. Some unicellular prokaryotes, such as cyanobacteria, form colonies held together by biofilms, and large colonies can create multilayered microbial mats. Prokaryotes are asexual, reproducing via binary fission. Horizontal gene transfer is common as well.

Archaea (/ɑːrˈkiːə/ ar-KEE-ə) is a domain of organisms. Traditionally, Archaea included only its prokaryotic members, but has since been found to be paraphyletic, as eukaryotes are known to have evolved from archaea. Even though the domain Archaea cladistically includes eukaryotes, the term archaea (sing. archaeon /ɑːrˈkiːɒn/ ar-KEE-on; from Ancient Greek ἀρχαῖον arkhaîon 'ancient') in English still generally refers specifically to prokaryotic members of Archaea. Archaea were initially classified as bacteria, receiving the name archaebacteria (/ˌɑːrkibækˈtɪəriə/, in the Archaebacteria kingdom), but this term has fallen out of use. Archaeal cells have unique properties separating them from Bacteria and Eukaryota, including: cell membranes made of ether-linked lipids; metabolisms such as methanogenesis; and a unique motility structure known as an archaellum. Archaea are further divided into multiple recognized phyla. Classification is difficult because most have not been isolated in a laboratory and have been detected only by their gene sequences in environmental samples. It is unknown if they can produce endospores.

Archaea are often similar to bacteria in size and shape, although a few have very different shapes, such as the flat, square cells of Haloquadratum walsbyi. Despite this, archaea possess genes and several metabolic pathways that are more closely related to those of eukaryotes, notably for the enzymes involved in transcription and translation. Other aspects of archaeal biochemistry are unique, such as their reliance on ether lipids in their cell membranes, including archaeols. Archaea use more diverse energy sources than eukaryotes, ranging from organic compounds such as sugars, to ammonia, metal ions or even hydrogen gas. The salt-tolerant Halobacteria use sunlight as an energy source, and other species of archaea fix carbon (autotrophy), but unlike cyanobacteria, no known species of archaea does both. Archaea reproduce asexually by binary fission, fragmentation, or budding; unlike bacteria, no known species of Archaea form endospores. The first observed archaea were extremophiles, living in extreme environments such as hot springs and salt lakes with no other organisms. Improved molecular detection tools led to the discovery of archaea in almost every habitat, including soil, oceans, and marshlands. Archaea are particularly numerous in the oceans, and the archaea in plankton may be one of the most abundant groups of organisms on the planet.

A microbial mat is a multi-layered sheet or biofilm of microbial colonies, composed of mainly bacteria and/or archaea. Microbial mats grow at interfaces between different types of material, mostly on submerged or moist surfaces, but a few survive in deserts. A few are found as endosymbionts of animals.

Although only a few centimetres thick at most, microbial mats create a wide range of internal chemical environments, and hence generally consist of layers of microorganisms that can feed on or at least tolerate the dominant chemicals at their level and which are usually of closely related species. In moist conditions mats are usually held together by slimy substances secreted by the microorganisms. In many cases some of the bacteria form tangled webs of filaments which make the mat tougher. The best known physical forms are flat mats and stubby pillars called stromatolites, but there are also spherical forms.

The eukaryotes (/juːˈkærioʊts, -əts/) are the domain of Eukaryota or Eukarya, organisms whose cells have a membrane-bound nucleus. All animals, plants, fungi, seaweeds, and many unicellular organisms are eukaryotes. They constitute a major group of life forms alongside the two groups of prokaryotes: the Bacteria and the Archaea. Eukaryotes represent a small minority of the number of organisms, but given their generally much larger size, their collective global biomass is much larger than that of prokaryotes.

The eukaryotes emerged within the archaeal phylum Promethearchaeota. Ignoring mitochondrial DNA (which is bacterial rather than archaeal), this would imply only two domains of life, Bacteria and Archaea, with eukaryotes incorporated among the Archaea. Eukaryotes first emerged during the Paleoproterozoic, likely as flagellated cells. The leading evolutionary theory is they were created by symbiogenesis between an anaerobic Promethearchaeota archaeon and an aerobic proteobacterium, which formed the mitochondria. A second episode of symbiogenesis with a cyanobacterium created the plants, with chloroplasts.