Molecular phylogenetics in the context of "Baleen whale"

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.

A fungus (pl.: fungi or funguses) is any member of the group of eukaryotic organisms that includes microorganisms such as yeasts and molds, as well as the more familiar mushrooms. These organisms are classified as one of the traditional eukaryotic kingdoms, along with Animalia, Plantae, and either Protista or Protozoa and Chromista.

A characteristic that places fungi in a different kingdom from plants, bacteria, and some protists is chitin in their cell walls. Fungi, like animals, are heterotrophs; they acquire their food by absorbing dissolved organic molecules, typically by secreting digestive enzymes into their environment. Fungi do not photosynthesize. Growth is their means of mobility, except for spores (a few of which are flagellated), which may travel through the air or water. Fungi are the principal decomposers in ecological systems. These and other differences place fungi in a single group of related organisms, named the Eumycota (true fungi or Eumycetes), that share a common ancestor (i.e. they form a monophyletic group), an interpretation that is also strongly supported by molecular phylogenetics. This fungal group is distinct from the structurally similar myxomycetes (slime molds) and oomycetes (water molds). The discipline of biology devoted to the study of fungi is known as mycology (from the Greek μύκης, mykes 'mushroom'). In the past, mycology was regarded as a branch of botany, although it is now known that fungi are genetically more closely related to animals than to plants.

Pinnipeds (pronounced /ˈpɪnɪˌpɛdz/), commonly known as seals, are a widely distributed and diverse clade of carnivorous, fin-footed, semiaquatic, mostly marine mammals. They comprise the extant families Odobenidae (whose only living member is the walrus), Otariidae (the eared seals: sea lions and fur seals), and Phocidae (the earless seals, or true seals), with 34 extant species and more than 50 extinct species described from fossils. While seals were historically thought to have descended from two ancestral lines, molecular evidence supports them as a monophyletic group (descended from one ancestor). Pinnipeds belong to the suborder Caniformia of the order Carnivora; their closest living relatives are musteloids (weasels, raccoons, skunks and red pandas), having diverged about 50 million years ago.

Seals range in size from the 1 m (3 ft 3 in) and 45 kg (100 lb) Baikal seal to the 5 m (16 ft) and 3,200 kg (7,100 lb) southern elephant seal. Several species exhibit sexual dimorphism. They have streamlined bodies and four limbs that are modified into flippers. Though not as fast in the water as dolphins, seals are more flexible and agile. Otariids primarily use their front limbs to propel themselves through the water, while phocids and walruses primarily use their hind limbs for this purpose. Otariids and walruses have hind limbs that can be pulled under the body and used as legs on land. By comparison, terrestrial locomotion by phocids is more cumbersome. Otariids have visible external ears, while phocids and walruses lack these. Pinnipeds have well-developed senses—their eyesight and hearing are adapted for both air and water, and they have an advanced tactile system in their whiskers or vibrissae. Some species are well adapted for diving to great depths. They have a layer of fat, or blubber, under the skin to keep warm in cold water, and, other than the walrus, all species are covered in fur.

The caddisflies (order Trichoptera) are a group of insects with aquatic larvae and terrestrial adults. There are approximately 14,500 described species, most of which can be divided into the suborders Integripalpia and Annulipalpia on the basis of the adult mouthparts. Integripalpian larvae construct a portable casing to protect themselves as they move around looking for food, while annulipalpian larvae make themselves a fixed retreat in which they remain, waiting for food to come to them. The affinities of the small third suborder Spicipalpia are unclear, and molecular analysis suggests it may not be monophyletic. Also called sedge-flies or rail-flies, the adults are small moth-like insects with two pairs of hairy membranous wings. They are closely related to the Lepidoptera (moths and butterflies) which have scales on their wings; the two orders together form the superorder Amphiesmenoptera.

The aquatic larvae are found in a wide variety of habitats such as streams, rivers, lakes, ponds, spring seeps and temporary waters (vernal pools), and even the ocean. The larvae of many species use silk to make protective cases, which are often strengthened with gravel, sand, twigs, bitten-off pieces of plants, or other debris. The larvae exhibit various feeding strategies, with different species being predators, leaf shredders, algal grazers, or collectors of particles from the water column and benthos. Most adults have short lives during which they do not feed.

The Ulvophyceae or ulvophytes are a class of green algae, distinguished mainly on the basis of ultrastructural morphology, life cycle and molecular phylogenetic data. The sea lettuce, Ulva, belongs here. Other well-known members include Caulerpa, Codium, Acetabularia, Cladophora, Trentepohlia and Monostroma.

The Ulvophytes are diverse in their morphology and their habitat. Most are seaweeds such as those listed above. Others, such as Rhizoclonium, Pithophora and some species of Cladophora live in fresh water and in some areas are considered weeds.

In biological taxonomy, circumscription is the content of a taxon, that is, the delimitation of which subordinate taxa are parts of that taxon. For example, if it is determined that species X, Y, and Z belong in genus A, and species T, U, V, and W belong in genus B, those are the circumscriptions of those two genera. Another systematist might determine that T, U, V, W, X, Y, and Z all belong in genus A. Agreement on circumscriptions is not governed by the codes of zoological or botanical nomenclature, and must be reached by scientific consensus.

A goal of biological taxonomy is to achieve a stable circumscription for every taxon. This goal conflicts, at times, with the goal of achieving a natural classification that reflects the evolutionary history of divergence of groups of organisms. Balancing these two goals is a work in progress, and the circumscriptions of many taxa that had been regarded as stable for decades are in upheaval in the light of rapid developments in molecular phylogenetics. New evidence may suggest that a traditional circumscription should be revised, particularly if the old circumscription is shown to be paraphyletic (a group containing some but not all of the descendants of the common ancestor).