Hox gene in the context of "Retinoic acid"

The nematodes (/ˈnɛmətoʊdz/ NEM-ə-tohdz or NEEM-; Ancient Greek: Νηματώδη; Latin: Nematoda), roundworms or eelworms constitute the phylum Nematoda. Species in the phylum inhabit a broad range of environments. Most species are free-living, feeding on microorganisms, but many are parasitic. Parasitic worms (helminths) are the cause of soil-transmitted helminthiases.

They are classified along with arthropods, tardigrades and other moulting animals in the clade Ecdysozoa. Unlike the flatworms, nematodes have a tubular digestive system, with openings at both ends. Like tardigrades, they have a reduced number of Hox genes, but their sister phylum Nematomorpha has kept the ancestral protostome Hox genotype, which shows that the reduction has occurred within the nematode phylum.

Evolutionary developmental biology, informally known as evo-devo, is a field of biological research that compares the developmental processes of different organisms to infer how developmental processes evolved.

The field grew from 19th-century beginnings, where embryology faced a mystery: zoologists did not know how embryonic development was controlled at the molecular level. Charles Darwin noted that having similar embryos implied common ancestry, but little progress was made until the 1970s. Then, recombinant DNA technology at last brought embryology together with molecular genetics. A key early discovery was that of homeotic genes that regulate development in a wide range of eukaryotes.

Cephalization is an evolutionary trend in bilaterian animals that, over a sufficient number of generations, concentrates the special sense organs and nerve ganglia towards the front of the body where the mouth is located, often producing an enlarged head. This is associated with the animal's movement direction and bilateral symmetry. Cephalization of the nervous system has led to the formation of a brain with varying degrees of functional centralization in three phyla of bilaterian animals, namely the arthropods, cephalopod molluscs, and vertebrates. Hox genes organise aspects of cephalization in the bilaterians.

A tetrapod (/ˈtɛtrəˌpɒd/; from Ancient Greek τετρα- (tetra-) 'four' and πούς (poús) 'foot') is any vertebrate animal of the clade Tetrapoda (/tɛˈtræpədə/). Tetrapods include all extant and extinct amphibians and amniotes, with the latter in turn evolving into two major clades, the sauropsids (reptiles, including dinosaurs and therefore birds) and synapsids (extinct "pelycosaurs", therapsids and all extant mammals, including humans). Hox gene mutations have resulted in some tetrapods becoming limbless (snakes, legless lizards, and caecilians) or two-limbed (cetaceans, sirenians, some lizards, kiwis, and the extinct moa and elephant birds). Nevertheless, they still qualify as tetrapods through their ancestry, and some retain a pair of vestigial spurs that are remnants of the hindlimbs.

Tetrapods evolved from a group of semiaquatic animals within the tetrapodomorphs which, in turn, evolved from ancient lobe-finned fish (sarcopterygians) around 390 million years ago in the Middle Devonian period. Early tetrapodomorphs were transitional between lobe-finned fishes and true four-limbed tetrapods, though most still fit the body plan expected of other lobe-finned fishes. The oldest fossils of four-limbed vertebrates (tetrapods in the broad sense of the word) are trackways from the Middle Devonian, and body fossils became common near the end of the Late Devonian, around 370–360 million years ago. These Devonian species all belonged to the tetrapod stem group, meaning that they did not belong to any modern tetrapod group.

HOTAIR (for HOX transcript antisense RNA) is a human gene located between HOXC11 and HOXC12 on chromosome 12. It is the first example of an RNA expressed on one chromosome that has been found to influence the transcription of the HOXD cluster posterior genes located on chromosome 2. The sequence and function of HOTAIR are different in humans and mice. Sequence analysis of HOTAIR revealed that it exists in mammals, has poorly conserved sequences and considerably conserved structures, and has evolved faster than nearby HoxC genes. A subsequent study identified HOTAIR has 32 nucleotides long conserved noncoding element (CNE) that has a paralogous copy in HOXD cluster region (located between HOXD11 and HOXD12), suggesting that the HOTAIR conserved sequences predate whole genome duplication events at the root of vertebrate. While the conserved sequence paralogous with HOXD cluster is 32 nucleotide long, the HOTAIR sequence conserved from human to fish is about 200 nucleotide long and is marked by active enhancer features (bidirectional transcription, H3K4me1 and H3K27ac peaks).