Homeotic genes are genes which regulate the development of anatomical structures in various organisms such as insects, mammals, and plants. This regulation is done via the programming of various transcription factors by the homeotic genes, and these factors affect genes through regulatory genetic pathways.
Mutations in the homeotic genes can occur, leading to what are known as homeotic mutants. These mutants display ectopic placement of body parts (such as antennae growing at the posterior of the fly instead of at the head) or abnormal expression of the homeotic gene. Many times, mutation that lead to these ectopic placements are lethal to the organism.
Types of Homeotic Genes
There are several subsets of homeotic genes. They include many of the Hox and ParaHox genes which are important for segmentation, Hox genes (also known as homeobox genes) are found in countless organisms including Drosophila (in which they were first discovered), vertebrates, and mammals, including humans. The Hox genes are often preserved across species, so some of the Hox genes of the Drosophila are homologous to those in humans. In general, Hox genes play a role of regulating expression of genes as well as aiding in development and assignment of specific structures during embryonic growth. This can range from segmentation in Drosophila to central nervous system (CNS) development in vertebrates.
They also include the MADS-box-containing genes involved the ABC model of flower development. Besides flower-producing plants, the MADS-box motif is also present in other organisms such as insects, yeasts, and mammals. They have various functions depending on the organism including flower development, proto-oncogene transcription, and gene regulation in specific cells (such as muscle cells). Despite terms being commonly interchanged, not all homeotic genes are Hox genes; the MADS- box genes are homeotic but not Hox genes. Thus, the Hox genes are a proper subset of homeotic genes.
Drosophila melanogaster Homeotic Genes
One of the most commonly studied model organisms in regards to homeotic genes is the Drosophila, specifically Drosophila melanogaster. The homeotic genes of this organism occur in either the Antennapedia complex (ANT-C) or the Bithorax complex (BX-C). Each of the complexes focuses on a different area of development. The antennapedia complex is composed of five genes and is involved in the development of the upper area of the fly such as the head and the thorax segments. The bithorax complex is composed of three main genes and is involved in the development of the lower area of the fly such as the abdominal area as well as the posterior segments and thorax. 
During development (starting at the blastoderm stage of the embryo), these genes are constantly expressed in order give the different segments of the fly body specific structures and roles. For Drosophila, these genes can be analyzed using the Flybase database.
Homeotic Gene Research
There has been large amounts of research done on homeotic genes, ranging from basic understanding of how the molecules work to mutations to how homeotic genes affect the human body. Multiple model organisms are used even though Drosophila is the most common.
More current research has shown how changing the expression levels of homeotic genes can negatively impact the organism. For example, in one study, a pathogenic phytoplasma caused homeotic genes to either be significantly upregulated or downregulated. This lead to severe phenotypic changes including dwarf phenotypes, defects in the pistils, hypopigmentation, and the development of leaf-like structures on most floral organs. In another study, it was found that the homeotic gene Cdx2 acts as a tumor suppressor. In normal expression levels, the gene prevents tumorgenesis and colorectal cancer when exposed to carcinogens; however, when Cdx2 was not well expressed, carcinogens caused tumor development. These studies along with many others show the importance of homeotic genes even after development.
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