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In vascular plants, the root is the organ of a plant that typically lies below the surface of the soil. Roots can also be aerial or aerating, that is, growing up above the ground or especially above water. Furthermore, a stem normally occurring below ground is not exceptional either (see rhizome). Therefore, the root is best defined as the non-leaf, non-nodes bearing parts of the plant's body. However, important internal structural differences between stems and roots exist.
The fossil record of roots – or rather, infilled voids where roots rotted after death – spans back to the late Silurian, about 430 million years ago. Their identification is difficult, because casts and molds of roots are so similar in appearance to animal burrows. They can be discriminated using a range of features.
The first root that comes from a plant is called the radicle. A root's four major functions are 1) absorption of water and inorganic nutrients, 2) anchoring of the plant body to the ground, and supporting it, 3) storage of food and nutrients, 4) vegetative reproduction and competition with other plants. In response to the concentration of nutrients, roots also synthesise cytokinin, which acts as a signal as to how fast the shoots can grow. Roots often function in storage of food and nutrients. The roots of most vascular plant species enter into symbiosis with certain fungi to form mycorrhizae, and a large range of other organisms including bacteria also closely associate with roots.
When dissected, the arrangement of the cells in a root is root hair, epidermis, epiblem, cortex, endodermis, pericycle and, lastly, the vascular tissue in the centre of a root to transport the water absorbed by the root to other places of the plant.[clarification needed]
Perhaps the most striking characteristic of roots (that makes it distinguishable from other plant organs such as stem-branches and leaves) is that, roots have an endogenous origin, i.e. it originates and develops from an inner layer of the mother axis (Such as Pericycle). Whereas Stem-branching and leaves (those develop as buds) are exogenous, i.e. start to develop from the cortex, an outer layer.
In its simplest form, the term root architecture refers to the spatial configuration of a plant’s root system. This system can be extremely complex and is dependent upon multiple factors such as the species of the plant itself, the composition of the soil and the availability of nutrients.
The configuration of root systems serves to structurally support the plant, compete with other plants and for uptake of nutrients from the soil. Roots grow to specific conditions, which, if changed, can impede a plant's growth. For example, a root system that has developed in dry soil may not be as efficient in flooded soil, yet plants are able to adapt to other changes in the environment, such as seasonal changes.
Root architecture plays the important role of providing a secure supply of nutrients and water as well as anchorage and support. The main terms used to classify the architecture of a root system are:
All components of the root architecture are regulated through a complex interaction between genetic responses and responses due to environmental stimuli. These developmental stimuli are categorised as intrinsic, the genetic and nutritional influences, or extrinsic, the environmental influences and are interpreted by signal transduction pathways. The extrinsic factors that affect root architecture include gravity, light exposure, water and oxygen, as well as the availability or lack of nitrogen, phosphorus, sulphur, aluminium and sodium chloride. The main hormones (intrinsic stimuli) and respective pathways responsible for root architecture development include:
Early root growth is one of the functions of the apical meristem located near the tip of the root. The meristem cells more or less continuously divide, producing more meristem, root cap cells (these are sacrificed to protect the meristem), and undifferentiated root cells. The latter become the primary tissues of the root, first undergoing elongation, a process that pushes the root tip forward in the growing medium. Gradually these cells differentiate and mature into specialized cells of the root tissues.
Growth from apical meristems is known as primary growth, which encompasses all elongation. Secondary growth encompasses all growth in diameter, a major component of woody plant tissues and many nonwoody plants. For example, storage roots of sweet potato have secondary growth but are not woody. Secondary growth occurs at the lateral meristems, namely the vascular cambium and cork cambium. The former forms secondary xylem and secondary phloem, while the latter forms the periderm.
In plants with secondary growth, the vascular cambium, originating between the xylem and the phloem, forms a cylinder of tissue along the stem and root. The vascular cambium forms new cells on both the inside and outside of the cambium cylinder, with those on the inside forming secondary xylem cells, and those on the outside forming secondary phloem cells. As secondary xylem accumulates, the "girth" (lateral dimensions) of the stem and root increases. As a result, tissues beyond the secondary phloem including the epidermis and cortex, in many cases tend to be pushed outward and are eventually "sloughed off" (shed).
At this point, the cork cambium begins to form the periderm, consisting of protective cork cells containing suberin. In roots, the cork cambium originates in the pericycle, a component of the vascular cylinder.
The vascular cambium produces new layers of secondary xylem annually. The xylem vessels are dead at maturity but are responsible for most water transport through the vascular tissue in stems and roots.
Tree roots usually grow to three times the diameter of the branch spread, only half of which lie underneath the trunk and canopy. The roots from one side of a tree usually supply nutrients to the foliage on the same side. Some families however, such as Sapindaceae (the maple family), show no correlation between root location and where the root supplies nutrients on the plant.
There is a correlation of roots using the process of plant perception to sense their physical environment to grow, including the sensing of light, and physical barriers. Over time, roots can crack foundations, snap water lines, and lift sidewalks. Research has shown that roots have ability to recognize 'self' and 'non-self' roots in same soil environment. 
The correct environment of air, mineral nutrients and water directs plant roots to grow in any direction to meet the plant's needs. Roots will shy or shrink away from dry or other poor soil conditions.
In order to avoid shade, plants utilize a shade avoidance response. When a plant is under dense vegetation, the presence of other vegetation nearby will cause the plant to avoid lateral growth and experience an increase in upward shoot, as well as downward root growth. In order to escape shade, plants adjust their root architecture, most notably by decreasing the length and amount of lateral roots emerging from the primary root. Experimentation of mutant variants of Arabidospis thaliana found that plants sense the Red to Far Red light ratio that enters the plant through photoreceptors known as phytochromes. Nearby plant leaves will absorb red light and reflect far- red light which will cause the ratio red to far red light to lower. The phytochrome PhyA that senses this Red to Far Red light ratio is localized in both the root system as well as the shoot system of plants, but through knockout mutant experimentation, it was found that root localized PhyA does not sense the light ratio, whether directly or axially, that leads to changes in the lateral root architecture. Research instead found that shoot localized PhyA is the phytochrome responsible for causing these architectural changes of the lateral root. Research has also found that phytochrome completes these architectural changes through the manipulation of auxin distribution in the root of the plant. When a low enough Red to Far Red ratio is sensed by PhyA, the phyA in the shoot will be mostly in its active form. In this form, PhyA stabilize the transcription factor HY5 causing it to no longer be degraded as it is when phyA is in its inactive form. This stabilized transcription factor is then able to be transported to the roots of the plant through the phloem, where it proceeds to induce its own transcription as a way to amplify its signal. In the roots of the plant HY5 functions to inhibit an auxin response factor known as ARF19, a response factor responsible for the translation of PIN3 and LAX3, two well known auxin transporting proteins. Thus, through manipulation of ARF19, the level and activity of auxin transporters PIN3 and LAX3 is inhibited. Once inhibited, auxin levels will be low in areas where lateral root emergence normally occurs, resulting in a failure for the plant to have the emergence of the lateral root primordium through the root pericycle. With this complex manipulation of Auxin transport in the roots, lateral root emergence will be inhibited in the roots and the root will instead elongate downwards, promoting vertical plant growth in an attempt to avoid shade.
Research of Arabidopsis has led to the discovery of how this auxin mediated root response works. In an attempt to discover the role that phytochrome plays in lateral root development, Salisbury et al. (2007) worked with Arabidopsis thaliana grown on agar plates. Salisbury et al. used wild type plants along with varying protein knockout and gene knockout Arabidopsis mutants to observe the results these mutations had on the root architecture, protein presence, and gene expression. To do this, Salisbury et al. used GFP fluorescence along with other forms of both macro and microscopic imagery to observe any changes various mutations caused. From these research, Salisbury et al. were able to theorize that shoot located phytochromes alter auxin levels in roots, controlling lateral root development and overall root architecture. In the experiments of van Gelderen et al. (2018), they wanted to see if and how it is that the shoot of Arabidopsis thaliana alters and affects root development and root architecture. To do this, they took Arabidopsis plants, grew them in agar gel, and exposed the roots and shoots to separate sources of light. From here, they altered the different wavelengths of light the shoot and root of the plants were receiving and recorded the lateral root density, amount of lateral roots, and the general architecture of the lateral roots. To identify the function of specific photoreceptors, proteins, genes, and hormones, they utilized various Arabidopsis knockout mutants and observed the resulting changes in lateral roots architecture. Through their observations and various experiments, van Gelderen et al. were able to develop a mechanism for how root detection of Red to Far-red light ratios alter lateral root development.
A true root system consists of a primary root and secondary roots (or lateral roots).
The roots, or parts of roots, of many plant species have become specialized to serve adaptive purposes besides the two primary functions[clarification needed], described in the introduction.
The distribution of vascular plant roots within soil depends on plant form, the spatial and temporal availability of water and nutrients, and the physical properties of the soil. The deepest roots are generally found in deserts and temperate coniferous forests; the shallowest in tundra, boreal forest and temperate grasslands. The deepest observed living root, at least 60 metres below the ground surface, was observed during the excavation of an open-pit mine in Arizona, USA. Some roots can grow as deep as the tree is high. The majority of roots on most plants are however found relatively close to the surface where nutrient availability and aeration are more favourable for growth. Rooting depth may be physically restricted by rock or compacted soil close below the surface, or by anaerobic soil conditions.
|Species||Location||Maximum rooting depth (m)||References|
|Boscia albitrunca||Kalahari desert||68||Jennings (1974)|
|Juniperus monosperma||Colorado Plateau||61||Cannon (1960)|
|Eucalyptus sp.||Australian forest||61||Jennings (1971)|
|Acacia erioloba||Kalahari desert||60||Jennings (1974)|
|Prosopis juliflora||Arizona desert||53.3||Phillips (1963)|
Certain plants, namely Fabaceae, form root nodules in order to associate and form a symbiotic relationship with nitrogen-fixing bacteria called rhizobia. Due to the high energy required to fix nitrogen from the atmosphere, the bacteria take carbon compounds from the plant to fuel the process. In return, the plant takes nitrogen compounds produced from ammonia by the bacteria.
The term root crops refers to any edible underground plant structure, but many root crops are actually stems, such as potato tubers. Edible roots include cassava, sweet potato, beet, carrot, rutabaga, turnip, parsnip, radish, yam and horseradish. Spices obtained from roots include sassafras, angelica, sarsaparilla and licorice.
Sugar beet is an important source of sugar. Yam roots are a source of estrogen compounds used in birth control pills. The fish poison and insecticide rotenone is obtained from roots of Lonchocarpus spp. Important medicines from roots are ginseng, aconite, ipecac, gentian and reserpine. Several legumes that have nitrogen-fixing root nodules are used as green manure crops, which provide nitrogen fertilizer for other crops when plowed under. Specialized bald cypress roots, termed knees, are sold as souvenirs, lamp bases and carved into folk art. Native Americans used the flexible roots of white spruce for basketry.
Tree roots can heave and destroy concrete sidewalks and crush or clog buried pipes. The aerial roots of strangler fig have damaged ancient Mayan temples in Central America and the temple of Angkor Wat in Cambodia.
Vegetative propagation of plants via cuttings depends on adventitious root formation. Hundreds of millions of plants are propagated via cuttings annually including chrysanthemum, poinsettia, carnation, ornamental shrubs and many houseplants.
Roots can also protect the environment by holding the soil to reduce soil erosion. This is especially important in areas such as sand dunes.
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