Root

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In vascular plants, the root is the organ of a plant body that typically lies below the surface of the soil. But, this is not always the case, since a root can also be aerial (that is, growing above the ground) or aerating (that is, growing up above the ground or especially above water). On the other hand, a stem normally occurring below ground is not exceptional either (see rhizome). So, it is better to define root as a part of a plant body that bears no leaves, and therefore also lacks nodes. There are also important internal structural differences between stems and roots. The two major functions of roots are 1.) absorption of water and inorganic nutrients and 2.) anchoring the plant body to the ground. Roots also function in cytokinin synthesis, which supplies some of the shoot's needs. They often function in storage of food. The roots of most vascular plant species enter into symbiosis with certain fungi to form mycorrhizas, and a large range of other organisms including bacteria also closely associate with roots.

Root structure

At the tip of every growing root is a conical covering of tissue called the root cap. It usually is not visible to the naked eye. It consists of undifferentiated soft tissue (parenchyma) with unthickened walls covering the apical meristem. The root cap provides mechanical protection to the meristem cells as the root advances through the soil. Its cells are worn away, however, they are quickly replaced by new cells generated by cell division within the meristem. The root cap is also involved in the production of mucigel, a sticky mucilage that coats the new formed cells. These cells contain statoliths, starch grains that move in response to gravity and thus control root orientation.

The outside surface of the primary root is the epidermis. Recently produced epidermal cells absorb water from the surrounding environment and produce outgrowths called root hairs that greatly increase the cell's absorptive surface. Root-hairs are very delicate and generally short-lived, remaining functional for only a few days. However, as the root grows, new epidermal cells emerge and these form new root hairs, replacing those that die. The process by which water is absorbed into the epidermal cells from the soil is known as osmosis. For this reason, water that is saline is more difficult for most plant species to absorb.

Beneath the epidermis is the cortex, which comprises the bulk of the primary root. Its main function is storage of starch. Intercellular spaces in the cortex aerate cells for respiration. An endodermis is a thin layer of small cells forming the innermost part of the cortex and surrounding the vascular tissues deeper in the root. The tightly packed cells of the endodermis contain a substance known as suberin in their cell walls. This suberin layer is the Casparian strip, which creates an impermeable barrier of sorts. Mineral nutrients can only move passively within root cell walls until they reach the endodermis. At that point, they must be actively transported across a cell membrane to continue further into the root. This allows the plant to accumulate mineral nutrients in the stele.

The vascular cylinder, or stele, consists of the cells inside the endodermis. The outer part, known as the pericycle, surrounds the actual vascular tissue. In monocotyledonous plants, the xylem and phloem cells are arranged in a circle around a pith or center, whereas in dicotyledons, the xylem cells form a central "hub" with lobes, and phloem cells fill in the spaces between the lobes.

Secondary growth

All roots have primary growth or growth in length. Roots of many vascular plants, especially dicots and gymnosperms, often undergo secondary growth, which is an increase in diameter. A vascular cambium forms in the stele to produce secondary phloem and secondary xylem. The epidermis is replaced by a periderm. As the stele increases in diameter, the cortex, pericycle and endodermis are lost. Even nonwoody roots often undergo secondary growth, including those of tomato and alfalfa.

Root growth

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 sacrificed to protect the meristem), and undifferentiated root cells. The latter will 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.

Roots will generally grow in any direction where the correct environment of air, mineral nutrients and water exists to meet the plant's needs. Roots will not grow in dry soil. Over time, given the right conditions, roots can crack foundations, snap water lines, and lift sidewalks. At germination, roots grow downward due to gravitropism, the growth mechanism of plants that also causes the shoot to grow upward. In some plants (such as ivy), the "root" actually clings to walls and structures.

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 cambium layer 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.

Types of roots

A true root system consists of a primary root and secondary roots (or lateral roots).

The primary root originates in the radicle of the seedling. It is the first part of the root to be originated. During its growth it rebranches to form the lateral roots. It usually grows downwards. Generally, two categories are recognized:

• the taproot system: the primary root is prominent and has a single, dominant axis; there are fibrous secondary roots running outward. Usually allows for deeper roots capable of reaching low water tables. Most common in dicots. The main function of the taproot is to store food.
• the diffuse root system: the primary root is not dominant; the whole root system is fibrous and branches in all directions. Most common in monocots. The main function of the fibrous root is to anchor the plant.

Specialized roots

The roots, or parts of roots, of many plant species have become specialized to serve adaptive purposes besides the two primary functions described in the introduction.

• Adventitious roots arise out-of-sequence from the more usual root formation of branches of a primary root, and instead originate from the stem, branches, leaves, or old woody roots. They commonly occur in monocots and pteridophytes, but also in many dicots, such as clover (Trifolium), ivy (Hedera), strawberry (Fragaria) and willow (Salix). Most aerial roots and stilt roots are adventitious. In some conifers adventitious roots can form the largest part of the root system.
• Aerating roots (or pneumatophores): roots rising above the ground, especially above water such as in some mangrove genera (Avicennia, Sonneratia). In some plants like Avicennia the erect roots have a large number of breathing pores for exchange of gases.
• Aerial roots: roots entirely above the ground, such as in ivy (Hedera) or in epiphytic orchids. They function as prop roots, as in maize or anchor roots or as the trunk in strangler fig.
• Contractile roots: they pull bulbs or corms of monocots, such as hyacinth and lily, and some taproots, such as dandelion, deeper in the soil through expanding radially and contracting longitudinally. They have a wrinkled surface.
• Coarse roots: Roots that have undergone secondary thickening and have a woody structure. These roots have some ability to absorb water and nutrients, but their main function is transport and to provide a structure to connect the smaller diameter, fine roots to the rest of the plant.
• Fine roots: Primary roots usually <2 mm diameter that have the function of water and nutrient uptake. They are often heavily branched and support mycorrhizas. These roots may be short lived, but are replaced by the plant in an ongoing process of root 'turnover'.
• Haustorial roots: roots of parasitic plants that can absorb water and nutrients from another plant, such as in mistletoe (Viscum album) and dodder.
• Propagative roots: roots that form adventitious buds that develop into aboveground shoots, termed suckers, which form new plants, as in Canada thistle, cherry and many others.
• Proteoid roots or cluster roots: dense clusters of rootlets of limited growth that develop under low phosphate or low iron conditions in Proteaceae and some plants from the following families Betulaceae, Casuarinaceae, Eleagnaceae, Moraceae, Fabaceae and Myricaceae.
• Stilt roots: these are adventitious support roots, common among mangroves. They grow down from lateral branches, branching in the soil.
• Storage roots: these roots are modified for storage of food or water, such as carrots and beets. They include some taproots and tuberous roots.
• Structural roots: large roots that have undergone considerable secondary thickening and provide mechanical support to woody plants and trees.
• Surface roots: These proliferate close below the soil surface, exploiting water and easily available nutrients. Where conditions are close to optimum in the surface layers of soil, the growth of surface roots is encouraged and they commonly become the dominant roots.
• Tuberous roots: A portion of a root swells for food or water storage, e.g. sweet potato. A type of storage root distinct from taproot.

Rooting depths

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 m 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.

Root architecture

The pattern of development of a root system is termed 'root architecture', and is important in providing a plant with a secure supply of nutrients and water as well as anchorage and support. The architecture of a root system can be considered in a similar way to above-ground architecture of a plant - i.e. in terms of the size, branching and distribution of the component parts. In roots, the architecture of fine roots and coarse roots can both be described by variation in topology and distribution of biomass within and between roots. Having a balanced architecture allows fine roots to exploit soil efficiently around a plant, but the 'plastic' nature of root growth allows the plant to then concentrate its resources where nutrients and water are more easily available. A balanced coarse root architecture, with roots distributed relatively evenly around the stem base, is necessary to provide support to larger plants and trees.

Economic importance

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 prevent soil erosion.

See also

• Rooting Powder
• Root cutting
• Mycorrhiza - root symbiosis in which individual hyphae extending from the mycelium of a fungus colonize the roots of a host plant.
• Fibrous root system
• Stolon

References

• Brundrett, M. C. 2002. Coevolution of roots and mycorrhizas of land plants. New phytologist 154(2): 275-304. (Available online: DOI | Abstract | Full text (HTML) | Full text (PDF))
• Chen, R., E. Rosen, P. H. Masson. 1999. Gravitropism in Higher Plants. Plant Physiology 120 (2): 343-350. (Available online: Full text (HTML) | Full text (PDF)) - article about how the roots sense gravity.
• Clark, Lynn. 2004. Primary Root Structure and Development - lecture notes
• Raven, J. A., D. Edwards. 2001. Roots: evolutionary origins and biogeochemical significance. Journal of Experimental Botany 52 (Suppl 1): 381-401. (Available online: Abstract | Full text (HTML) | Full text (PDF))
• Schenk, H.J., and R.B. Jackson. 2002. The global biogeography of roots. Ecological Monographs 72 (3): 311-328.
• Sutton, R.F., and R.W. Tinus. 1983. Root and root system terminology. Forest Science Monograph 24 pp 137.
• Phillips, W.S. 1963. Depth of roots in soil. Ecology 44 (2): 424.

External links

• Botany - University of Arkansas at Little Rock

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ROOT

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For other uses of "root", see root (disambiguation).

ROOT is an object-oriented software package developed by CERN. It was originally designed for particle physics data analysis and contains several features specific to this field, but it is also commonly used in other applications such as astronomy and data mining.

Description

Development was initiated by René Brun and Fons Rademakers in 1994. ROOT is written in C++. Some parts are published under the LGPL, while others are based on GPL software and thus are also published under the GPL. It provides platform independent access to a computer's graphics subsystem and Operating System using abstract layers. Parts of the abstract platform are: a graphical user interface and a gui builder, container classes, reflection, a C++ script and command line interpreter (CINT), object serialization and persistence.

The packages provided by ROOT include those for

• histogramming and graphing to visualize and analyze distributions and functions,
• curve fitting (regression analysis) and minimization of functionals,
• statistics tools used for data analysis,
• matrix algebra,
• four-vector computations, as used in high energy physics,
• standard mathematical functions,
• multivariate data analysis, e.g. using Neural Networks,
• image manipulation, used e.g. to analyze astronomical pictures,
• access to distributed data (in the context of the Grid),
• distributed computing, to parallelize data analyses,
• persistence and serialization of objects, which can cope with changes in class definitions of persistent data,
• access to databases,
• 3D visualizations (geometry)
• creating files in various graphics formats, like PostScript, JPEG, SVG,
• interfacing Python and Ruby code in both directions,
• interfacing Monte Carlo event generators.

A key feature of ROOT is a data container called tree, with its substructures branches and leaves. A tree can be seen as a sliding window to the raw data, as stored in a file. Data from the next entry in the file can be retrieved by advancing the index in the tree. This avoids memory allocation problems associated with object creation, and allows the tree to act as a lightweight container while handling buffering invisibly.

ROOT's focus on performance is caused by the amount of data that the Large Hadron Collider's experiments will collect, estimated to several petabytes per year. Physicists are expected to analyze this data using ROOT. ROOT is currently mainly used in data analysis and data acquisition in high energy physics experiments — most current experimental plots and results are obtained using ROOT.

The inclusion of the CINT C++ interpreter makes this package very versatile as it can be used in interactive, scripted and compiled modes in a manner similar to commercial products like Matlab.

Criticisms

ROOT has been criticised by users, claiming it has a monolithic design, a tendency to re-invent existing technologies, a too-strong reliance on the CINT interpreter, and poor use of object-oriented programming methods, including OO antipatterns. In attempting to provide all the functionality required by any data analysis task through a single interface, ROOT has attracted "no silver bullet" criticisms. Many of ROOT's fundamental design elements, such as global state, STL-incompatibility and aggressive single-owner based memory management, can make integration of ROOT functionality with stand-alone code difficult. The C++ wrapping is superficial as most common actions are performed by passing cryptic text commands to ROOT object member functions, so users must navigate a C++ interface plus multiple ad-hoc scripting languages.

Additionally, some users fault ROOT for generally poor documentation. ROOT classes do not always behave as advertised or as expected.

From time to time, issues of ROOT's design and implementation are discussed on the ROOT users mailing list.

Application of ROOT

Several particle physics experiments have written software based on ROOT, often in favor of using more generic solutions (i.e. using ROOT containers instead of STL).

• Some of the running particle physics experiments using software based on ROOT
• BaBar
• CDF
• COMPASS
• DZero
• H1
• MINOS
• PHENIX
• PHOBOS
• STAR
• ZEUS

• Future particle physics experiments currently developing software based on ROOT
• ALICE
• ATLAS
• CMS
• LHCb
• NOνA
• PANDA

• Other physics projects using ROOT
• GLAST
• ICECUBE
• H.E.S.S.
• Pierre Auger Observatory
• VERITAS

See also

• CINT
• HippoDraw — an alternative C++-based data analysis system
• Java Analysis Studio — a Java-based AIDA-compliant data analysis system
• R programming language
• AIDA (computing) — open interfaces and formats for particle physics data processing
• PAW
• Particle physics
• CERN
• IGOR Pro
• Scientific computing
• OpenDX

External links

• The ROOT System Home Page
• ROOT users mailing list
• The Qt/ROOT System Home Page
• GSI Object Oriented On-line Off-line system, an alternative GUI for ROOT based on QT/ROOT.
• OpenScientist a C++-based data analysis system, AIDA-compliant.
• The RooFit Toolkit for Data Modeling, an extension to ROOT to facilitate maximum likelihood fits
• Perl Binding using SWIG
• ROOT Repository for Ubuntu
• ROOT Repository for Debian

Wikipedia, the free encyclopedia © 2001-2006 Wikipedia contributors (Disclaimer)
This article is licensed under the GNU Free Documentation License.
Last updated on Thursday February 28, 2008 at 04:07:29 PST (GMT -0800)
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