The flora of Japan is marked by a large variety of species. There are about 4,500 native plant species in Japan (3,950 angiosperms, 40 gymnosperms, 500 ferns). Some 1,600 angiosperms and gymnosperms are indigenous to Japan. The large number of plants reflects the great diversity of climate that characterizes the Japanese archipelago, which stretches some 3,500 kilometers (2,175 miles) from north to south. The most remarkable climatic features are the wide range of temperatures and significant rainfall, both of which make for a rich abundance of flora. The climate also accounts for the fact that almost 70 percent of Japan is covered by forest. Foliage changes color from season to season. [Source: Web-Japan, Ministry of Foreign Affairs, Japan]

“Plants are distributed in the following five zones, all of which lie in the East Asian temperate zone: (1) the subtropical zone, including the Ryukyu and Ogasawara islands groups; (2) the warm-temperature zone of broad-leaved evergreen forests, which covers the greater part of southern Honshu, Shikoku, and Kyushu; characteristic trees are “shii “and “kashi”, both a type of oak; (3) the cooltemperature zone of broad-leaved deciduous forests, which covers central and northern Honshu and the southeastern part of Hokkaido; Japanese beech and other common varieties of trees are found here; (4) the subalpine zone, which includes central and northern Hokkaido; characteristic plants are the Sakhalan fir and Yesso spruce; (5) the alpine zone in the highlands of central Honshu and the central portion of Hokkaido; characteristic plants are alpine plants, such as “komakusa “(“Dicentra peregrina”).

“Matsu “and “sugi”, Japanese pine and cedar, respectively, are common throughout the Japanese archipelago — even in warm southern regions — and are very familiar to the Japanese people. Pines often make splendid scenery. The most notable scenic spot is Amanohashidate, in Kyoto Prefecture, with more than 6,000 pine trees forming lines on the sandbar. Large pine trees, which grow to a maximum height of about 40 meters, also serve as a windbreak in coastal areas. Small pines are used as “bonsai”, garden trees, and materials for houses and furniture. Pines are also considered to be holy trees.

“People in the olden days were awed by nature and saw in plants and trees symbols of divine spirits. At one time, for example, it was common to worship evergreen trees such as pine, cedar, and cypress because they were thought to provide habitation to heaven-sent deities. The still-common practice of decorating the entrance-ways of houses at New Year’s with pine branches — “kadomatsu”, literally “gate pine” — comes from the belief that this was an appropriate way to welcome the gods.

Japanese Cedars (Cryptomeria, Sugi)

Cryptomeria (sugi, or cedars) cover 12 percent of Japan's land area. This is the result of a government-backed planting scheme in the 1950s and 60s. Cryptomeria are found at Shinto shrines (See Religion and Architecture) and are related to California redwoods. Both trees are related to similar trees found 150 million years ago in the Jurassic Period. Sugi trees can reach 40 meters in height. Their trucks are covered with a brownish, red bark that peels off in vertical strips. Trunks can attain a diameter of two meters or more.

Sugi trees produce aromatic wood favored in the construction of traditional Japanese homes. According to Japanese mythology the sugi was created from the beard hairs of Susano-o, the brother of the Sun Goddess Amaterasu. Since ancient times it has been one of Japan’s premier lumber trees. When properly cared for it grows straight and tall and produces beautifully grained wood that is soft and easily worked yet keeps it shape for hundreds of years. [Source: Kevin Short, Daily Yomiuri]

Sugi are probably the most numerous tree in Japan. This is not the result of nature but rather because of the aggressive post-World War II reforestation program in which entire mountainsides and watersheds were planted with the trees that are now all the same size and evenly spaced from other trees. After World War II forests of oaks, maples and evergreens were cut down and replanted with Japanese cedars. The trees have produced a lot nice-smelling timber but they have upset natural ecosystems.

In recent decades, demand for cedar has dropped as have prices for cedar wood. There is little or no incentive to cut down cedar forests, which occupy great swaths of land. The planting of this single species has created problems for allergy sufferers and is threatening wildlife, reducing the water table and creating the potential for disastrous landslides.

Red pine forest in the Kyoto area are being devastated by a disease called pine wilt caused by a half-millimeter-long worm. To battle the pest, resilient trees are being grafted onto those who are more susceptible to it.

Japanese Cedars and Allergies

About one in 10 Japanese (13 million people) suffer from cedar hay fever whose season sometimes lasts from February to late May. You can tell its cedar hay fever season by the number of people wearing surgical masks and eye protection.

The presence of cedar pollen depends on the growth of cedar bud the previous summer with high temperatures and low rainfall producing the most pollen. Particularly after a dry, hot summer huge clouds of cedar pollen fill the air, which causes an allergic reaction. In late February and March, when the pollen concentrations are at their highest, the pollen count is flashed on billboards in Tokyo and shown on television weather reports. Allergy hot lines receive thousands of calls.

"At the peak, you can actually see pollen fog coming from the cedar forests," a Tokyo allergy specialist told the New York Times. "It is so bad that when people first began to notice this a decade or so ago they thought they were forest fires."

The allergies are the result of too many cedar trees. One sufferer told the New York Times: "When I started suffering I wanted to scratch out my eyes. I finally realized that this was the result of the government's misguided reforestation policy." In some places old cedar trees are being cut down and replaced with species of cedar that produce less pollen,

In some places cedar trees, cypresses and other evergreens are being cut down and being replaced with broad-leaved trees to reduce allergy-inducing pollen and bear attacks.

Pollen-Free Cedars

In November 2012, The Yomiuri Shimbun reported: “In a development likely to be good news for hay fever sufferers, saplings of a new no-pollen cedar tree have been planted in Toyama Prefecture, where technology for their mass production from seeds was first realized domestically. It is the forest industry's first full-scale plantation of pollen-free cedar trees for uses such as timber for housing, according to the prefecture's Forestry Research Institute. [Source: Yomiuri Shimbun, November 13, 2012]

In 1992, a pollen-free, domestic cedar tree was discovered at a shrine in the prefecture, prompting the institute to conduct research. The institute began interbreeding the tree with other species, and in 2008, a cedar tree producing no pollen was created. Since 2009, the institute has been promoting mass production of the tree's saplings. The planting of the pollen-free saplings started in a mountain forest in the town of Tateyama on Saturday. The town's forestry association officials planted about 300 saplings from 30 to 60 centimeters tall in about 1,500 square meters of cleared forest land.

The Toyama prefectural government plans to distribute the saplings to four forestry associations and others in the prefecture within this fiscal year, and to plant 4,700 saplings in about 23,000 square meters of forests and mountains. After 2016, it plans to ship the saplings to other prefectures.


Hinoki is a conifer sometimes called hinoki cypress in English that is native to Japan and Taiwan. Hinoki trees stand tall and straight and have reddish brown bark and produce a hard wood that has been a favorite of craftsmen, home builders and furniture makes since ancient time because it has a nice smell and is resistant to rot. According to legend the first hinoki trees came from the chest hairs of a powerful deity . Some of the oldest wooden buildings in Japan and the world and sacred shrines dedicated to the Sun Goddess in Ise are made with it. Japanese have long used it make bath tubs and kitchen items because is resistant to mildew and has antibacterial qualities.

Hinoki is the second largest plantation tree after cryptomeria. Japanese foresters tend to grow cryptomeria along valley bottoms and hinoki higher up the slopes. Cryptomeria grows faster than hinoki, It is usually ready for harvest after 50 years compared to 75 to 80 for hinoki but the wood is softer and not quite so valuable.

Chestnuts in Japan

The fungus blight disease that almost completely wiped out American chestnut tree in the early 20th century is thought to have arrived in the United States on introduced Japanese chestnut trees (C. crenata), and provides a classic example of a pathogen jumping host species then spreading like wildfire. The Japanese trees do contract the disease, but over the long millennia have developed a partial immunity. Infected trees sicken but eventually recover. The American chestnuts, on the other hand, lacked all resistance to the disease, and quickly succumbed. A similar introduced fungus has devastated elm trees throughout Europe and North America. [Source: Kevin Short, Daily Yomiuri, October 5, 2011]

Chestnuts were one of the very first plants to be actively cultivated in Japan. Excavation work at the spectacular Sannai-Maruyama archeological site in Aomori Prefecture has revealed a large prehistoric village that thrived nearly 7000 years ago. The Jomon inhabitants utilized a wide variety of forest and marine resources, but the staple of their diet was cultivated chestnuts, grown in extensive orchards. Huge chestnut logs were also used as columns for building homes and ceremonial centers. One impressive structure is supported by six chestnut columns, each a full meter in diameter, and is thought to have stood three stories high.

In the Kanto region, chestnuts can currently be found both cultivated in commercial orchards and growing wild in native deciduous woods. The spiny urchins (iga in Japanese) of the wild forms are only half the size of the cultivated ones, but the hard nuts inside are just as tasty

Acorns and Japan

Kevin Short wrote in the Daily Yomiuri: Japanese kids love acorns. There are songs about them and toys made from them. Collecting them is popular past time. Acorns (donguri) are the fruits of oak and chinkapin trees. They consist of a hard-shelled nut resting in a scaled bowl-like receptacle known as a cupule, called kakuto in formal botanical Japanese, but usually referred to as either boshi (hat) or hakama (skirt). The form of the cupule and the pattern of the scales, rather than the shape of the nut itself, are important clues for determining which tree an acorn comes from. [Source: Kevin Short, Daily Yomiuri, November 8, 2012]

Japan is home to about 20 native acorn-producing trees, both deciduous and evergreen. Based on cupule form and scale pattern, acorns can be divided into four groups. 1) Scales overlap to form horizontal lines--Characteristic of a group of evergreen oaks, comprising eight native species, known collectively as kashi. 2) Densely packed tiny scales overlap like miniature roof tiles--characteristic of a group of deciduous oaks, comprising four deciduous species including the ubiquitous konara (Quercus serrata); as well as one live oak and two species of stone oak (Lithocarpus; matebashi in Japanese). 3) Scales stick out like burrs--Characteristic of a group of deciduous oaks with three species, including the well-known kunugi (Q. acutissima) and kashiwa (Q. dentata). 4) Cupule shaped like a sheath that splits open--Characteristic of three species of evergreen chinkapin (Castanopsis), collectively known as shii (as in shii-take mushrooms). The sudajii (C. sieboldii) is the most common chinkapin in the Kanto area.

Acorns are rich in nutrients, and form a major element in the diet of animals such as Japanese squirrel, tanuki raccoon dog, Asiatic black bear, shika deer, wild boar and Japanese macaque, as well as birds such as the jay (kakesu). During the Jomon period, which lasted from 14,000 to 3,000 years ago, the local people depended heavily on acorns. Be careful though: The acorns of most Japanese oaks contain tannins and other bitter chemicals, and must be thoroughly leached before eating. Only the chinkapin and stone oak acorns can be roasted and eaten as is.

Forest Trees, Flowers and Plants in Japan

Japanese deciduous forests are dominated by oak and hornbeam, but include a rich assortment of dogwood, cherry, snowbell (egonoki), magnolia (kobushi), chestnut, hackberry (enoki) and zelkova (keyaki). A whole group of perennial wildflowers, including various species of orchid, lily, gentian, violet and anemone, will grow nowhere else but on the floor of these forests. [Source: Kevin Short, Daily Yomiuri, May 5, 2011]

The Japanese fawn-lily is a very popular plant here in Japan. Short wrote: “The petals and sepals are a soft pink with deeper purple markings, and when fully open fold back nearly 180 degrees, eventually pointing toward the rear of the flower. Emerging from the center is a single long pistil, with a three-headed stigma, and six deep indigo stamens. The leaves of this genus are often dappled, like the skin on a baby deer, giving rise to the common English name of fawn-lily. A starchy flour made from the underground parts of the plant, called katakuri-ko, is used in manufacture of the best quality Japanese sweets.

Oak trees in Japan are being ravaged by pathogenic fungus transmitted by the ambrosia beetle. The loss of oaks lessens the water retention capacity of forest soils and deprives bears, wild boars and other wild animals of acorns, an important food source for them. The fungus destroys the tree’s ability to pumps water up from its roots to its leaves.

The keyaki, or Japanese zelkova tree (Zelkova serrata), is a member of the elm family. Kevin Short wrote in the Daily Yomiuri, “Rivaling the cherry tree in terms of sheer familiarity, it has distinctive shape like an upturned broom and is found in native deciduous woodlands as sell as parks and gardens. The keyaki's tall but narrow growth form also makes them especially suitable as urban street trees. Almost any Japanese can recognize keyaki by their shape.” [Source: Kevin Short, Daily Yomiuri, April 21, 2011]

“The female flower of the keyaki, if properly pollinated, will develop into a small, hard nutlet. Come autumn, when the nutlets have ripened, the entire twig will drop off the tree, with the small leaves, now dry and brittle, still attached. By themselves the nutlets would all fall directly beneath the parent tree, but the attached leaves work like parachutes and sails, carrying the entire twig far and wide on the wind.

Japanese Dogwoods and the Story Behind Its Red Branches

Dogwoods — known in Japanese as mizuki, which literally means water (mizu) tree (ki or gi), grows wild in woodlands throughout Japan, and is also widely planted in parks and schoolyards. The Japanese mizuki prefers thick, moist soils, but derives its name from the copious liquid sap that fills the trunk and branches. In early summer, densely packed clusters of tiny white flowers, each with four petals and four stamens, bloom at the tip of the branches. These later ripen into purple and red fruits, which are favorites of many species of bird. [Source: Kevin Short, Daily Yomiuri, October 7, 2010]

The common English name dogwood is thought to have originated as dagwood, a dag referring to a thin, sharply pointed instrument such as a meat skewer. These trees produce a hard, heavy wood which is ideal for manufacturing small objects such as skewers and tool handles. Here in Japan, the mizuki is used to carve wooden geta clogs, traditional toys such as koma spinning tops and kokeshi dolls, and also as skewers for delicious dango deserts made from sticky rice and sweetened bean paste.

The branched stalk that holds first the mizuki's flowers and later the fruits is a deep pinkish red. A story that explains why this is so goes: One autumn, some matagi [traditional hunters] out bear hunting were caught in a sudden storm and were forced to spend the night in a small hut. Late that night, a young woman, her stomach incredibly swollen and clearly about to give birth, knocked on the door and asked them to give her shelter for the night.

This caused the hunters great concern. Like all traditional Japanese mountain folk, the matagi pay great heed to the local yama-no-kami, or mountain spirit. It is only with the blessings of this spirit, they believe, that they enjoy the privilege of walking safely in the mountains and harvesting certain plants and animals. The mountain spirit, however, is a goddess, and expects men to be true to her in heart and mind while working in her domain. Even dreaming of a woman is enough to send a traditional hunter scurrying back down to his village.

Because of this, the matagi were naturally reluctant to let the woman into their hut. On the other hand, they could see that she was in deep trouble. Eventually their natural generosity won out, and they let the woman in, laying down a cushion of dogwood boughs for her to rest on.

During the night, the woman gave birth, and in the morning left with a healthy baby boy. As she left she recited for the matagi a list of times and places where they could be sure that bears would be waiting for them. She was, it turned out, the mountain spirit herself. Later, when the matagi cleaned up the hut, they found that the mizuki's flower stalks, originally white, had all been stained red by the mountain spirit's blood.

Image Sources: 1) Jun of Goods from Japan 2) 4) Visualizing Culture, MIT Education 3) 5) 7) Ray Kinnane 6) Neil Ducket

Text Sources: New York Times, Washington Post, Los Angeles Times, Daily Yomiuri, Times of London, Japan National Tourist Organization (JNTO), National Geographic, The New Yorker, Time, Newsweek, Reuters, AP, Lonely Planet Guides, Compton’s Encyclopedia and various books and other publications.

Last updated January 2013

This site contains copyrighted material the use of which has not always been authorized by the copyright owner. Such material is made available in an effort to advance understanding of country or topic discussed in the article. This constitutes 'fair use' of any such copyrighted material as provided for in section 107 of the US Copyright Law. In accordance with Title 17 U.S.C. Section 107, the material on this site is distributed without profit. If you wish to use copyrighted material from this site for purposes of your own that go beyond 'fair use', you must obtain permission from the copyright owner. If you are the copyright owner and would like this content removed from, please contact me.