Datasets:

Atsushi
/

fungi_trait_circus_database

trait stringlengths 7 137	hitword stringlengths 0 416	raw stringlengths 0 6.78k	source stringlengths 6 1.86k	scientificname stringlengths 3 56	current_name stringlengths 4 56
marginal hyphae_structure_thin walled	thin-walled	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
marginal hyphae_structure_branched	branched\|branches	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
marginal hyphae_structure_septate	septate	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
marginal hyphae_structure_clamped	clamps	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
marginal hyphae_position_opposite	opposite	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
marginal hyphae_shape_branched	branched	thin-walled; nodose septate; sparsely branched; branches arising from and opposite clamps	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
submerged hyphae_structure_thin walled	thin-walled	thin-walled; nodose septate; moderately branched	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
submerged hyphae_structure_branched	branched	thin-walled; nodose septate; moderately branched	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
submerged hyphae_structure_septate	septate	thin-walled; nodose septate; moderately branched	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
submerged hyphae_shape_branched	branched	thin-walled; nodose septate; moderately branched	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
gloeocystidia_shape_clavate	obclavate	obclavate; lobed	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
gloeocystidia_shape_lobed	lobed	obclavate; lobed	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
gloeocystidia_structure_thin walled	thin-walled	thin-walled; clamped at base	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
gloeocystidia_amount_abundant	numerous	filled with refractive, oil-like materials; numerous in surface and aerial mats at 2 and 6 wk	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
cystidia_shape_clavate	<gloeocystidia> obclavate	obclavate; lobed	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
cystidia_shape_lobed	<gloeocystidia> lobed	obclavate; lobed	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
cystidia_structure_thin walled	<gloeocystidia> thin-walled	thin-walled; clamped at base	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
cystidia_amount_abundant	<gloeocystidia> numerous	filled with refractive, oil-like materials; numerous in surface and aerial mats at 2 and 6 wk	https://www.mycobank.org/details/26/1828	Vararia athabascensis	Vararia athabascensis
basidioma_shape_stipitate	stipitate	laterally to centrally stipitate	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_position_lateral	laterally	laterally to centrally stipitate	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_shape_funnel shaped	infundibuliform	flat to infundibuliform	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_shape_flat	flat	flat to infundibuliform	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_texture_leather	coriaceous	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_texture_soft	brittle	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_dry	dry	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_color_yellow	yellowish	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_color_brown	brown\|cinnamon	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_color_orange	cinnamon	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_color_dark	dark	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_tomentose	tomentose	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_velutinous	velvety	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_smooth	glabrous\|smooth	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_plicate	folded	smooth to slightly folded radially	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_surface_rugose	folded	smooth to slightly folded radially	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_position_scattered	scattered	scattered protuberances, small pits	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_shape_flexuous	deflexed	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_shape_sinuous	wavy	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidioma_shape_entire	entire	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_shape_flat	expanded	short expanded both towards the base and the pileus	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_color_brown	cinnamon\|rusty\|brown\|cinnamon	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_color_orange	cinnamon	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_color_dark	dark	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_surface_smooth	smooth	finely adpressed velvety, probably almost smooth with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
stipe_surface_velutinous	velvety	finely adpressed velvety, probably almost smooth with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pileus_color_brown	cinnamon\|rusty	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pileus_color_orange	cinnamon	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pileus_color_dark	dark	dark rusty to cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pileus_surface_smooth	smooth	finely adpressed velvety, probably almost smooth with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pileus_surface_velutinous	velvety	finely adpressed velvety, probably almost smooth with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pore_color_brown	brown\|cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pore_color_orange	cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pore_color_concolorous	concolorous	concolorous	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pore_surface_smooth	smooth	smooth	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
pore_development_sterile	sterile	narrow lighter sterile margin	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
context_color_brown	brown\|cinnamon	cinnamon to golden-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
context_color_orange	cinnamon	cinnamon to golden-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
context_color_yellow	golden	cinnamon to golden-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_structure_monomitic	monomitic	monomitic	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_color_hyaline	hyaline	hyaline, golden-brown or rusty-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_color_yellow	golden	hyaline, golden-brown or rusty-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_color_brown	brown\|rusty	hyaline, golden-brown or rusty-brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_structure_septate	septation	simple	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_shape_unbranched	simple	simple	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_shape_branched	branched	moderately branched	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hyphal system_structure_branched	branched	moderately branched	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hymenial setae_presence_absent	absent	absent	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_shape_ellipsoid	ellipsoid	oblong ellipsoid	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_shape_cylindric	oblong	oblong ellipsoid	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_color_hyaline	hyaline	hyaline	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_amyloidity_no iodine reaction	non-amyloid	non-amyloid	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_amyloidity_amyloid	amyloid\|non-amyloid	non-amyloid	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_surface_smooth	smooth	smooth	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
basidiospore_structure_thin walled	thin-walled	thin-walled	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
habitat_location_burnt place	burnt	On burnt wood in fire places	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
habitat_substrate_wood	wood	On burnt wood in fire places	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_stipitate	<basidioma> stipitate	laterally to centrally stipitate	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_position_lateral	<basidioma> laterally	laterally to centrally stipitate	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_funnel shaped	<basidioma> infundibuliform	flat to infundibuliform	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_flat	<basidioma> flat	flat to infundibuliform	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_texture_leather	<basidioma> coriaceous	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_texture_soft	<basidioma> brittle	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_dry	<basidioma> dry	probably coriaceous when fresh, brittle when dry	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_color_yellow	<basidioma> yellowish\|<context> golden	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_color_brown	<basidioma> brown\|cinnamon\|<basidioma> cinnamon\|<stipe> cinnamon\|rusty\|<stipe> rusty\|<stipe> brown\|cinnamon\|<pileus> cinnamon\|rusty\|<pileus> rusty\|<pore> brown\|cinnamon\|<pore> cinnamon\|<context> brown\|cinnamon\|<context> cinnamon	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_color_orange	<basidioma> cinnamon\|<stipe> cinnamon\|<pileus> cinnamon\|<pore> cinnamon\|<context> cinnamon	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_color_dark	<basidioma> dark\|<stipe> dark\|<pileus> dark	azonate yellowish-brown to dark cinnamon	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_tomentose	<basidioma> tomentose	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_velutinous	<basidioma> velvety\|<stipe> velvety\|<pileus> velvety	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_smooth	<basidioma> glabrous\|<basidioma> smooth\|<stipe> smooth\|<pileus> smooth\|<pore> smooth	velvety adpressed tomentose to almost glabrous with age	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_plicate	<basidioma> folded	smooth to slightly folded radially	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_surface_rugose	<basidioma> folded	smooth to slightly folded radially	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_position_scattered	<basidioma> scattered	scattered protuberances, small pits	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_flexuous	<basidioma> deflexed	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_sinuous	<basidioma> wavy	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_shape_entire	<basidioma> entire	entire to wavy, thin, deflexed at least in dry specimens	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
fruiting body_texture_hard	<stipe> solid	agglutinate to slight uneven, solid, non-stratified	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hymenophore_color_brown	<pore> brown\|cinnamon\|<pore> cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hymenial surface_color_brown	<pore> brown\|cinnamon\|<pore> cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hymenophore_color_orange	<pore> cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima
hymenial surface_color_orange	<pore> cinnamon	cinnamon to brown	https://www.mycobank.org/details/26/26724	Xanthochrous fragilissimus	Coltricia fragilissima

End of preview. Expand in Data Studio

fungi_trait_circus_database

大菌輪「Trait Circus」データセット（統制形質）最終更新日：2025/09/28 重要：データ形式を大幅に更新しました（v2.0）

Languages

Japanese and English

Please do not use this dataset for academic purposes for the time being. (casual use only) 非専門家が作成したデータセットです。学術目的での使用はご遠慮ください。

更新履歴

2025/09/28 (v2.0) - データ構造を全面改訂、Parquet形式に移行、データ量を約2倍に拡充（約400万件）
2025/08/12 (v1.0) - 初回公開版（約180万件）

概要

Atsushi Nakajima（中島淳志）が個人で運営しているWebサイト大菌輪では、菌類の記載文を自然言語処理の手法を利用して半自動的に処理し、菌類の形態、生態などに関する様々な「形質 (traits)」データを抽出して、集計や解析の便宜を図るために、あらかじめ設定された「統制語 (controlled term)」の形でまとめています。抽出手法については「ニッチェ・ライフ」誌のこちらの記事（査読なし）で報告しています。自動抽出という性質上、ある程度の誤りが含まれる可能性があることをご承知おきください。

統制語は「要素 (element）」「属性（attribute）」「値（value）」の3つ組からなります。例えば「傘_色_黒」はそれぞれ「傘（pileus）」「色（color）」「黒（black）」の要素/属性/値を持っています。一部の統制語では要素と属性が同一となっています（「生息環境」など）参考までに、データ数上位3件は「要素」で「子実体」「傘」「胞子」、「属性」で「色」「形状」「表面性状」、「値」で「褐」「平滑」「黄」です。

また、菌類分類学の学習および同定支援の目的で、そのデータを基にしたインタラクティブな可視化Webアプリ「Trait Circus」を提供しています。本データセットは、そのWebアプリの生データに相当し、容量の都合等でWebアプリに反映されていない情報も含まれています。

データ形式の変更について（v2.0）

主な変更点

ファイル形式: CSV（UTF-8, タブ区切り）→ Parquet形式
データ量: 約180万件 → 約400万件（2.2倍に拡充）
カラム構造: 統制語の表現方法を簡潔化し、処理効率を向上

ファイル構成

本データセットは2つのファイルから構成されています：

fungi_trait_circus_database.parquet: 形質データ本体（Parquet形式、約400万件）

各カラムの説明

メインデータファイル（v2.0新形式）

trait … 統制形質を表す文字列（要素_属性_値の組み合わせ）
hitword … 抽出された形質の出典中における表現
raw … 元の記載文から抽出された生のテキスト
source … 各情報の出典（出典の完全なURLまたは書籍名）
scientificname … その形質を有する菌の出典で使用されていた学名
current_name … その形質を有する菌の現行学名（MycoBankを参照、最新の情報ではない可能性あり）

source_mapping.parquet

source_id … 出典のID番号
source_url … 出典の完全なURL（学術文献、MycoBankデータベース等）

データの読み込み方法

Python (pandas)

import pandas as pd

# Parquetファイルの読み込み
df = pd.read_parquet('fungi_trait_circus_database.parquet')
source_df = pd.read_parquet('source_mapping.parquet')

# データの確認
print(f"データ件数: {len(df):,}")
print(f"カラム: {df.columns.tolist()}")
print(df.head())

Python (datasets library)

from datasets import load_dataset

# Hugging Face Datasetsから直接読み込み
dataset = load_dataset("Atsushi/fungi_trait_circus_database")
df = dataset['train'].to_pandas()

旧形式（v1.0）からの移行ガイド

カラム名の対応

旧形式 (v1.0)	新形式 (v2.0)	説明
source_id	source	出典ID
hit_term	hitword	抽出された表現
current_name	current_name	現行学名（変更なし）
original_name	scientificname	出典での学名
element	-	traitに統合
attribute	-	traitに統合
value	-	traitに統合
raw	raw	生テキスト（変更なし）

trait列の解釈方法

新形式では、element、attribute、valueが「trait」列に統合されています：

例: "pileus_color_brown" = 傘（pileus）の色（color）が褐色（brown）
アンダースコア（_）で分割することで、個別の要素を取得できます

# traitを分解する例
df[['element', 'attribute', 'value']] = df['trait'].str.split('_', n=2, expand=True)

注意事項

データは自動抽出により生成されているため、誤りが含まれる可能性があります
学名情報は定期的に更新されていますが、最新の分類体系を反映していない場合があります
学術目的での使用は現在制限されています（カジュアルな利用のみ）

ライセンス

CC BY 4.0

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