User:Y-S.Ko/Wikipedia course/Biology

Biology edit

Overview	Science Life Properties (Adaptation, Energy processing, Growth, Order, Regulation, Reproduction, Response to environment) Hierarchy of life (Atom > Molecule > Organelle > Cell > Tissue > Organ > Organ system > Organism > Population > Community > Ecosystem > Biosphere) Reductionistic Emergent property Mechanistic Scientific method Theory Law Peer review Biology journals
Chemical basis	Atoms Amino acids Carbohydrates Chemical bond Chemical element Lipids Matter Quantum Molecules Monomer Nucleic acids Organic compounds pH Polymer Proteins Water
Cells	ATP Cell cycle Cell theory Cell signaling Cellular respiration Energy transformation Enzyme Eukaryote Fermentation Metabolism Meiosis Mitosis Photosynthesis Prokaryote
Genetics	DNA Epigenetics Evolutionary developmental biology Gene expression Gene regulation Genomes Mendelian inheritance Post-transcriptional modification
Evolution	Adaptation Earliest known life forms Function Genetic drift Gene flow History of life Macroevolution Microevolution Mutation Natural selection Phylogenetics Speciation Taxonomy
Diversity	Archaea Bacteria Eukaryote Alga Animal Fungus Plant Protist Virus
Plant form and function	Epidermis (botany) Flower Ground tissue Leaf Phloem Plant stem Root Shoot Vascular plant Vascular tissue Xylem
Animal form and function	Breathing Circulatory system Endocrine system Digestive system Homeostasis Immune system Internal environment Muscular system Nervous system Reproductive system Respiratory system
Ecology	Biogeochemical cycle Biological interaction Biomass Biomes Biosphere Climate Climate change Community Conservation Ecosystem Habitat niche Microbiome Population dynamics Resources

Research
methods

Laboratory techniques	Genetic engineering Transformation Gel electrophoresis Chromatography Centrifugation Cell culture DNA sequencing DNA microarray Green fluorescent protein vector Enzyme assay Protein purification Western blot Northern blot Southern blot Restriction enzyme Polymerase chain reaction Two-hybrid screening in vivo in vitro in silico
Field techniques	Belt transect mark and recapture species discovery curve

Branches

Glossaries

v t e History of biology (timeline)
Fields, disciplines	Agricultural science Anatomy Biochemistry Biotechnology Botany Ecology Evolutionary thought Genetics Geology Immunology Medicine Model organisms Molecular biology Molecular evolution Paleontology Phycology Plant systematics RNA biology Zoology (through 1859) Zoology (since 1859)
Theories, concepts	Germ theory of disease Central dogma of molecular biology Darwinism Great chain of being Hierarchy of life Lamarckism One gene–one enzyme hypothesis Protocell RNA world Sequence hypothesis Spontaneous generation
Related	History of science Philosophy of biology Teleology Ethnobotany Eugenics History of the creation-evolution controversy Human Genome Project Humboldtian science Natural history Natural philosophy Natural theology Relationship between religion and science
Category

v t e Topics related to biology
Index
People and history	Biologist Notable biologists History of biology Nobel Prize in Physiology or Medicine Timeline of biology and organic chemistry List of geneticists and biochemists
Institutions, publications	Bachelor of Science Publications
Terms and phrases	Omne vivum ex ovo In vivo In vitro In utero In silico
Related disciplines	Medicine (Physician) Physical anthropology Environmental science Life Sciences Biotechnology
Other	List of conservation topics Altricial and Precocial development strategies

Branches of biology

Animals and plants edit

Extant life phyla/divisions by domain

Bacteria

Archaea	"Euryarchaeota" "Korarchaeota" "Nanoarchaeota" Nitrososphaerota Thermoproteota Archaeal Richmond Mine acidophilic nanoorganisms

Eukaryote

"Protist"	Alveolata Amoebozoa Ancyromonadida Apusomonadida Breviatea CRuMs Cryptista Ciliophora Cercozoa Discoba Euglenozoa Jakobea Haptista Hemimastigophora Malawimonada Metamonada Provora Rhizaria Stramenopiles Telonemia
Fungi	Chytridiomycota Blastocladiomycota Neocallimastigomycota Glomeromycota Zygomycota Ascomycota Basidiomycota
Plant	Glaucophyta Rhodophyta Chlorophyta Charophyta Marchantiophyta Anthocerotophyta Moss Lycopodiophyta Pteridophyta Cycadophyta Ginkgophyta Pinophyta Gnetophyta Flowering plant
Animal	Sponge Ctenophora Placozoa Cnidaria Xenacoelomorpha Chordate Hemichordate Echinoderm Chaetognatha Kinorhyncha Loricifera Priapulida Nematoda Nematomorpha Onychophora Tardigrada Arthropoda Flatworm Gastrotricha Orthonectida Dicyemida Rotifera Acanthocephala Gnathostomulida Micrognathozoa Cycliophora Nemertea Phoronid Bryozoa Entoprocta Brachiopoda Mollusca Annelida

Incertae sedis

Parakaryon

v t e Sociobiology
Topics	Behavioural genetics Challenge hypothesis Dual inheritance theory Ethology Evolutionary psychology Evolution of morality Evolutionary models of food sharing Group selection Kin recognition Kin selection Male warrior hypothesis Reciprocal altruism Sexual selection in humans Sex and psychology Sociality eusociality evolution presociality) Dunbar's number Polyethism
Supporters	Anne Campbell Noam Chomsky Richard Dawkins Daniel Dennett Sarah Blaffer Hrdy Steven Pinker Frans de Waal E. O. Wilson Sociobiology: The New Synthesis Robert Wright
Opponents	Stephen Jay Gould Leon Kamin Richard Lewontin Steven Rose Not in Our Genes
Category Commons Evolutionary biology portal

Botany

Subdisciplines

Plant groups

Plant anatomy

Plant morphology
(glossary)

Plant cells	Cell wall Phragmoplast Plastid Plasmodesma Vacuole
Tissues	Cork Ground tissue Mesophyll Meristem Storage organs Vascular tissue Vascular bundle Wood
Vegetative	Bulb Root Rhizoid Rhizome Shoot Bud Leaf Cataphyll Petiole Sessility Stem
Reproductive (incl. Flower)	Archegonium Antheridium Androecium Pollen Stamen Staminode Tapetum Flower Aestivation Flower development Floral diagram Floral formula Floral symmetry Whorl Fruit Anatomy Berry Capsule Nut Pyrena Seed Dispersal Endosperm Gametophyte Gynandrium Gynoecium Ovary Locule Ovule Stigma Hypanthium (Floral cup) Inflorescence Bract Pedicellate Raceme Umbel Perianth Tepal Petal Sepal Plant embryo Receptacle Sporophyll Sporophyte
Surface structures	Cuticle Epicuticular wax Epidermis Nectar Stoma Thorns, spines, and prickles Trichome

Plant physiology
Materials

Plant growth
and habit

Reproduction

Plant taxonomy

Practice

Lists
Related topics

Category

v t e History of botany
Fields and disciplines	Agriculture Biogeography Bryology Cladistics Comparative anatomy Cytology Economic botany Ethnobotany Floristics Forestry Genetic engineering Horticulture Lichenology Molecular phylogenetics Mycology Natural history Numerical taxonomy Paleobotany Palynology Phycology Phytochemistry Phytogeography Plant anatomy Plant ecology Plant genetics Plant morphology Plant pathology Plant physiology Pteridology
Institutions	Jardin des Plantes Natural History Museum, London Orto botanico di Padova Orto botanico di Pisa Rothamsted Research Royal Botanic Gardens, Kew
Publications	Historia Plantarum and Causes of Plants of Theophrastus c. 300 BC De Plantis of Nicolaus of Damascus c. 1st century BC De Materia Medica of Dioscorides c. 60 AD Naturalis Historia 77–79 AD De Vegetabilibus of Albertus Magnus c. 1256 Herbarum Vivae Icones 1530 Libellus De Re Herbaria Novus 1538 Kreütterbuch of Hieronymus Bock 1539 De plantis libri XVI of Caesalpino 1583 Stirpium Historiae 1583 Herball, or Generall Historie of Plantes 1597 Prodromus Theatrici Botanici 1620 Pinax theatri botanici 1623 Anatome Plantarum 1675 Anatomy of Plants 1682 Historia Plantarum of John Ray 1686–1704 De Sexu Plantarum Epistola 1694 Éléments de botanique 1694 Vegetable Staticks 1727 Systema Naturae 1735 Genera Plantarum 1737 Philosophia Botanica 1751 Species Plantarum 1753 Systema Naturae, 10th ed. 1758–59 Familles des Plantes 1763–64 Experiments Upon Vegetables 1779 Die Metamorphose der Pflantzen 1790 Traité d'Anatomie et de Physiologie Végétale 1802 Recherches Chimiques sur la Végétation 1804 Beyträge zur Anatomie der Pflanzen 1812 Prodromus Systematis Naturalis Regni Vegetabilis 1824–1873 Nepenthaceae Die Vegetabilische Zelle 1851 Vergleichende Untersuchungen 1851 On the Origin of Species 1859 Experiments on Plant Hybridization 1865 Die Vegetation der Erde 1872 Plantesamfund 1895 Pflanzengeographie auf Physiologischer Grundlage 1898 Variation and Evolution in Plants 1950 Ontogeny and Phylogeny 1977 An Integrated System of Classification of Flowering Plants 1981
Theories and concepts	Alternation of generations Cell theory Center of diversity Phylogenetic nomenclature Spontaneous generation Taxonomy Ultrastructure
Influential figures	Theophrastus c. 371–287 BC Pliny the Elder 23–79 AD Pedanius Dioscorides c. 40–90 AD Otto Brunfels 1464–1534 Hieronymus Bock 1498–1554 Valerius Cordus 1515–1544 William Turner 1515–1568 Rembert Dodoens 1517–1585 Andrea Cesalpino 1519–1603 Cristóbal Acosta 1525–1594 Gaspard Bauhin 1560–1624 Joachim Jungius 1587–1657 John Ray 1623–1705 Nehemiah Grew 1628–1711 Marcello Malpighi 1628–1694 Joseph Pitton de Tournefort 1656–1708 Rudolf Jakob Camerarius 1665–1721 Stephen Hales 1677–1761 Bernard de Jussieu 1699–1777 Carolus Linnaeus 1707–1778 Michel Adanson 1727–1806 Jan Ingenhousz 1730–1799 José Celestino Mutis 1732–1808 Félix de Azara 1742–1821 Joseph Banks 1743–1820 Johann Wolfgang von Goethe 1749–1832 Carl Ludwig Willdenow 1765–1812 Nicolas-Théodore de Saussure 1767–1845 Alexander von Humboldt 1769–1859 Aimé Bonpland 1773–1858 Thomas Nuttall 1786–1859 Joakim Frederik Schouw 1789–1852 Matthias Jakob Schleiden 1804–1881 Alexander Braun 1805–1877 George Engelmann 1809–1884 Asa Gray 1810–1888 August Grisebach 1814–1879 Joseph Hooker 1817–1911 Gregor Mendel 1822–1884 Nathanael Pringsheim 1823–1894 Wilhelm Hofmeister 1824–1877 Julius von Sachs 1832–1897 Eugenius Warming 1841–1924 William Gilson Farlow 1844–1919 Andreas Franz Wilhelm Schimper 1856–1901 Nikolai Vavilov 1887–1943 Barbara McClintock 1902–1992 G. Ledyard Stebbins 1906–2000 Eugene Odum 1913–2002 Arthur Cronquist 1919–1992
Related	Botanical garden Herbal Plant taxonomy History of plant systematics Systems of plant taxonomy Herbalism History of agricultural science History of agriculture History of biochemistry History of biology History of biotechnology History of ecology History of evolutionary thought History of genetics History of geology History of medicine History of molecular biology History of molecular evolution History of paleontology History of phycology History of science Natural philosophy Philosophy of biology Timeline of biology and organic chemistry
Category

Evolution edit

v t e Evolutionary biology
Introduction Outline Timeline of evolution History of life Index
Evolution	Abiogenesis Adaptation Adaptive radiation Altruism Cheating Reciprocal Baldwin effect Cladistics Coevolution Mutualism Common descent Convergence Divergence Earliest known life forms Evidence of evolution Evolutionary arms race Evolutionary pressure Exaptation Extinction Event Homology Last universal common ancestor Macroevolution Microevolution Mismatch Non-adaptive radiation Origin of life Panspermia Parallel evolution Signalling theory Handicap principle Speciation Species Species complex Taxonomy Unit of selection Gene-centered view of evolution
Population genetics	Artificial selection Biodiversity Evolutionarily stable strategy Fisher's principle Fitness Inclusive Gene flow Genetic drift Kin selection Parental investment Parent–offspring conflict Mutation Population Natural selection Sexual dimorphism Sexual selection Mate choice Social selection Trivers–Willard hypothesis Variation
Development	Canalisation Evolutionary developmental biology Genetic assimilation Inversion Modularity Phenotypic plasticity
Of taxa	Bacteria Birds origin Brachiopods Molluscs Cephalopods Dinosaurs Fish Fungi Insects butterflies Life Mammals cats canids wolves dogs hyenas dolphins and whales horses Kangaroos primates humans lemurs sea cows Plants pollinator-mediated Reptiles Spiders Tetrapods Viruses
Of organs	Cell DNA Flagella Eukaryotes symbiogenesis chromosome endomembrane system mitochondria nucleus plastids In animals eye hair auditory ossicle nervous system brain
Of processes	Aging Death Programmed cell death Avian flight Biological complexity Cooperation Color vision in primates Emotion Empathy Ethics Eusociality Immune system Metabolism Monogamy Morality Mosaic evolution Multicellularity Sexual reproduction Gamete differentiation/sexes Life cycles/nuclear phases Mating types Meiosis Sex-determination Snake venom
Tempo and modes	Gradualism/Punctuated equilibrium/Saltationism Micromutation/Macromutation Uniformitarianism/Catastrophism
Speciation	Allopatric Anagenesis Catagenesis Cladogenesis Cospeciation Ecological Hybrid Non-ecological Parapatric Peripatric Reinforcement Sympatric
History	Renaissance and Enlightenment Transmutation of species David Hume Dialogues Concerning Natural Religion Charles Darwin On the Origin of Species History of paleontology Transitional fossil Blending inheritance Mendelian inheritance The eclipse of Darwinism Neo-Darwinism Modern synthesis History of molecular evolution Extended evolutionary synthesis
Philosophy	Darwinism Alternatives Catastrophism Lamarckism Orthogenesis Mutationism Saltationism Structuralism Spandrel Theistic Vitalism Teleology in biology
Related	Biogeography Ecological genetics Evolutionary medicine Group selection Cultural evolution Cultural group selection Dual inheritance theory Hologenome theory of evolution Missing heritability problem Molecular evolution Astrobiology Phylogenetics Tree Polymorphism Protocell Systematics Transgenerational epigenetic inheritance
Category Portal

Ecology edit

v t e Biogeochemical cycles
Cycles	Carbon cycle carbonate–silicate cycle deep carbon cycle oceanic carbon cycle Chlorine cycle Hydrogen cycle Iron cycle Mercury cycle Mineral cycle Nitrogen cycle Nutrient cycle Oxygen cycle ozone Phosphorus cycle Rock cycle Selenium cycle Silica cycle Sulfur cycle Water cycle deep water cycle Marine biogeochemical cycles
Research groups	DAAC GEOTRACES IMBER NOBM SOLAS
Related topics	Biogeochemistry geochemical cycle chemical cycling environmental chemistry Biosequestration carbon sequestration carbon sink soil carbon biological pump viral shunt mycorrhizal fungi Ocean acidification acid rain Methane clathrate clathrate gun hypothesis Arctic methane emissions Human impact on the nitrogen cycle Lichens and nitrogen cycling Nitrification Nitrogen fixation Nitrogen assimilation Phosphorus assimilation Sulfur assimilation Planetary boundaries
Category

v t e Environmental science
Main fields	Atmospheric science Biogeochemistry Ecology Environmental chemistry Geosciences Hydrology Limnology Oceanography Soil science
Related fields	Biology Chemistry green Ecological economics Environmental design Environmental economics Environmental engineering Environmental health epidemiology Environmental studies Environmental humanities Environmental statistics Environmental toxicology Geodesy Physics Radioecology Sustainability science Systems ecology Urban ecology
Applications	Energy conservation Environmental technology Natural resource management Pollution control Public transport encouragement Recycling Remediation Renewable energy Road ecology Sewage treatment Urban metabolism Water purification Waste management
Lists	Degrees Journals Research institutes Glossary Environment by year
See also	Human impact on the environment Sustainability Technogaianism
Category scientists Commons Environment portal WikiProject

v t e Ecology: Modelling ecosystems: Trophic components
General	Abiotic component Abiotic stress Behaviour Biogeochemical cycle Biomass Biotic component Biotic stress Carrying capacity Competition Ecosystem Ecosystem ecology Ecosystem model Keystone species List of feeding behaviours Metabolic theory of ecology Productivity Resource Restoration
Producers	Autotrophs Chemosynthesis Chemotrophs Foundation species Kinetotrophs Mixotrophs Myco-heterotrophy Mycotroph Organotrophs Photoheterotrophs Photosynthesis Photosynthetic efficiency Phototrophs Primary nutritional groups Primary production
Consumers	Apex predator Bacterivore Carnivores Chemoorganotroph Foraging Generalist and specialist species Intraguild predation Herbivores Heterotroph Heterotrophic nutrition Insectivore Mesopredators Mesopredator release hypothesis Omnivores Optimal foraging theory Planktivore Predation Prey switching
Decomposers	Chemoorganoheterotrophy Decomposition Detritivores Detritus
Microorganisms	Archaea Bacteriophage Lithoautotroph Lithotrophy Marine Microbial cooperation Microbial ecology Microbial food web Microbial intelligence Microbial loop Microbial mat Microbial metabolism Phage ecology
Food webs	Biomagnification Ecological efficiency Ecological pyramid Energy flow Food chain Trophic level
Example webs	Lakes Rivers Soil Tritrophic interactions in plant defense Marine food webs cold seeps hydrothermal vents intertidal kelp forests North Pacific Gyre San Francisco Estuary tide pool
Processes	Ascendency Bioaccumulation Cascade effect Climax community Competitive exclusion principle Consumer–resource interactions Copiotrophs Dominance Ecological network Ecological succession Energy quality Energy systems language f-ratio Feed conversion ratio Feeding frenzy Mesotrophic soil Nutrient cycle Oligotroph Paradox of the plankton Trophic cascade Trophic mutualism Trophic state index
Defense, counter	Animal coloration Anti-predator adaptations Camouflage Deimatic behaviour Herbivore adaptations to plant defense Mimicry Plant defense against herbivory Predator avoidance in schooling fish

v t e Ecology: Modelling ecosystems: Other components
Population ecology	Abundance Allee effect Consumer-resource model Depensation Ecological yield Effective population size Intraspecific competition Logistic function Malthusian growth model Maximum sustainable yield Overpopulation Overexploitation Population cycle Population dynamics Population modeling Population size Predator–prey (Lotka–Volterra) equations Recruitment Small population size Stability Resilience Resistance Random generalized Lotka–Volterra model
Species	Biodiversity Density-dependent inhibition Ecological effects of biodiversity Ecological extinction Endemic species Flagship species Gradient analysis Indicator species Introduced species Invasive species / Native species Latitudinal gradients in species diversity Minimum viable population Neutral theory Occupancy–abundance relationship Population viability analysis Priority effect Rapoport's rule Relative abundance distribution Relative species abundance Species diversity Species homogeneity Species richness Species distribution Species–area curve Umbrella species
Species interaction	Antibiosis Biological interaction Commensalism Community ecology Ecological facilitation Interspecific competition Mutualism Parasitism Storage effect Symbiosis
Spatial ecology	Biogeography Cross-boundary subsidy Ecocline Ecotone Ecotype Disturbance Edge effects Foster's rule Habitat fragmentation Ideal free distribution Intermediate disturbance hypothesis Insular biogeography Land change modeling Landscape ecology Landscape epidemiology Landscape limnology Metapopulation Patch dynamics r/K selection theory Resource selection function Source–sink dynamics
Niche	Ecological niche Ecological trap Ecosystem engineer Environmental niche modelling Guild Habitat marine habitats Limiting similarity Niche apportionment models Niche construction Niche differentiation Ontogenetic niche shift
Other networks	Assembly rules Bateman's principle Bioluminescence Ecological collapse Ecological debt Ecological deficit Ecological energetics Ecological indicator Ecological threshold Ecosystem diversity Emergence Extinction debt Kleiber's law Liebig's law of the minimum Marginal value theorem Thorson's rule Xerosere
Other	Allometry Alternative stable state Balance of nature Biological data visualization Ecological economics Ecological footprint Ecological forecasting Ecological humanities Ecological stoichiometry Ecopath Ecosystem based fisheries Endolith Evolutionary ecology Functional ecology Industrial ecology Macroecology Microecosystem Natural environment Regime shift Sexecology Systems ecology Urban ecology Theoretical ecology
Outline of ecology

Molecular & Genetics edit

Molecular biology

Overview

Central dogma	DNA replication (DNA) Transcription (RNA) Translation (protein)
Element	Genetic Heredity Promoter Pribnow box TATA box Operon gal operon lac operon trp operon Intron Exon Terminator Enhancer Repressor lac repressor trp repressor Silencer Histone methylation
Linked life	Cell biology Biochemistry Computational biology Developmental biology Functional biology/medicine Genetics

Engineering

Concepts	Cultured meat Mitosis Cell signalling Post-transcriptional modification Post-translational modification Dry lab / Wet lab
Techniques	Cell culture Model organisms (such as C57BL/6 mice) Methods Nucleic acid Protein Fluorescence, Pigment & Radioactivity High-throughput technique ("-omics") DNA microarray Mass spectrometry Lab-on-a-chip
Gene regulation	Epigenetic Genetic Post-transcriptional Post-translational regulation

Molecular biology
WikiProject

Gene expression

Introduction
to genetics

Transcription

Types	Bacterial Archaeal Eukaryotic
Key elements	Transcription factor RNA polymerase Promoter
Post-transcription	Precursor mRNA (pre-mRNA / hnRNA) 5' capping Splicing Polyadenylation Histone acetylation and deacetylation

Translation

Types	Bacterial Archaeal Eukaryotic
Key elements	Ribosome Transfer RNA (tRNA) Ribosome-nascent chain complex (RNC) Post-translational modification

Regulation

Influential people

v t e Genetics
Introduction Outline History Timeline Index Glossary
Key components	Chromosome DNA RNA Genome Heredity Nucleotide Mutation Genetic variation Allele Amino acid
Fields	Classical Conservation Cytogenetics Ecological Immunogenetics Microbial Molecular Population Quantitative
Archaeogenetics of	Africa the Americas the British Isles Europe Italy the Middle East South Asia
Related topics	Behavioural genetics Epigenetics Geneticist Genome editing Genomics Genetic code Genetic engineering Genetic diversity Genetic monitoring Genetic genealogy Heredity He Jiankui affair Medical genetics Missing heritability problem Molecular evolution Plant genetics Population genomics Reverse genetics
Lists	List of genetic codes List of genetics research organizations
Category

Cytogenetics: chromosomes

Basic
concepts

Types

Autosome/Sex chromosome (or allosome or heterosome)
Macrochromosome/Microchromosome
Circular chromosome/Linear chromosome
Extra chromosome (or accessory chromosome)
Supernumerary chromosome
A chromosome/B chromosome
Lampbrush chromosome
Polytene chromosome
Dinoflagellate chromosomes
Homologous chromosome
Isochromosome
Satellite chromosome
Centromere position
Centromere number

Processes
and evolution

Structures

Histone	H1 H2A H2B H3 H4
Centromere	A B C1 C2 E F H I J K M N O P Q T

Micro edit

Extant animal phyla

(major groups

ParaHoxozoa
(Planulozoa)

Placozoa (Trichoplax and relatives) Cnidaria (jellyfish and relatives)
Bilateria (Triploblasts)	(see below↓)

The phylogeny of the animal root is disputed; see also: Eumetazoa; Benthozoa

Scalidophora	Kinorhyncha (mud dragons) Priapulida (penis worms)

N+L+P

Nematoida

L+P

Loricifera (corset animals)

Panarthropoda

Onychophora (velvet worms)
Tactopoda	Arthropoda (arthropods) Tardigrada (waterbears)

Spiralia

Gnathifera

Chaetognatha (arrow worms) Gnathostomulida (jaw worms)
M+S	Micrognathozoa (Limnognathia) Syndermata Rotifera (wheel animals) Acanthocephala (thorny-headed worms)