Voyage of the Beagle
1831 – 1836
Specimens, Vol. III
Vol. III · No. X · Naturalist Edition

EvolutionOne law. Four billion years.

"It is not the strongest of the species that survives... but the one most responsive to change." — apocryphally attributed to Darwin (actually Megginson, 1963), but the spirit is right.

P. 01 / 17 — the principle

One algorithm, three ingredients.

Charles Darwin's central idea was almost embarrassingly simple. Wherever there is variation, inheritance, and differential reproduction, populations must change over generations.

Variation

Individuals differ. Mutations, recombination, and developmental noise generate the raw material on which selection acts.

Inheritance

Offspring resemble parents more than they resemble strangers. Mendelian particles, since 1900; genes, since the 1920s.

Differential reproduction

Some variants leave more offspring than others. The world cannot support all that is born.

Given those three, evolution is mathematically inevitable.

P. 02 / 17 — Darwin

Charles Darwin, 1809–1882.

Failed in medicine at Edinburgh, took holy orders at Cambridge instead. In 1831, at 22, sailed as gentleman naturalist on HMS Beagle's five-year survey voyage. The experience — fossils in Patagonia, finches and tortoises on the Galápagos, coral atolls in the Pacific — convinced him species are not fixed.

He read Malthus on population in 1838 and the puzzle's last piece fell into place. He sat on the theory for twenty years, terrified of the consequences. In 1858 a letter from Alfred Russel Wallace, working independently in Indonesia, forced his hand. They presented jointly at the Linnean Society. On the Origin of Species followed in November 1859 — sold out in a day.

Galápagos finches

G. magnirostris (large) G. fortis (medium) G. fuliginosa (small) Camarhynchus (insect) Certhidea (warbler-like)

— sketch after Darwin, 1845

P. 03 / 17 — mechanisms

Five forces that shape allele frequencies.

Mutation

Random changes to DNA. Rate ~10⁻⁸–10⁻⁹ per base per generation in mammals.

Selection

Differential survival/reproduction. Natural, sexual, kin, group. Directional, stabilizing, disruptive.

Drift

Random changes due to finite population. Dominates when Ne is small or selection is weak.

Gene flow

Migration mixes populations. Counteracts local adaptation.

Non-random mating

Inbreeding, assortative mating. Changes genotype frequencies even without changing alleles.

Δqspq(qq̄) under selection · σ²q = pq/2Ne per gen drift
P. 04 / 17 — evidence

Lines of convergent evidence.

  • Fossil record. Smooth morphological transitions: Tiktaalik (375 Ma) between fish and tetrapods; Archaeopteryx (150 Ma) between dinosaurs and birds; Pakicetus, Ambulocetus toward whales.
  • Comparative anatomy. Homologous limbs (human arm = whale fin = bat wing). Vestigial structures (whale pelvis, human appendix).
  • Embryology. Pharyngeal arches in all vertebrate embryos. Hox-gene patterning conserved across the animal kingdom.
  • Biogeography. Marsupial radiation in Australia; Galápagos endemism. Distributions trace plate movement and colonization history.
  • Genetics. Universal genetic code. Pseudogenes shared with relatives. Endogenous retroviruses at identical loci in primates.
  • Direct observation. Antibiotic resistance, peppered moths, Italian wall lizards on Pod Mrčaru in 36 yr (Herrel et al., 2008).

Pentadactyl limb — homology

human bat (wing) whale (flipper) horse (leg)

Same bones, four jobs.

P. 05 / 17 — the tree

One universal ancestor.

archaea eukarya fungi plants animals cnidaria arthropoda mollusca chordata LUCA · ~3.8 Gya

A schematic, not to scale or completeness.

All living organisms share the same genetic code, the same handedness of biological molecules, and large blocks of homologous genes. The simplest explanation: they share an ancestor. The Last Universal Common Ancestor (LUCA) lived ~3.8 Gya, perhaps near hydrothermal vents.

Charles_Darwin
P. 06 / 17 — speciation

How one becomes two.

Allopatric

Geographic isolation. Most common mode. Galápagos finches; Lake Baikal seals; Hawaiian silverswords.

Sympatric

Divergence in same place — niche partitioning, host shift. Cichlid fish in African rift lakes (~500 species in Lake Malawi alone).

Parapatric

Adjacent ranges with limited gene flow. Ring species, e.g. Larus gulls around the Arctic.

Reproductive isolating mechanisms: prezygotic (mating time, place, behavior, gamete incompatibility) and postzygotic (hybrid inviability, sterility — see the mule).

Cabinet specimens

Plate VII

Cabinet of curiosities. The 19th-century museum was the engine of comparative zoology.

P. 08 / 17 — key figures

Who built the theory.

Lamarck

1744–1829

First systematic theory of transmutation. Inheritance of acquired characters — mostly wrong, but he raised the question.

Darwin

1809–82

Natural selection. Origin of Species, 1859. Descent of Man, 1871.

Wallace

1823–1913

Co-discoverer of natural selection. Biogeography founder.

Mendel

1822–84

Particulate inheritance. Critical to the modern synthesis.

Fisher · Haldane · Wright

1920s–30s

Founders of population genetics. Reconciled Darwin with Mendel.

Dobzhansky

1900–75

Modern Synthesis architect. "Nothing in biology makes sense except in the light of evolution."

Mayr

1904–2005

Biological species concept. Systematics and the Origin of Species, 1942.

Hamilton

1936–2000

Inclusive fitness, kin selection (1964). Hamilton's rule: rB > C.

P. 09 / 17 — population genetics

Evolution in equations.

Hardy–Weinberg

p2 + 2pq + q2 = 1

Genotype frequencies in absence of evolution. Deviation diagnoses force at work.

Hamilton's Rule

rB > C

Altruism evolves when relatedness × benefit to relative exceeds cost to actor.

Fisher's Theorem

Δ = VA /

Rate of increase in mean fitness equals additive genetic variance, scaled.

Selection coefficient

Δq = spq(pq) ÷ ...

Allele frequency change per generation under selection of strength s.

Drift variance

σ²q = pq/2Ne

Random walk in finite population. Effective N ≪ census N usually.

Price equation

Δ = Cov(w, z)/ + E(wΔz)/

George Price (1970): unifies all evolutionary change.

FIG. 2
Galapagos finch.
The Galapagos finches — Darwin's iconic example. Beak diversification across 17 species shows adaptive radiation in fast forward.
P. 10 / 17 — timeline

Of life, in years.

~3.8 Gya

Earliest chemical signatures of life — graphite in Greenland metasediments.

~3.5 Gya

Stromatolites; cyanobacteria.

~2.4 Gya

Great Oxygenation Event.

~2.0 Gya

Eukaryotic origin via endosymbiosis (mitochondria).

~1.5 Gya

Sexual reproduction.

~570 Mya

Ediacaran biota — first multicellular animals.

~540 Mya

Cambrian explosion — most modern phyla appear.

~440 Mya

Plants colonize land.

~375 Mya

Tetrapods: Tiktaalik et al.

~330 Mya

Amniotes — life freed from water for reproduction.

~250 Mya

Permian–Triassic extinction. ~96% of marine species lost.

~150 Mya

Birds branch from theropod dinosaurs.

~66 Mya

K–Pg extinction. Mammals radiate.

~6 Mya

Hominin–chimpanzee LCA.

~300 kya

Anatomically modern Homo sapiens.

~12 kya

Domestication of plants and animals.

P. 11 / 17 — mass extinctions

The Big Five.

  • Ordovician–Silurian, ~445 Mya. ~85 % of species. Glaciation, sea-level fall. Marine.
  • Late Devonian, ~375 Mya. ~75 %. Multiple pulses, anoxia.
  • Permian–Triassic, ~252 Mya. ~96 % marine, ~70 % terrestrial. Siberian Traps volcanism. "The Great Dying."
  • Triassic–Jurassic, ~201 Mya. ~80 %. Volcanism (CAMP), ocean acidification.
  • Cretaceous–Paleogene, ~66 Mya. ~76 %. Chicxulub impact (Yucatán) plus Deccan Traps.

Sixth. The Holocene/Anthropocene biodiversity crisis: extinction rates 100–1,000× background. ~1 in 4 mammals threatened. Defaunation of large vertebrates.

Genus diversity through time

O–S D P–T T–J K–Pg marine genera ≈
P. 12 / 17 — pull quote

"There is grandeur in this view of life, with its several powers, having been originally breathed into a few forms or into one..."— Charles Darwin, On the Origin of Species, 1859

FIG. 3
Tree of life.
The phylogenetic tree — molecular evidence has substantially revised earlier morphology-based classification. The three-domain system is now consensus.
P. 13 / 17 — human evolution

The hominin branch.

Humans share ~98.7 % of nuclear DNA with chimpanzees, ~96 % with gorillas, ~93 % with orangutans. Our split from chimpanzees was ~6 Mya, in Africa. The fossil record since then is rich and tangled — at least a dozen recognized hominin species, several coexisting.

  • Sahelanthropus tchadensis — ~7 Mya · Chad
  • Ardipithecus ramidus — ~4.4 Mya · Ethiopia
  • Australopithecus afarensis — Lucy, ~3.2 Mya
  • Homo habilis — ~2.4 Mya · Olduvai Gorge
  • H. erectus — first hominin out of Africa, ~1.9 Mya
  • H. neanderthalensis — Eurasia, ~400–40 kya
  • H. denisovensis — known mostly from genome
  • H. sapiens — ~300 kya · 1.5–4% Neanderthal admixture in non-Africans

Skull volume over time

cc 1500 700 400 A. afarensis H. habilis H. erectus Neanderthal sapiens
P. 14 / 17 — modern synthesis

And the extended one.

The Modern Synthesis (1930s–40s) — Fisher, Haldane, Wright, Dobzhansky, Mayr, Simpson, Stebbins — fused Darwin with Mendelian genetics. Evolution is changes in allele frequencies; speciation is the splitting of gene pools.

Since the 1990s, an Extended Evolutionary Synthesis argues for adding: developmental constraints (evo-devo), epigenetic inheritance, niche construction, multilevel selection, plasticity-led evolution. The debate is more about emphasis than mechanism.

P. 15 / 17 — frontier & open

Where the field moves.

Ancient DNA

Svante Pääbo's lab (Nobel 2022) sequenced Neanderthal & Denisovan genomes. Pleistocene mammoth DNA > 1 My old recovered (2021).

Experimental evolution

Lenski's E. coli LTEE, ~80,000 generations and counting. Citrate utilization evolved at gen ~31,500.

De-extinction

Mammoth, thylacine, dodo proxies under engineering. Bringing functional ecologies back, not "Jurassic Park".

Phylogenomics

Whole-genome trees resolve historic disputes; reveal incomplete lineage sorting and introgression.

Cultural evolution

Henrich; Boyd & Richerson. Dual-inheritance models for human cooperation, language change.

Major transitions

Maynard Smith & Szathmáry's framework: levels of selection re-organize. From RNA to cells to multicellularity to societies.

Still open.

P. 16 / 17 — go deeper

Watch & read.

PBS Eons — Deep Time Series

Plus David Attenborough's "Life on Earth" (1979) — still unmatched.

Watch ↗

References

  • Darwin — On the Origin of Species (1859)
  • Dawkins — The Selfish Gene (1976)
  • Gould — The Structure of Evolutionary Theory (2002)
  • Coyne — Why Evolution Is True (2009)
  • Reich — Who We Are and How We Got Here (2018)
  • Maynard Smith & Szathmáry — The Major Transitions in Evolution (1995)
  • Lenski LTEE — > 80 papers, see Nature 2009
P. 17 / 17 — coda

Endless forms most beautiful.

"Have, and are being, evolved." — closing words, Origin of Species.