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taphonomic bias is systematic distortion of biological information between a living community and the fossil record. Death, carcass decay, scavenging, transport, burial, chemical alteration, exposure and collection all filter what is observed. A deposit therefore samples organisms, body parts and environments unequally. This is more than incompleteness: preferential preservation of a particular tissue or habitat can produce a misleading pattern of abundance, anatomy or evolutionary timing.

An autochthonous fossil assemblage contains remains preserved where the organisms lived; an allochthonous fossil assemblage contains material transported from elsewhere. These describe provenance, rather than two levels of fidelity. In an allochthonous fossil assemblage, currents can separate elements by size, shape and density, concentrate resistant teeth or scales, remove delicate bodies and mix organisms from different habitats. Erosion and redeposition can also introduce older fossils into younger sediment. Such reworking differs from simple transport of recently dead animals. time averaging mixes deaths from different times even without long-distance transport. A concentration of robust remains consequently need not represent either a locally abundant living population or a single ecological event.

An autochthonous fossil assemblage avoids some transport distortion, but still selects organisms and characters. A bottom-dwelling community rapidly buried in place can be unusually well represented while swimmers above it, unmineralized tissues and organisms living outside that depositional setting are missing. Conversely, an intact carcass can travel before burial, whereas locally decayed remains can become disarticulated without transport. Articulation, abrasion, preferred orientation, sedimentary context and age agreement must therefore be evaluated together. Local preservation does not imply an unbiased biological census.

The contrast between cyclostomes and early members of the gnathostome lineage is particularly revealing. Living cyclostomes, hagfish and lampreys, have no extensive mineralized external skeleton comparable to the armour of many early jawless relatives of gnathostomes. Their bodies are dominated by tissues whose preservation usually requires exceptional conditions. The abundance of isolated mineralized scales, plates or teeth can thus make a hard-bodied lineage conspicuous where a soft-bodied contemporary is virtually invisible. Importantly, the armoured jawless assemblage traditionally called ostracoderms is not simply the ancestral cyclostome record: many of its members belong on the gnathostome stem. Absence of jaws does not by itself establish cyclostome affinity.

There is also a character-level filter. Robert S. Sansom and colleagues followed experimental carcass decay of living chordates, and then examined hagfish and lampreys in detail. Anatomical characters did not disappear at random: loss of diagnostic features could make a derived animal appear more primitive. This produces stemward slippage if investigators mistake an unpreserved feature for a feature absent in life. The result is relevant both to isolated soft-bodied fossils and to the apparently long primitive intervals preceding well-preserved groups.^[ref][ref]

A useful experimental design records fresh anatomy first, samples replicated carcasses through time under stated temperature and chemical conditions, and scores the same characters in each specimen. Comparisons between animals and between preservational conditions test whether the loss order is reproducible. Such experiments identify plausible biases; they do not recreate every burial chemistry or prove that every uncertain fossil has undergone the same sequence. In a phylogenetic character matrix, genuinely unobservable anatomy should normally be coded as unknown rather than automatically absent. Comparison across differently preserved specimens can sometimes recover information that one specimen lacks.

Exceptional discoveries show what the ordinary record omits. The Late Devonian lamprey Priscomyzon from South Africa preserves a recognizable oral apparatus and branchial region without a massive mineralized skeleton. It shows that early lamprey anatomy can be recovered when the appropriate soft-tissue window is available; the gap before such a discovery is not evidence that the lineage had just originated.^[ref] The Cretaceous hagfish Tethymyxine preserves evidence including slime-producing structures, allowing characters unavailable in most older deposits to be brought into an analysis using phylogenetics. It supplies a minimum occurrence and anatomical information, not the date when hagfish originated.^[ref] Conversely, Early Silurian Qianodus is known through mineralized tooth whorls: such durable small remains can establish an early occurrence of a toothed gnathostome even where complete bodies are missing.^[ref]

The defensible comparison concerns preservation probabilities as well as biological histories. First fossil occurrences are minimum ages, and unequal counts need not measure unequal diversity. Independent anatomical characters, comparable depositional settings, searches for small hard parts and exceptional soft-tissue deposits together give a better test of early vertebrate history than a literal reading of the most conspicuous remains.

Erroneous placement toward the base of a lineage when loss of diagnostic characters through carcass decay is interpreted as an ancestral biological absence. Coding unobservable characters as unknown and comparing preservation across specimens can reduce the problem.