Rediscovering the Apaporis Caiman (Caiman crocodilus apaporiensis): Notes from a Long-Anticipated Expedition

Update: Assessing the evolutionary trajectory of the Apaporis caiman (Caiman crocodilus apaporiensis, Medem 1955) via mitochondrial molecular markers

The spectacled caiman (Caiman crocodilus) is currently considered to be a species complex due to the relatively high morphological and molecular diversity expressed across its range. One of the populations of interest, inhabiting the Apaporis River (Colombia), was described based on skull features as an incipient species (C. c. apaporiensis) and has been treated by some authors as a full species. Recent molecular work challenged this hypothesis, because relatively low mitochondrial molecular differentiation was found between the morphologically described Apaporis caiman and C. crocodilus (s.s.) Amazonian populations. Here, we present an update on the topic based on a larger molecular sample size and on analysis of expanded geometric morphometric data that include six newly collected skulls. Morphometric data support the existence of previously recognized morphotypes within the complex in Colombia and demonstrate that the newly collected material can be assigned to the classic Apaporis caiman morphotype. However, our expanded genetic analysis fails to find appreciable mitochondrial molecular divergence of the Apaporis caiman population from the C. c. crocodilus population (COI-CytB: Amazon Peru 0.17 ± 0.06%, CytB-only: Caquetá River Colombia 0.08 ± 0.07%). The Apaporis caiman is interpreted to be a phenotypically distinct member of the cis-Andean C. crocodilus metapopulation that has not yet achieved (or may not be undergoing at all) appreciable genetic differentiation. Thus, it should not be considered a fully independent evolutionary lineage, nor given full species rank.

Unveiling the mystery: assessing the evolutionary trajectory of the Apaporis caiman population (Caiman crocodilus apaporiensis, Medem 1955) via mitochondrial molecular makers

The Apaporis caiman (Caiman crocodilus apaporiensis) has been of particular interest due to its highly differentiated morphology. However, no molecular research has been done to clarify its taxonomy. We characterized the genetic variation within C. crocodilus by assessing the evolutionary trajectory of Apaporis caiman populations using mitochondrial molecular markers. We collected ten Apaporis caiman samples from the middle basin of the Apaporis River, Colombia, sequenced two mitochondrial genes [cytochrome oxidase I (COI) and cytochrome B (CytB)], and analysed them together with all available sequences from homologous gene fragments at GenBank for the species. Phylogenetic reconstructions revealed three main clades clearly differentiated across the C. crocodilus complex. These clades matched genetically and geographically with three of the four subspecies currently recognized (C. c. chiapasius, C. c. fuscus and C. c. crocodilus). However, we found low to almost non-existent genetic differentiation between C. c. crocodilus and the until-now morphologically recognized C. c. apaporiensis, suggesting that the latter is part of the genetic spectrum present within C. c. crocodilus. We reject the hypothesis of an expected elevated level of genetic variation due to isolation (supported by morphological differentiation) and support the idea of Apaporis caiman populations as a C. crocodilus ecomorph.

Modern cryptic species and crocodylian diversity in the fossil record

Advances in molecular biology and genetics are revealing that many recognized crocodylian species are complexes of two or more cryptic species. These discoveries will have a profound impact on interpretation of the crocodyliform fossil record. Our understanding of ranges of intraspecific variation in modern crocodylian morphology may be based on multiple species and thus express both intraspecific and interspecific variation. This raises questions about our ability to recognize modern species in the fossil record, and it also indicates that specimens from disparate localities or horizons may represent not single widespread species, but multiple related species. Ranges of variation in modern species require a thorough re-evaluation, and we may have to revisit previous perceptions of past crocodyliform diversity, rates of evolution or anagenetic lineages in stratigraphic succession. These challenges will not be unique to those studying crocodyliforms and will require sophisticated approaches to variation among modern and fossil specimens.