Biology subjects

Tan, D. J. X.

Publications and source records attributed to Tan, D. J. X..

3 recordsLinked to original sources

bioRxiv2026

Drift drives phenotypic evolution in a rapid island radiation

Understanding the processes that generate phenotypic diversity is central to explaining how new species form1,2. Evolutionary theory predicts that rapid evolution of signaling traits, such as feather coloration, can promote speciation3,4 but empirical support is inconsistent5,6. Phenotypic divergence of such traits is expected during speciation4, but these microevolutionary dynamics are rarely examined at macroevolutionary scales or linked to underlying population demography. Here, we leverage complete taxon sampling across an iconic insular bird radiation that helped shape early theories of allopatric speciation. We integrate whole-genome data with a comprehensive, fine-scale dataset of whole-body plumage coloration to directly test whether signaling trait evolution covaries with lineage diversification and to disentangle the roles of selection and drift. We find that lineages with faster rates of color evolution diversify more rapidly. Strikingly, rates of color evolution accelerate as genomic diversity declines, providing direct evidence that genetic drift--rather than strong sexual or ecological selection--can drive rapid phenotypic change in small, isolated insular populations. Together, these results provide compelling evidence that neutral demographic processes can accelerate the evolution of sexual signals and play a central role in generating phenotypic diversity during island radiations.

zoology↗

bioRxiv2025

Programmed DNA elimination drives rapid genomic innovation in two thirds of all bird species

Bird genomes are among the most stable in terms of synteny and gene content across vertebrates. However, germline-restricted chromosomes (GRCs) represent a striking exception where programmed DNA elimination confines large-scale genomic changes to the germline. GRCs are known to occur in songbirds (oscines), but have been studied only in a few species of Passerides such as the zebra finch, the key model for passerine genomics. Their presence and evolutionary dynamics in most major passerine lineages remain largely unexplored, with suboscines entirely unexamined by cytogenetic or genomic methods. Here, we present the most comprehensive comparative analysis of GRCs to date, spanning 44 million years of passerine evolution. By generating the first germline reference genomes of an oscine and a suboscine, 22 novel germline draft genomes spanning nearly all major passerine lineages and a germline draft genome of a parrot outgroup, we show that the GRC is likely present in 6,700 passerine species. Our results reveal that the GRC evolves rapidly and distinctly from the standard A chromosomes (autosomes and sex chromosomes), yet retains functionally important, selectively maintained genes. We observed gene and repeat turnover occuring orders of magnitude faster than on the A chromosomes. Some GRC genes, such as cpeb1 and pim1, are widespread from an ancient duplication. In contrast, other GRC genes, like mfsd2b and bmp15, have been independently duplicated onto the GRC multiple times, suggesting adaptive constraints. The discovery of zglp1 on the zebra finch GRC, initially copied from chromosome 30 and subsequently lost from it, indicates functional replacement, where the GRC permits gene loss from the standard genome. As the GRC harbors the only zglp1 copy in most of the [~]4000 Passerides species, GRC loss would compromise essential germline functions. Our findings establish the GRC as a genomic innovator driving rapid germline evolution. This fact highlights its evolutionary significance for passerine diversification and suggests that programmed DNA elimination may be an overlooked yet phylogenetically widespread mechanism in many understudied animal lineages.

genomics↗

bioRxiv2021

Riding into the future on a fly: toward a better understanding of phoresy and avian lice evolution (Phthiraptera) by screening bird carcasses for phoretic lice on hippoboscid flies (Diptera)

Many phoretic relationships between insects are understudied because of taxonomic impediments. We here illustrate for avian lice riding on hippoboscid flies how new natural history data on phoretic relationships can be acquired quickly with NGS barcoding. Most avian lice are host-specific, but some can arrive on new hosts by riding hippoboscid flies that feed on bird blood. Our summary of the literature yielded 254 published records which we here show to belong to two large and 13 small interaction networks for birds, flies, and lice. In order to generate new records, we then developed a new protocol based on screening bird carcasses sourced by citizen scientists. The inspection of 131 carcasses from Singapore lead to the first record of a Guimaraesiella louse species riding on Ornithoica momiyamai flies collected from a pitta carcass. Phoresy may explain why this louse species is now known from three phylogenetically disparate hosts (Pitta moluccensis, Ficedula zanthopygia; Pardaliparus elegans). A second new case of phoresy enhances a large interaction network dominated by Ornithophila metallica, a cosmopolitan and polyphagous hippoboscid fly species. Overall, we argue that many other two- and three-way phoretic relationships between arthropods (e.g., mites, pseudoscorpiones, beetles, flies) can be resolved using cost-effective large-scale NGS barcoding, which can be used to pre-sort specimens for taxonomic revision and thus partially overcome some taxonomic impediments.

evolutionary biology↗