Validation of loop-mediated isothermal amplification for fast and portable sex determination across the phylogeny of birds

PCR is a universal tool for the multiplication of specific DNA sequences. For example, PCR-based sex determination is widely used, and a diversity of primer sets is available. However, this protocol requires thermal cycling and electrophoresis, so results are typically obtained in laboratories and several days after sampling. Loop-mediated isothermal amplification (LAMP) is an alternative to PCR that can take molecular ecology outside the laboratory. Although its application has been successfully probed for sex determination in three species of a single avian Family (raptors, Accipitridae), its generality remains untested and suitable primers across taxa are lacking. We designed and tested the first LAMP-based primer set for sex determination across the modern birds (NEO-W) based on a fragment of the gene chromo-helicase-DNA-binding protein located on the female-specific W chromosome. As nucleotide identity is expected to increase among more related taxa, taxonomically targeted primers were also developed for the Order Falconiformes and Families Psittacidae, Ciconiidae, Estrildidae and Icteridae as examples. NEO-W successfully determined sex in a subset of 21 species within 17 Families and 10 Orders and is therefore a candidate primer for all modern birds. Primer sets designed specifically for the selected taxa correctly assigned sex to the evaluated species. A short troubleshooting guide for new LAMP users is provided to identify false negatives and optimize LAMP reactions. This study represents the crucial next step towards the use of LAMP for molecular sex determination in birds and other applications in molecular ecology.

Behaviour-related DRD4 polymorphisms in invasive bird populations

It has been suggested that individual behavioural traits influence the potential to successfully colonize new areas. Identifying the genetic basis of behavioural variation in invasive species thus represents an important step towards understanding the evolutionary potential of the invader. Here, we sequenced a candidate region for neophilic/neophobic and activity behaviour - the complete exon 3 of the DRD4 gene - in 100 Yellow-crowned bishops (Euplectes afer) from two invasive populations in Spain and Portugal. The same birds were scored twice for activity behaviour while exposed to novel objects (battery or slice of apple) in captivity. Response to novel objects was repeatable (r = 0.41) within individuals. We identified two synonymous DRD4 SNPs that explained on average between 11% and 15% of the phenotypic variance in both populations, indicating a clear genetic component to the neophilic/neophobic/activity personality axis in this species. This consistently high estimated effect size was mainly due to the repeated measurement design, which excludes part of the within-individual nongenetic variance in the response to different novel objects. We suggest that the alternative alleles of these SNPs are likely introduced from the original population and maintained by weak or antagonistic selection during different stages of the invasion process. The identified genetic variants have not only the potential to serve as genetic markers of the neophobic/neophilic/activity personality axis, but may also help to understand the evolution of behaviour in these invasive bird populations.

Replicated population divergence caused by localized coevolution? A test of three hypotheses in the red crossbill-lodgepole pine system

Several lines of evidence support the hypothesis that local populations of red crossbills (Loxia curvirostra complex) enter into a predator-prey arms race with lodgepole pine (Pinus contorta latifolia) in the absence of competing pine squirrels (Tamiasciurus hudsonicus). Nevertheless, the alternative hypotheses that neutral evolution or factors other than squirrels have caused crossbill population differentiation have not been thoroughly tested. We compared crossbill and pine cone morphology between island populations where squirrels are absent or present, and mainland sites where squirrels are present, in order to distinguish among these hypotheses. All comparisons supported an effect of squirrel absence, not island status, on crossbill and cone morphology. Hence our results provide further evidence that strong localized coevolutionary interactions in a geographic mosaic have driven adaptive population differentiation. In addition, vocal differentiation of crossbills was related to the absence of squirrels, but not to island status. As morphological and vocal differentiation is correlated with reproductive isolation in crossbills, the geographic mosaic of coevolution also seems to promote ecological speciation.

Evidence that helping at the nest does not result in territory inheritance in the Seychelles warbler

In an environment that has a shortage of territories, helping to rear younger siblings ('alloparenting') is proposed to facilitate territory acquisition in two ways: (i) through group augmentation that leads to an increase of the territory with subsequent partial inheritance (budding); and (ii) through site dominance that leads to greater success when competing for the natal or a nearby territory after the death of the territory owner (complete territory inheritance). Most young Seychelles warbler (Acrocephalus sechellensis) males either show alloparenting or budding behaviour. Future budders had significantly more aggressive interactions with neighbours and assisted their parents more with territory defence than similarly aged future alloparents or non-helpers. This led to an increase of the natal territory of future budders before actual budding took place, whereas the natal territories of future alloparents remained constant in size. Alloparents never became budders and vice versa, refuting partial inheritance as an advantage of alloparenting. Natural male breeding vacancies were never inherited by alloparents born on vacant or other territories, but were inherited by budders born on the vacant territory or, if these were absent, predominantly by budders from neighbouring territories. We offer explicit experimental evidence against the 'helping at the nest to inherit' hypothesis. Experimentally created male breeding vacancies, with both a male alloparent and a similarly aged sibling budder present simultaneously in the vacant territory, were filled by budders only. Site dominance over territory inheritance is linked to budding and not to alloparenting.