Isolation and characterization of novel microsatellite loci for parentage assessment in the lance‐tailed manakin (Chiroxiphia lanceolata)

The lance‐tailed manakin (Chiroxiphia lanceolata) is a lek‐breeding bird from Central America in which males court females with complex cooperative displays. To resolve detailed patterns of paternity in the wild, we isolated and characterized 12 novel microsatellite loci in this species. Eleven of these loci were polymorphic (five to 14 alleles), with observed heterozygosities ranging from 0.36 to 0.87 (N = 574 individuals). We tested for linkage disequilibrium using randomized subsamples of adults to control for known family structure among long‐lived and sedentary individuals. These loci will be valuable in resolving paternity among many candidate fathers in this species.     

The highly polymorphic microsatellite markers for the greater long‐tailed hamster (Tscherskia triton)

We isolated 25 dinucleotide microsatellite loci from the greater long‐tailed hamster (Tscherskia triton) populations in North China. We developed the amplification conditions of polymerase chain reaction for producing high‐resolution genetic markers for each locus. We found 10 microsatellite loci were highly polymorphic in 90 individual hamsters from three areas of North China, and the number of alleles in each locus varied from three to 11. These markers are potential tools for studying the genetic variation of the natural populations of this species.     

Characterization of 21 microsatellite marker loci in the prehensile‐tailed skink (Corucia zebrata)

Twenty‐one polymorphic microsatellite loci were isolated and characterized from the genome of the prehensile‐tailed skink (Corucia zebrata). The markers were screened using a set of 16 individuals from the collection of the Philadelphia Zoo. The corresponding characterization indicated significant levels of heterozygosity and information potential for use in future studies. These markers will be a valuable tool in analysing the paternal contributions in twin birth questions and for population genetic studies in wild populations.     

Isolation and characterization of polymorphic microsatellite loci in the lance‐tailed manakin (Chiroxiphia lanceolata)

Eight microsatellite loci were isolated from the lance‐tailed manakin (Chiroxiphia lanceolata), a polygynous lek‐breeding bird from Central America. Five of these loci were polymorphic (two to seven alleles per locus), with observed levels of heterozygosity ranging from 0.100 to 0.860 (n = 50 individuals). These variable loci provide a valuable tool for assessing patterns of parentage and relatedness within lance‐tailed manakin social groups.     

Characterization of new microsatellite loci for the ring‐tailed lemur (Lemur catta)

In this report we describe the development and characterization of six dinucleotide microsatellite loci for the ring‐tailed lemur (Lemur catta). The new markers were isolated from the genomic DNA of L. catta and all loci were found to be polymorphic when evaluated by genotyping a minimum of 34 individuals. Mendelian inheritance of each locus was verified using four families of captive ring‐tailed lemurs. The loci presented will facilitate the genetic survey of free‐ranging L. catta, enabling study of their social organization and mating patterns.     

Characterization of 10 microsatellite loci in the spiny‐tailed iguana Ctenosaura hemilopha

Ten microsatellite loci were developed for the Baja California spiny‐tailed iguana Ctenosaura hemilopha, using an enriched genomic DNA library. In the Cerralvo Island population, seven loci were polymorphic and presented moderate levels of variation. Number of alleles ranged from two to eight (average 4.43), and observed heterozygosity from 0.150 to 0.857 (average 0.492). Polymorphism was detected at six loci on C. hemilopha individuals from the southern Baja California Peninsula. These markers will be useful to study familiar relationships and behaviour on the Cerralvo Island population.     

Misprescription and misuse of one‐tailed tests

One‐tailed statistical tests are often used in ecology, animal behaviour and in most other fields in the biological and social sciences. Here we review the frequency of their use in the 1989 and 2005 volumes of two journals (Animal Behaviour and Oecologia), their advantages and disadvantages, the extensive erroneous advice on them in both older and modern statistics texts and their utility in certain narrow areas of applied research. Of those articles with data sets susceptible to one‐tailed tests, at least 24% in Animal Behaviour and at least 13% in Oecologia used one‐tailed tests at least once. They were used 35% more frequently with nonparametric methods than with parametric ones and about twice as often in 1989 as in 2005. Debate in the psychological literature of the 1950s established the logical criterion that one‐tailed tests should be restricted to situations where there is interest only in results in one direction. ‘Interest’ should be defined; however, in terms of collective or societal interest and not by the individual investigator. By this ‘collective interest’ criterion, all uses of one‐tailed tests in the journals surveyed seem invalid. In his book Nonparametric Statistics, S. Siegel unrelentingly suggested the use of one‐tailed tests whenever the investigator predicts the direction of a result. That work has been a major proximate source of confusion on this issue, but so are most recent statistics textbooks. The utility of one‐tailed tests in research aimed at obtaining regulatory approval of new drugs and new pesticides is briefly described, to exemplify the narrow range of research situations where such tests can be appropriate. These situations are characterized by null hypotheses stating that the difference or effect size does not exceed, or is at least as great as, some ‘amount of practical interest’. One‐tailed tests rarely should be used for basic or applied research in ecology, animal behaviour or any other science.     

Development and characterization of simple sequence repeat DNA markers for Zelkova serrata

We developed 14 microsatellite loci from an enriched genomic DNA library of a broad‐leaved deciduous tree, Zelkova serrata. Of 198 clones from the library, 112 contained microsatellite repeat regions. The M13‐tailed primer method was used for economy. Sequence‐specific primer pairs were designed for 58 of 76 candidate clones. Fourteen of these primer pairs successfully amplified polymorphic single loci among 34 individuals collected from the Kanto breeding region in Japan. The expected heterozygosity for the 14 microsatellite markers ranged from 0.378 to 0.876, suggesting that these will prove valuable for breeding and ecological studies on Z. serrata.     

Breeding behavior of female white‐tailed deer relative to conception: Evidence for female mate choice

Female white‐tailed deer (Odocoileus virginianus) are thought to choose between two behavioral strategies to maximize the quality of potential mates: sit and wait, characterized by concentrating activity within a restricted area, and excursive behavior, characterized by increased activity and excursions outside the home range. As movement patterns may influence conception, our goal was to examine the patterns of female white‐tailed deer movements to evaluate which breeding strategy was employed. We equipped 36 female white‐tailed deer with GPS collars from August 2013 to December 2015. We found that movement rate and probability of activity were greatest near the peak of the breeding season, and we observed increases in both metrics during the 40 days prior to estimated conception. Peak size of home range and core area occurred in the days surrounding conception. We found that 11 deer performed an excursion, ranging from 43 days before until 36 days after conception, with the peak probability of being outside of an individual home range occurring 1 day prior to conception. Our results suggest that female white‐tailed deer may attempt to maximize the quality of their mates by advertising availability for breeding through excursive behaviors just prior to entering estrus.     

Chick‐provisioning behaviour of two shearwaters breeding in south‐eastern Australia

The chick‐provisioning behaviour of the short‐tailed shearwater Puffinus tenuirostris and the wedge‐tailed shearwater Puffinus pacificus was investigated in a mixed colony on Montague Island, New South Wales, Australia, over two breeding seasons. This colony is located at opposite edges of the breeding distribution of the two species. Frequent weighing techniques were used to determine chick feeding frequency, feed timing, meal size, chick weight loss and indices of food conversion efficiency of the chicks. Short‐tailed shearwater parents fed their chicks larger more infrequent meals than wedge‐tailed shearwater parents. Short‐tailed shearwater chicks demonstrated higher food conversion efficiencies and lower weight loss than wedge‐tailed shearwater chicks, indicating either differences in diet or metabolic rates. The feeding frequency in wedge‐tailed shearwaters also fluctuated more widely than for short‐tailed shearwaters over the two breeding seasons. Despite the fact that the timing of the breeding cycle on Montague Island is almost identical for the two species, these differences in chick provisioning are probably a result of differences in prey type and location, so they may help explain variations in annual breeding success and limits to the distribution of the two species.     

Anti‐predator behaviour in a procellariid seabird: Wedge‐tailed shearwaters do not respond to the odour of introduced ship rats

Seabirds are particularly vulnerable to introduced alien mammalian predators, especially invasive rats, which are the main contributors to seabird extinction and endangerment in many places worldwide. However, this appears context‐dependent because, paradoxically, cases of apparent long‐term coexistence between rats and some species of seabird have been reported for centuries, in various locations. Among seabirds, procellariiforms are known to have developed a range of olfactory‐driven behaviours, such as partner recognition and homing. Olfaction could be an effective means of recognizing and thereafter avoiding invasive predators. However, the role of olfaction in predation risk assessment has not yet been examined in any procellariiform. Here, we investigated, through a Y‐maze experiment, whether the wedge‐tailed shearwater (Puffinus pacificus) avoided the odour of one of the most damaging alien predators on islands, the ship rat (Rattus rattus). The experiment was conducted in different ecological contexts on three neighbouring islets off New Caledonia having different communities of invasive rats. Contrary to our expectations, the wedge‐tailed shearwater either did not detect or did not avoid the odour of the ship rat, despite about 175 years of coexistence between rats and shearwaters in New Caledonia. These findings highlight the need for further investigations (across species, across sites) into the factors underpinning the paradox between high vulnerability and the surprising long‐term coexistence between procellariid seabirds and alien invasive rats.     

Isolation and characterization of 11 polymorphic microsatellite loci in the giant white‐tailed rat (Uromys caudimaculatus)

Microsatellite loci were developed for the giant white‐tailed rat (Uromys caudimaculatus) to aid in assigning paternity and to subsequently investigate their mating system and sex‐biased dispersal characteristics. Twenty‐two primer sets were originally developed and of these, 11 were polymorphic with between five and 10 alleles per locus. In addition, two primer sets designed for Hydromys chyrsogaster also amplified in this species despite an evolutionary divergence of 15 million years (Myr).     

Activity patterns of long‐tailed bats (Chalinolobus tuberculatus) in a rural landscape,South Canterbury,New Zealand

Abstract

The temporal and spatial activity patterns of long‐tailed bats (Chalinolobus tuberculatus) were assessed between January and July 1995 by automatic monitoring of echolocation calls, radio‐telemetry and direct observation at Hanging Rock, South Canterbury. Automatic bat detection units recorded 8728 bat passes and 933 feeding buzzes during 272 nights of sampling. In addition, five radio‐tagged post‐lactating female bats were each followed for an average of 13.0 ± 3.2 (SE) days. Home range size averaged 471.4 ± 50.9 ha (95% median minimum convex polygons) but core areas of activity (50% of fixes) were 54.4 ± 5.4 ha (11.6 ± 3.1% of the home range size). Patterns of activity varied in relation to time of year, time of night, temperature, invertebrate activity and habitat. Between January and March, long‐tailed bats consistently emerged from day roosts at sunset and flew throughout the night, with peaks of activity shortly after sunset and before sunrise. After the beginning of April, long‐tailed bats no longer flew throughout the night, but they had one peak of activity between the first and third hour after sunset. Both automatic monitoring and radio‐telemetry showed extensive use by long‐tailed bats of river and riparian habitats. Radio‐tagged bats avoided foraging over open farmland, and repeatedly returned to the same sites on consecutive nights.     

Tail Length and Mutual Mate Choice in Bearded Tits (Panurus biarmicus)

Direct sexual selection via mutual mate choice can result in both sexes showing conspicuous traits. We experimentally tested whether this hypothesis can explain tail length in the bearded tit (Panurus biarmicus). In this species, both sexes have a long, graduated tail. Males have, however, a longer tail than females, suggesting perhaps that females are choosier than males in selecting mates. We used two choice set‐ups for each sex: shortened vs. control tail individuals and elongated vs. control tail individuals. We found that direct sexual selection seems to operate differently in the two sexes. In both set‐ups, females spent more time with the male with the longest tail, and they also showed sexual display behaviour only towards these males. Males spent more time with control than with short‐tailed females, but they did not discriminate between control and long‐tailed females. Moreover, males displayed preference towards both short‐ and long‐tailed females. Thus, females preferred long‐tailed males, whereas males did not always prefer long‐tailed females. Our study suggests that mutual mate choice has played a role in the evolution of long tails in bearded tits. It also suggests that the sexual dimorphism in tail length has evolved because mate choice exerts a stronger sexual selection pressure on males than on females.     

Extremely variable di‐ and tetranucleotide microsatellite loci in Brazilian free‐tailed bats (Tadarida brasiliensis)

We present three dinucleotide and six tetranucleotide microsatellite loci that were developed for the Brazilian free‐tailed bat, Tadarida brasiliensis (Chiroptera, Molossidae). Ninety‐one individuals from two populations were scored at each locus, revealing extremely high levels of polymorphism (15–55 alleles per locus). These loci provide genetic markers for studying gene flow, migration and mating behaviour.     

Scab resistance in ‘Geneva’ apple is conditioned by a resistance gene cluster with complex genetic control

Apple scab, caused by the fungal pathogen Venturia inaequalis, is one of the most severe diseases of apple worldwide. It is the most studied plant–pathogen interaction involving a woody species using modern genetic, genomic, proteomic and bioinformatic approaches in both species. Although ‘Geneva’ apple was recognized long ago as a potential source of resistance to scab, this resistance has not been characterized previously. Differential interactions between various monoconidial isolates of V. inaequalis and six segregating F1 and F2 populations indicate the presence of at least five loci governing the resistance in ‘Geneva’. The 17 chromosomes of apple were screened using genotyping‐by‐sequencing, as well as single marker mapping, to position loci controlling the V. inaequalis resistance on linkage group 4. Next, we fine mapped a 5‐cM region containing five loci conferring both dominant and recessive scab resistance to the distal end of the linkage group. This region corresponds to 2.2 Mbp (from 20.3 to 22.5 Mbp) on the physical map of ‘Golden Delicious’ containing nine candidate nucleotide‐binding site leucine‐rich repeat (NBS‐LRR) resistance genes. This study increases our understanding of the complex genetic basis of apple scab resistance conferred by ‘Geneva’, as well as the gene‐for‐gene (GfG) relationships between the effector genes in the pathogen and resistance genes in the host.     

Isolation and characterization of polymorphic microsatellite markers in the gray,short‐tailed opossum (Monodelphis domestica)

Twenty‐six polymorphic microsatellite markers were isolated from (AC)_n and (AG)_n microsatellite‐enhanced genomic libraries of the gray, short‐tailed opossum Monodelphis domestica. All 26 loci showed high allelic diversity, with allele numbers ranging from five to 11 in a subset of 35 animals. Normal Mendelian inheritance was confirmed for 24 loci by analysing allelic segregation in 10, two‐generation, families. Non‐amplifying (null) alleles were detected at two loci, which we recommend be used only if pedigree data are available. We conclude that all of these microsatellite markers would be useful for quantitative trait locus mapping and population genetic studies.     

Competition for resources mediated by intrinsic social dominance in sympatric finches

Gouldian Erythrura gouldiae and Long‐tailed Finches Poephila acuticauda are morphologically and ecologically similar sympatric species, for which social dominance relationships are likely to determine access to critical limiting resources. Building on previous research showing that Long‐tailed Finches dominate competition for nest‐sites, I staged dyadic contests for food between the two species in captivity in order to test social dominance dynamics under controlled conditions. Long‐tailed Finches were likely to dominate interactions with Gouldian Finches and expressed higher levels of aggression while competing for access to food. These results suggest a stable dominance relationship between the two species which could be affecting Gouldian Finches' access to food resources in the wild, potentially constraining their ability to recover from recent population declines.     

Characterization of seven polymorphic microsatellite loci in the Baja California endemic black‐tailed brush lizard Urosaurus nigricaudus

Seven microsatellite loci were developed for the Baja California endemic black‐tailed brush lizard Urosaurus nigricaudus, using an enriched genomic DNA library. All loci were polymorphic and overall presented high levels of variation. Number of alleles ranged from five to 16 (average 12.14), and observed heterozygosities from 0.535 to 0.923 (average 0.752). Cross‐species amplification was successful and polymorphism was detected for all the loci using the congeners Urosaurus lahtelai and Urosaurus ornatus. These markers will be useful to study fragmented populations of U. nigricaudus on agricultural landscape of the Baja California Peninsula.     

Additional microsatellites for Sparus aurata and cross‐species amplification within the Sparidae family

Six new microsatellite loci were isolated and characterized in 32 individuals from a farm population of gilthead seabream (Sparus aurata). Expected heterozygosity at all loci was high, ranging from 0.835 to 0.958 with between 10 and 27 alleles per locus. A multiplex polymerase chain reaction protocol was developed using four of the loci. Cross‐species amplification of the loci was tested in six species of the Sparidae family and four loci were successfully amplified in two or more related species.