bluuebunny/crossref_metadata_2025_split huggingface dataset:
DNA metabarcoding quantifies the relative biomass of arthropod taxa in songbird diets: Validation with camera‐recorded diets
Authors: Verkuil Yvonne I. , Nicolaus Marion , Ubels Richard , Dietz Maurine W. , Samplonius Jelmer M. , Galema Annabet , Kiekebos Kim , de Knijff Peter , Both Christiaan 
Published: May 2022

AbstractEcological research is often hampered by the inability to quantify animal diets. Diet composition can be tracked through DNA metabarcoding of fecal samples, but whether (complex) diets can be quantitatively determined with metabarcoding is still debated and needs validation using free‐living animals. This study validates that DNA metabarcoding of feces can retrieve actual ingested taxa, and most importantly, that read numbers retrieved from sequencing can also be used to quantify the relative biomass of dietary taxa. Validation was done with the hole‐nesting insectivorous Pied Flycatcher whose diet was quantified using camera footage. Size‐adjusted counts of food items delivered to nestlings were used as a proxy for provided biomass of prey orders and families, and subsequently, nestling feces were assessed through DNA metabarcoding. To explore potential effects of digestion, gizzard and lower intestine samples of freshly collected birds were subjected to DNA metabarcoding. For metabarcoding with Cytochrome Oxidase subunit I (COI), we modified published invertebrate COI primers LCO1490 and HCO1777, which reduced host reads to 0.03%, and amplified Arachnida DNA without significant changing the recovery of other arthropod taxa. DNA metabarcoding retrieved all commonly camera‐recorded taxa. Overall, and in each replicate year (N = 3), the relative scaled biomass of prey taxa and COI read numbers correlated at R = .85 (95CI:0.68–0.94) at order level and at R = .75 (CI:0.67–0.82) at family level. Similarity in arthropod community composition between gizzard and intestines suggested limited digestive bias. This DNA metabarcoding validation demonstrates that quantitative analyses of arthropod diet is possible. We discuss the ecological applications for insectivorous birds.
A review of the cues used for rejecting foreign eggs from the nest by the Eurasian blackbird (Turdus merula)
Authors: Fulmer Andrew G. , Hauber Mark E. 
Published: May 2022

AbstractAvian brood parasitism is reproductively costly for hosts and selects for cognitive features enabling anti‐parasitic resistance at multiple stages of the host's breeding cycle. The true thrushes (genus Turdus) represent a nearly worldwide clade of potential hosts of brood parasitism by Cuculus cuckoos in Eurasia and Africa and Molothrus cowbirds in the Americas. The Eurasian blackbird (Turdus merula) builds an open‐cup nest and is common within much of the common cuckoo's (C. canorus) breeding range. While this thrush is known to be parasitized at most only at low rates by this cuckoo, the species is also a strong rejector of nonmimetic foreign eggs in the nest. Given their open‐cup nesting habits, we predict that Eurasian blackbirds primarily use visual cues in making a distinction between own and parasitically or experimentally inserted foreign eggs in the nest. We then provide a comprehensive and quantitative review of the literature on blackbird egg rejection studies. This review corroborates that vision is the primary sensory modality used by blackbirds in assessing eggs, but also brings attention to some other, less commonly studied cues which appear to influence rejection, including predator exposure, individual experience, stage of clutch completion, and maternal hormonal state. Blackbirds are also able to recognize and eject even highly mimetic eggs (including those of conspecifics) at a moderate rate, apparently relying on many of the same sensory cues. Although the cues involved in foreign egg recognition by Eurasian blackbirds do not appear specialized to nonmimetic cuckoo parasitism, we cannot differentiate between the possibility of egg rejection being selected by mostly conspecific parasitism or by the evolutionary ghost of a now‐extinct, mimetic cuckoo host‐race.
Effects of insularity on genetic diversity within and among natural populations
Authors: Hunt David A. G. A. , DiBattista Joseph D. , Hendry Andrew P. 
Published: May 2022

AbstractWe conducted a quantitative literature review of genetic diversity (GD) within and among populations in relation to categorical population size and isolation (together referred to as “insularity”). Using populations from within the same studies, we were able to control for between‐study variation in methodology, as well as demographic and life histories of focal species. Contrary to typical expectations, insularity had relatively minor effects on GD within and among populations, which points to the more important role of other factors in shaping evolutionary processes. Such effects of insularity were sometimes seen—particularly in study systems where GD was already high overall. That is, insularity influenced GD in a study system when GD was high even in non‐insular populations of the same study system—suggesting an important role for the “scope” of influences on GD. These conclusions were more robust for within population GD versus among population GD, although several biases might underlie this difference. Overall, our findings indicate that population‐level genetic assumptions need to be tested rather than assumed in nature, particularly for topics underlying current conservation management practices.
Population genomic analyses reveal hybridization and marked differences in genetic structure of Scurria limpet sister species with parapatric distributions across the South Eastern Pacific
Authors: Saenz‐Agudelo Pablo , Peluso Lívia , Nespolo Roberto , Broitman Bernardo R. , Haye Pilar A. , Lardies Marco A. 
Published: May 2022

AbstractThe study of sister species that occur in parapatry around biogeographic transition zones can help understand the evolutionary processes that underlie the changes in species composition across biogeographic transition zones. The South Eastern Pacific (SEP) coast is a highly productive coastal system that exhibits a broad biogeographic transition zone around 30–35°S. Here, we present a comparative genome‐wide analysis of the sister species Scurria viridula and Scurria zebrina, that occur in parapatry and whose poleward and equatorward range edges intersect in the 30–35°S SEP biogeographic transition zone. We sampled 118 specimens sourced from nine sites from Tocopilla (22°S) to Chiloé (41°S) including one site where both species overlap and analyzed over 8000 biallelic single nucleotide polymorphisms. We found evidence of hybridization between these species in the contact zone and found significant but contrasting population structures for both species. Our results indicate that the genetic structure in S. viridula, which is currently expanding its range poleward, follows a simple isolation by distance model with no traces of natural selection (no evidence of outlier loci). In contrast, S. zebrina, which has its equatorward range edge at the transition zone, displayed a pronounced genetic break approximately at 32–34°S, along a region of marked environmental heterogeneity in association with a semi‐permanent coastal upwelling regime. For S. zebrina we also found 43 outlier loci associated with this genetic break, with a significant proportion of them clustering in a single linkage group. This marked difference in the presence of outlier loci between species suggests that they could be responding differently to local environmental challenges found at their overlapping geographic range edges, thus providing important new insights about genomic changes around biogeographic transition zones in sister species and the forces that shape genetic diversity in intertidal marine species.
Shifting focus from resistance to disease tolerance: A review on hybrid house mice
Authors: Balard Alice , Heitlinger Emanuel 
Published: May 2022

AbstractParasites have been proposed to modulate the fitness of hybridizing hosts in part based on observations in the European house mouse hybrid zone (HMHZ), a tension zone in which hybrids show reduced fitness. We here review evidence (1) for parasite load differences in hybrid versus parental mice and (2) for health and fitness effects of parasites promoting or preventing introgression and hybridization. The question of relative resistance or susceptibility of hybrids to parasites in the HMHZ has long been controversial. Recent field studies found hybrids to be more resistant than mice from parental subspecies against infections with pinworms and protozoans (Eimeria spp.). We argue that the field studies underlying the contradictory impression of hybrid susceptibility have limitations in sample size, statistical analysis and scope, focusing only on macroparasites. We suggest that weighted evidence from field studies indicate hybrid resistance. Health is a fitness component through which resistance can modulate overall fitness. Resistance, however, should not be extrapolated directly to a fitness effect, as the relationship between resistance and health can be modulated by tolerance. In our own recent work, we found that the relationship between health and resistance (tolerance) differs between infections with the related species E. falciformis and E. ferrisi. Health and tolerance need to be assessed directly and the choice of parasite has made this difficult in previous experimental studies of house mice. We discuss how experimental Eimeria spp. infections in hybrid house mice can address resistance, health and tolerance in conjunction.
Predator cannibalism can shift prey community composition toward dominance by small prey species
Authors: Takatsu Kunio 
Published: May 2022

AbstractCannibalism among predators is a key intraspecific interaction affecting their density and foraging behavior, eventually modifying the strength of predation on heterospecific prey. Interestingly, previous studies showed that cannibalism among predators can increase or reduce predation on heterospecific prey; however, we know less about the factors that lead to these outcomes. Using a simple pond community consisting of Hynobius retardatus salamander larvae and their associated prey, I report empirical evidence that cannibalism among predators can increase predation on large heterospecific prey but reduce that on small heterospecific prey. In a field‐enclosure experiment in which I manipulated the occurrence of salamander cannibalism, I found that salamander cannibalism increased predation on frog tadpoles but reduced that on aquatic insects simultaneously. The contrasting effects are most likely to be explained by prey body size. In the study system, frog tadpoles were too large for non‐cannibal salamanders to consume, while aquatic insects were within the non‐cannibals’ consumable prey size range. However, when cannibalism occurred, a few individuals that succeeded in cannibalizing reached large enough size to consume frog tadpoles. Consequently, although cannibalism among salamanders reduced their density, salamander cannibalism increased predation on large prey frog tadpoles. Meanwhile, salamander cannibalism reduced predation on small prey aquatic insects probably because of a density reduction of non‐cannibals primarily consuming aquatic insects. Body size is often correlated with various ecological traits, for instance, diet width, consumption, and excretion rates, and is thus considered a good indicator of species’ effects on ecosystem function. All this considered, cannibalism among predators could eventually affect ecosystem function by shifting the size composition of the prey community.
A chromosomal inversion may facilitate adaptation despite periodic gene flow in a freshwater fish
Authors: Thorstensen Matt J. , Euclide Peter T. , Jeffrey Jennifer D. , Shi Yue , Treberg Jason R. , Watkinson Douglas A. , Enders Eva C. , Larson Wesley A. , Kobayashi Yasuhiro , Jeffries Ken M. 
Published: May 2022

AbstractDifferences in genomic architecture between populations, such as chromosomal inversions, may play an important role in facilitating adaptation despite opportunities for gene flow. One system where chromosomal inversions may be important for eco‐evolutionary dynamics is in freshwater fishes, which often live in heterogenous environments characterized by varying levels of connectivity and varying opportunities for gene flow. In the present study, reduced representation sequencing was used to study possible adaptation in n = 345 walleye (Sander vitreus) from three North American waterbodies: Cedar Bluff Reservoir (Kansas, USA), Lake Manitoba (Manitoba, Canada), and Lake Winnipeg (Manitoba, Canada). Haplotype and outlier‐based tests revealed a putative chromosomal inversion that contained three expressed genes and was nearly fixed in walleye assigned to Lake Winnipeg. These patterns exist despite the potential for high gene flow between these proximate Canadian lakes, suggesting that the inversion may be important for facilitating adaptive divergence between the two lakes despite gene flow. However, a specific adaptive role for the putative inversion could not be tested with the present data. Our study illuminates the importance of genomic architecture consistent with local adaptation in freshwater fishes. Furthermore, our results provide additional evidence that inversions may facilitate local adaptation in many organisms that inhabit connected but heterogenous environments.
A multi‐year dormancy strategy in a cabbage beetle population in southeastern China
Authors: Tang Jian‐Jun , Liu Xing‐Ping , He Hai‐Min , Huang Li‐Li , Wu Shao‐Hui , Xue Fang‐Sen 
Published: May 2022

AbstractThe life cycle of the cabbage beetle Colaphellus bowringi in southeastern China is complex due to four options for adult development: summer diapause, winter diapause, prolonged diapsuse, and nondiapause. However, detailed information on the multi‐year emergence patterns of diapausing individuals in this beetle has not been documented. In this study, we monitored the adult emergence patterns of diapausing individuals and estimated the influence of the diapause‐inducing temperature and photoperiod on the incidence of prolonged diapause under seminatural conditions for several years. The duration of diapause for adults collected from the vegetable fields in different years varied from several months to 5 years. Approximately 25.9%–29.2% of individuals showed prolonged diapause (emergence more than 1 year after entering diapause) over the 5 years of observation. Furthermore, regardless of insect age, the emergence of diapausing adults from the soil always occurred between mid‐February and March in spring and between late August and mid‐October in autumn, when the host plants were available. The influence of diapause‐inducing temperatures (22, 25, and 28°C) combined with different photoperiods (L:D 12:12 h and L:D 14:10 h) on diapause duration was tested under seminatural conditions. Pairwise comparisons of diapause duration performed by the log‐rank test revealed that the low temperature of 22°C combined with the long photoperiod of L:D 14:10 h induced the longest diapause duration, whereas the low temperature of 22°C combined with the short photoperiod of L:D 12:12 h induced the highest proportion of prolonged diapause. This study indicates that C. bowringi adopts a multi‐year dormancy strategy to survive local environmental conditions and unpredictable risks.
High genetic differentiation of Indo‐Pacific humpback dolphins (Sousa chinensis) along the Asian Coast of the Pacific Ocean
Authors: Dai Yufei , Sakornwimon Watchara , Chantra Rachawadee , Zhao Liyuan , Wu Fuxing , Aierken Reyilamu , Kittiwattanawong Kongkiat , Wang Xianyan 
Published: May 2022

AbstractThe Indo‐Pacific humpback dolphin (Sousa chinensis) is a vulnerable marine mammal species that inhabits shallow, coastal waters from Southeast China, southward throughout Southeast Asia, and westward around the Bay of Bengal to eastern India. Polymorphic microsatellites are useful for elucidating ecological and population genetics‐related questions. Here, 18 new polymorphic microsatellites were developed from S. chinensis genomic DNA by Illumina MiSeq sequencing. Population genetic analyses were conducted on 42 S. chinensis individuals from three geographic locations, including the Xiamen Bay of China, the Western Gulf of Thailand, and Andaman Sea. Our microsatellite data revealed a strong and significant population structure among the three sampling regions (overall FST = 0.371, p = .001). Pairwise mutual information index also demonstrated high levels of genetic differentiation between different region pairs (values range from 0.272 to 0.339, p < .001). Moreover, Structure analysis inferred three genetic clusters, with the high assignment probabilities of 95.92%, 99.47%, and 99.68%, respectively. Principal coordinate analysis plots of individuals divided entire genotypes into three clusters, indicating high level of genetic differentiation. Our results indicated the strong genetic structure in S. chinensis populations is a result of geographic distances. Other factors such as environmental variables, anthropogenic interference, and social behavior may also have contributed to population differentiation.
Localizing wild chimpanzees with passive acoustics
Authors: Crunchant Anne‐Sophie , Isaacs Jason T. , Piel Alex K. 
Published: May 2022

Abstract

Localizing wildlife contributes in multiple ways to species conservation. Data on animal locations can reveal elements of social behavior, habitat use, population dynamics, and be useful in calculating population density. Acoustic localization systems (ALS) are a non‐invasive method widely used in the marine sciences but not well established and rarely employed for terrestrial species.

We deployed an acoustic array in a mountainous environment with heterogeneous vegetation, comprised of four custom‐built GPS synchronized acoustic sensors at about 500 m intervals in Issa Valley, western Tanzania, covering an area of nearly 2 km2. Our goal was to assess the precision and error of the estimated locations by conducting playback tests, but also by comparing the estimated locations of wild chimpanzee calls with their true locations obtained in parallel during follows of individual chimpanzees. We assessed the factors influencing localization error, such as wind speed and temperature, which fluctuate during the day and are known to affect sound transmission.

We localized 282 playback sounds and found that the mean localization error was 27 ± 21.8 m. Localization was less prone to error and more precise during early mornings (6:30 h) compared to other periods. We further localized 22 wild chimpanzee loud calls within 52 m of the location of a researcher closely following the calling individuals.

We demonstrate that acoustic localization is a powerful tool for chimpanzee monitoring, with multiple behavioral and conservation applications. Its applicability in studying social dynamics and revealing density estimation among many others, especially but not exclusively for loud calling species, provides an efficient way of monitoring populations and informing conservation plans to mediate species loss.
New challenges in the study of the evolution of wild animals and their gut microbiome
Authors: Zhu Lifeng 
Published: May 2022

AbstractIn this viewpoint, by reviewing the recent findings on wild animals and their gut microbiomes, we found some potential new insights and challenges in the study of the evolution of wild animals and their gut microbiome. We suggested that wild animal gut microbiomes may come from microbiomes in the animals' living habitats along with animals' special behavior, and that the study of long‐term changes in gut microbiomes should consider both habitat and special behaviors. Also, host behavior would facilitate the gut microbiome transmission between individuals. We suggested that research should integrate the evolutionary history and physiological systems of wild animals to understand the evolution of animals and their gut microbiomes. Finally, we proposed the Noncultured‐Cultured‐Fermentation‐Model Animal pipeline to determine the function (diet digestion, physiology, and behavior) of these target strains in the wild animal gut.
A multifaceted ecological assessment reveals the invasion of the freshwater red macroalga Montagnia macrospora (Batrachospermales, Rhodophyta) in Taiwan
Authors: Fontana Silvia , Yeh Lan‐Wei , Zhan Shing Hei , Liu Shao‐Lun 
Published: May 2022

AbstractInvasive freshwater macroalgae are rarely described. Montagnia macrospora is a freshwater red alga introduced from South America to East Asia via the global aquarium trade. The earliest occurrence record of this alga in Taiwan is dated 2005. To determine whether M. macrospora has become invasive in Taiwan and to understand the traits that facilitated its invasion, we took a multifaceted approach that combines examination of ecological background and population genetic analysis. Our island‐wide survey showed that M. macrospora is widespread in the field across Taiwan, where the climate greatly differs from that of South America, and can self‐sustain for nearly a decade. Our population genetic analysis revealed a lack of genetic diversity of M. macrospora in Taiwan, consistent with the hypothesis that the alga expanded through asexual reproduction. Moreover, during our long‐term ecological assessments and field surveys, we observed that M. macrospora is an ecological generalist that can survive in a wide range of temperature, pH, illumination, and nutrient enrichment. Taken together, our data suggest that M. macrospora has successfully invaded the freshwater ecosystems of Taiwan, likely due to its ability to disperse asexually and to grow under broad environmental conditions. We hope that our study brings attention to invasive freshwater algae, which have been overlooked in conservation planning and management.
Multistate modeling of Florida scrub‐jay adult survival and breeding transitions
Authors: Breininger David R. , Carter Geoffrey M. , Legare Stephanie A. , Payne William V. , Stolen Eric D. , Breininger Daniel J. , Lyon James E. 
Published: May 2022

AbstractAdult nonbreeders are important for the stability and conservation of many species despite that their functional roles are often undervalued. Nonbreeders can buffer breeding population sizes and help their kin raise new generations of offspring, but in high numbers can compete and have negative effects. Long‐term studies are useful for elucidating relationships among nonbreeder population parameters, such as density, survival, and transitions to breeding status. Florida scrub‐jays are cooperative breeders where young delay breeding often for many years and are at risk of extinction across most of their range. Our objectives were to estimate how population covariates (pair density and mean family size) influenced Florida scrub‐jay adult nonbreeder survival and breeding transitions using long‐term data of uniquely marked birds and multistate capture–recapture models. The evolution and maintenance of Florida scrub‐jay delayed breeding has been attributed to living in crowded and sharply delineated habitat at Archbold Biological Station, the site of longest long‐term study. Contrastingly, most habitat we studied had a dynamic mixture of habitat quality with mean family sizes and pair densities much lower than the stable, optimal habitat at Archbold Biological Station. Despite having densities below carrying capacity, Florida scrub‐jays still delayed breeding. We found that greater mean family size was associated with greater breeder survival, possibly because nonbreeders contributed to predator detection and territory defense. Nonbreeder‐to‐breeder transitions increased with increased annual breeder mortality rates but were influenced little by population densities. Most Florida scrub‐jays became breeders by replacing dead breeders within occupied territories, and many male and female nonbreeders inherited their territories upon the death of their parents. Nonbreeders buffered changes in the breeding population supporting greater recognition of nonbreeder population roles within field and modeling studies.