Multiple ancestries and shared gene flow among modern livestock guarding dogs.

Livestock guarding dogs (LGDs) have been used to protect livestock for millennia. While previous works suggested a single origin of modern LGDs, the degree and source of shared ancestry have not been tested. To address this, we generated genome-wide SNP data from 304 LGDs and combined it with public genomic data from 2,183 modern and 22 ancient dogs. Our findings reveal shared ancestry and extensive gene flow among modern LGD breeds which we attribute to historical livestock migrations. Additionally, admixture between LGDs and free-ranging dogs argues against reproductive isolation as a core mechanism for maintaining the specialized skills of LGDs. Finally, we identify two lineages within modern LGDs and uncover multiple ancestries tracing back to distinct Eurasian ancient dogs, concordant with the absence of a single ancestor. Overall, our work explores the complex evolutionary history of LGDs, offering valuable insights into how human and livestock co-migrations shaped this functional group.

Demographic and zoological drivers of infectome diversity in companion cats with ascites.

Cats (Felidae) have become an integral part of many households. However, our understanding of the full spectrum of pathogens affecting cats (referred to as the infectome) is limited, mainly due to the inadequacy of commonly used diagnostic tools in capturing the complete diversity of potential pathogens and the prevalence of pathogen co-infections. In this study, we employed a meta-transcriptomic approach to simultaneously characterize the infectome contributing to different disease syndromes and to investigate spatial, demographic, and ecological factors influencing pathogen diversity and community composition in a cohort of 27 hospitalized cats and seven stray cats. We identified 15 species of pathogens, with Candidatus Rickettsia tarasevichiae and Tritrichomonas foetus representing potential spillover risks. Importantly, although most cases of ascites hyperplasia were explained by coinfection with multiple pathogens, we identified the potential novel clinical outcomes of M. aubagnense infection among cats. We demonstrated that the increase in infectome diversity can be explained by a variety of predictors including age growth, temperature increase, and a higher proportion of females, with age growth presenting the strongest effect. Fine-scale analysis indicated that a higher diversity of infectomes were harbored in young cats rather than adult ones. Our results demonstrated that most feline diseases are better explained by the presence of virus-bacteria or virus-virus coinfection. This study serves as a timely endorsement for clinical diagnosis by vets to consider the cause of a disease based on a panel of cryptical co-infecting pathogens rather than on individual infectious agents. IMPORTANCE: Frequent studies reported the risks of cats as an intermediate host of zoonotic pathogens (e.g., SARS-CoV-2). Cats have a physically close interaction with their owners through activities like petting, kissing, and being licked on the cheek and hands. However, there are still limited studies that systematically investigate the infectome structure of cats. In this study, we employed a meta-transcriptomics approach to characterize 15 species of pathogens in cats, with Candidatus Rickettsia tarasevichiae first characterizing infection in diseased cats. Most feline diseases were better explained by the presence of virus-bacteria or virus-virus coinfection. The increase in infectome diversity could be influenced by a variety of predictors including age growth, temperature increase, and a higher proportion of females. A higher diversity of pathogens was harbored in young cats rather than adults. Importantly, we showed the value of linking the modern influx of meta-transcriptomics with comparative ecology and demography and of utilizing it to affirm that ecological and demographic variations impact the total infectome.

Cambrian euarthropod Urokodia aequalis sheds light on the origin of Artiopoda body plan.

The origin and evolution of trilobated body plan of the Artiopoda, a group of epibenthic euarthropods from Cambrian Lagerstätten, remain unclear. Here we examine old and new specimens of Urokodia aequalis, one of euarthropods from the Chengjiang biota, revealing new morphological details and revising its taxonomy. Urokodia possesses an elongate body with a five-segmented head, a thorax with 13-15 tergites, and a three-segmented pygidium with well-defined axial region. The ventral morphology includes paired stalked eyes, one fleshy antenna pair, the following homogeneous head and thoracic appendages, each with an annular proximal-element, an articulated stenopodous branch and a lamellar flap, and the pygidial appendages solely consisting of lamellar flaps. Cladistic analyses resolved Urokodia as the basal-most member of the Artiopoda, offering a hypothesis of the initial origin of trilobation in the pygidium. The new data, in conjunction with the presence of the elongated body plan across major lineages of euarthropods, suggest a convergent evolution of this trait.

A life dedicated to research and ideal: Johannes Müller between empirical universality and idealistic vitalism mirrored in lecture notes from 1851.

Until the mid-nineteenth century, "physiology" was a comprehensive theory of life, expounded and shaped by Johannes P. Müller (1801-1858). Biologists and medical doctors still refer to him today. In the summer term of 1851, Müller gave a lecture on the Comparative Anatomy of animals. This lecture was attended and recorded by Ernst Zeller (1830-1902), a future physician and zoologist, and has recently been published together with a German transcript. In this paper, we situate Johannes Müller within the intellectual history of his time. Through his "empirical idealism," we show how he opposed the speculative tendencies of the romantic understanding of nature, the emerging evolutionism, and the growing splits in the natural sciences. Müller focused on recognizing living nature as a whole and realizing ideal "phenomena" through his empirical research. He considered the notion of the soul of the world. Müller's lecture transcript serves as a poignant testament to German scientific culture in the mid-nineteenth century, a few years before the publication of Darwin's Origin of Species. It also provides valuable insights into the self-contained epistemological foundations of morphology.

Catálogo Taxonômico da Fauna do Brasil: setting the baseline knowledge on the animal diversity in Brazil

The limited temporal completeness and taxonomic accuracy of species lists, made available in a traditional manner in scientific publications, has always represented a problem. These lists are invariably limited to a few taxonomic groups and do not represent up-to-date knowledge of all species and classification. In this context, the B Brazilian megadiverse fauna is no exception, and the Catálogo Taxonômico da Fauna do Brasil (CTFB) (h[p://fauna.jbrj.gov.br/), made public in 2015, represents a database on biodiversity anchored on a list of valid and expertly recognized scientific names of animals in Brazil. The CTFB is updated in near real time by a team of more than 800 specialists. By January 1, 2024, the CTFB compiled 133,691 nominal species, with 125,138 that were considered valid. Most of the valid species were arthropods (82.3%, with more than 102,000 species) and chordates (7.69%, with over 11,000 species). These taxa were followed by a cluster composed of Mollusca (3,567 species), Platyhelminthes (2,292 species), Annelida (1,833 species), and Nematoda (1,447 species). All remaining groups had less than 1,000 species reported in Brazil, with Cnidaria (831 species), Porifera (628 species), Rotifera (606 species), and Bryozoa (520 species) representing those with more than 500 species. Analysis of the CTFB database can facilitate and direct efforts towards the discovery of new species in Brazil, but it is also fundamental in providing the best available list of valid nominal species to 6 users, including those in science, health, conservation efforts, and any initiative involving animals. The importance of the CTFB is evidenced by the elevated number of citations in the scientific literature in diverse areas of biology, law, anthropology, education, forensic science, and veterinary science, among others.

Do bats' social vocalizations conform to Zipf's law and the Menzerath-Altmann law?

The study of vocal communication in non-human animals can uncover the roots of human languages. Recent studies of language have focused on two linguistic laws: Zipf's law and the Menzerath-Altmann law. However, whether bats' social vocalizations follow these linguistic laws, especially Menzerath's law, has largely been unexplored. Here, we used Asian particolored bats, Vespertilio sinensis, to examine whether aggressive vocalizations conform to Zipf's and Menzerath's laws. Aggressive vocalizations of V. sinensis adhere to Zipf's law, with the most frequent syllables being the shortest in duration. There was a negative association between the syllable number within a call and the average syllable duration, in agreement with Menzerath's law. A decrease in the proportion of some long syllables and a decrease in the duration of several syllable types in long-duration calls explain the occurrence of this law. Our results indicate that a general compression principle organizes aspects of bat vocal communication systems.

Oviposition experience affects oviposition preference in Drosophila melanogaster.

Learning, memorizing, and recalling of potential ovipositing sites can influence oviposition preference. Classical conditioning experiments have shown that vinegar flies can learn the association of olfactory, gustatory, or visual stimuli with either positive or negative unconditioned stimuli. However, less is known about whether similar associations are formed in an ecologically more relevant context like during oviposition. Our experiments reveal that Drosophila melanogaster females increase their preference for substrates they have already experienced. However, this change of preference requires that the flies not only smelled or touched the substrates but also oviposited on them. We furthermore show that such an experience results in long-term memory lasting for at least 4 days, i.e., a duration that so far was shown only for aversive conditioning. Our study thus reveals a different form of associative learning in D. melanogaster that might be highly relevant for settling novel ecological niches.

Noxious stimulation induces self-protective behavior in bumblebees.

It has been widely stated that insects do not show self-protective behavior toward noxiously-stimulated body parts, but this claim has never been empirically tested. Here, we tested whether an insect species displays a type of self-protective behavior: self-grooming a noxiously-stimulated site. We touched bumblebees (Bombus terrestris) on an antenna with a noxiously heated (65°C) probe and found that, in the first 2 min after this stimulus, bees groomed their touched antenna more than their untouched antenna, and more than bees that were touched with an unheated probe or not touched at all did. Our results present evidence that bumblebees display self-protective behavior. We discuss the potential neural mechanisms of this behavior and the implications for whether insects feel pain.

Impact of climate change on Colombian Pacific coast mangrove bivalves distribution.

The mangrove bivalves, Anadara tuberculosa and Anadara similis, are pivotal for the Colombian Pacific coast mangrove ecosystems and economies. In this study, the current and future potential distribution of these bivalves is modeled considering climate change. The future models (2030 and 2050) were projected considering the new climate scenarios (SSP1, SSP2, and SSP5) proposed by the IPCC in its sixth report. Our findings reveal areas in the Colombian Pacific coast, notably Nariño, Cauca, southern Valle del Cauca, and Chocó, with high environmental suitability for these bivalves. However, the 2050 projections, especially under the pessimistic SSP5 scenario, indicate potential adverse impacts from climate change. By 2030 and 2050, the species might lean more toward a southwesterly distribution in the Colombian Pacific coast. Climate-induced spatiotemporal mismatches could occur between the bivalves and the mangroves in some areas. These insights are crucial for effective conservation and management strategies for these species.

The genome of African manatee Trichechus senegalensis reveals secondary adaptation to the aquatic environment.

Sirenians exhibit unique aquatic adaptations, showcasing both convergent adaptive features shared with cetaceans and unique characteristics such as cold sensitivity and dense bones. Here, we report a chromosome-level genome of the African manatee (Trichechus senegalensis) with high continuity, completeness, and accuracy. We found that genes associated with osteopetrosis have undergone positive selection (CSF1R and LRRK1) or pseudogenized (FAM111A and IGSF23) in the African manatee, potentially contributing to the dense bone formation. The loss of KCNK18 may have increased their sensitivity to cold water temperatures. Moreover, we identified convergent evolutionary signatures in 392 genes among fully aquatic mammals, primarily enriched in skin or skeletal system development and circadian rhythm, which contributed to the transition from terrestrial to fully aquatic lifestyles. The African manatee currently possesses a small effective population size and low genome-wide heterozygosity. Overall, our study provides genetic resources for understanding the evolutionary characteristics and conservation efforts of this species.

Offspring nursing extends mother's longevity in a long-term maternal cared spider.

Females typically outlive males in animals, especially in species that provide long-term maternal care. However, life history theory predicts that investments in reproduction, such as lactation and offspring nursing, often shorten caretakers' longevity. Aiming to interpret this paradox, we selected the lactating jumping spider Toxeus magnus to investigate the effects of reproductive activities on longevity for two sexes. We found that: (1) although "milk" provisioning reduces female's longevity, mothers who cared for offspring (provisioned "milk" and nursing) lived the longest compared to virgins and those did not provide care; (2) copulation increased female's longevity but had no effects on males; and (3) the two sexes have comparable developmental duration, but the female adult's longevity was 2.1 times that of male's. This study suggests that the time requirement for offspring dispersal might act as a key selective force favoring females' adulthood extension, which ultimately generates the longer-lived females in maternal cared species.

The Alpine ibex (Capra ibex) gut microbiome, seasonal dynamics, and potential application in lignocellulose bioconversion.

Aiming to shed light on the biology of wild ruminants, we investigated the gut microbiome seasonal dynamics of the Alpine ibex (Capra ibex) from the Central Italian Alps. Feces were collected in spring, summer, and autumn during non-invasive sampling campaigns. Samples were analyzed by 16S rRNA amplicon sequencing, shotgun metagenomics, as well as targeted and untargeted metabolomics. Our findings revealed season-specific compositional and functional profiles of the ibex gut microbiome that may allow the host to adapt to seasonal changes in available forage, by fine-tuning the holobiont catabolic layout to fully exploit the available food. Besides confirming the importance of the host-associated microbiome in providing the phenotypic plasticity needed to buffer dietary changes, we obtained species-level genome bins and identified minimal gut microbiome community modules of 11-14 interacting strains as a possible microbiome-based solution for the bioconversion of lignocellulose to high-value compounds, such as volatile fatty acids.

A seasonal study on the microbiomes of Diploid vs. Triploid eastern oysters and their denitrification potential.

Oyster reefs are hotspots of denitrification mediated removal of dissolved nitrogen (N), however, information on their denitrifier microbiota is scarce. Furthermore, in oyster aquaculture, triploids are often preferred over diploids, yet again, microbiome differences between oyster ploidies are unknown. To address these knowledge gaps, farmed diploid and triploid oysters were collected over an annual growth cycle and analyzed using shotgun metagenomics and quantitative microbial elemental cycling (QMEC) techniques. Regardless of ploidy, Psychrobacter genus was abundant, with positive correlations found for genes of central metabolism, DNA metabolism, and carbohydrate metabolism. MAGs (metagenome-assembled genomes) yielded multiple Psychrobacter genomes harboring norB, narH, narI, and nirK denitrification genes, indicating their functional relevance within the eastern oysters. QMEC analysis indicated the predominance of carbon (C) and nitrogen (N) cycling genes, with no discernable patterns between ploidies. Among the N-cycling genes, the nosZII clade was overrepresented, suggesting its role in the eastern oyster's N removal processes.

The changes in zoological publication rates and focal subdisciplines between 1960 and 2022.

Since ancient times, zoology, as the branch of biology dealing with animals, has been a cornerstone of natural science and has developed substantially over the last century. We conducted a bibliometric analysis using structural topic modeling (STM) to determine changes in the representation of principal zoological subdisciplines in the literature between 1960 and 2022. We collated a corpus of 217 414 articles from 88 top-ranked zoology journals and identified three main fields: (i) ecology, (ii) evolution, and (iii) applied research. Within these, we identified 10 major subdisciplines. The number of studies published per year grew from 118 in 1960 to 6635 in 2022. Macroscale-related subdisciplines increased while classical and traditional subdisciplines decreased. Mammals (34.4%) and insects (18.1%) were the dominant taxa covered, followed by birds (15.2%) and fish (8.0%). Research on mammals, insects, and fish involved a broad range of subdisciplines, whereas studies of birds focused on ecological subdisciplines. Most publications were from the United States, followed by the United Kingdom, Germany, Canada, Australia, China, and Japan, with two developing countries, China and South Africa among the top 15 countries. There were different subdiscipline biases between countries, and the gross domestic product of each country correlated positively with its publication output (R2 = 0.681). We discuss our findings in the context of advances in technological innovations and computing power, as well as the emergence of ecology as a formal sister discipline, driven by changing environmental pressures and societal values. We caution that valuable publications from traditional zoological fields must not be completely supplanted by more contemporary topics and increasingly sophisticated analyses.

Oxytocin homogenizes horse group organization.

The oxytocinergic system has been suggested to make up an important part of the endocrine basis of group cohesion. However, controlled studies in open-group settings have not been performed. We here investigated the impact of exogenous intranasal oxytocin on the group-level social organization of 5 groups of horses (N = 58; 12 mares and 46 geldings) through GPS tracking and social network analysis. We find oxytocin flattened social differentiation across levels. Most strikingly, oxytocin did not simply reinforce existing bonds but selectively shifted social preferences toward homogenization - individuals and pairs who otherwise rarely associated spent more time close together, while individuals and pairs with the highest baseline association instead spent more time further apart. This resulted in a more distributed structure and lower clustering coefficient at the network level. These effects reinforce and extend oxytocin's role in collective behavior, social organization, and the evolution of group-based sociality across taxa.

MAPK/ERK-PK(Ser11) pathway regulates divergent thermal metabolism of two congeneric oyster species.

Pyruvate kinase (PK), as a key rate-limiting enzyme in glycolysis, has been widely used to assess the stress tolerance and sensitivity of organisms. However, its phosphorylation regulatory mechanisms mainly focused on human cancer research, with no reports in marine organisms. In this study, we firstly reported a conserved PK Ser11 phosphorylation site in mollusks, which enhanced enzyme activity by promoting substrate binding, thereby regulating divergent thermal metabolism of two allopatric congeneric oyster species with differential habitat temperature. It was phosphorylated by ERK kinase, and regulated by the classical MAPK pathway. The MAPK/ERK-PK signaling cascade responded to increased environmental temperature and exhibited stronger activation pattern in the relatively thermotolerant species (Crassostrea angulata), indicating its involvement in shaping temperature adaptation. These findings highlight the presence of complex and unique phosphorylation-mediated signaling transduction mechanisms in marine organisms, and provide new insights into the evolution and function of the crosstalk between classical pathways.

Roosting ecology drives the evolution of diverse bat landing maneuvers.

Bats and birds are the only living vertebrates capable of powered flight. However, bats differ from birds in that their flight required the evolution of ascending landing maneuvers that achieve their iconic head-under-heels roosting posture. We examined the evolution of landing flight in bats and tested its association with the physical properties of roosts. Bats performed four maneuvers, each correlated with patterns of peak impact force, impulse, and roosting ecology, a critical aspect of bat biology. Our findings indicate that the common ancestor of bats performed simple, four-limbed landings, similar to extant gliding mammals, and that rotationally complex landings enhancing control over impact forces coevolved multiple times with shifts to stiff, horizontal roosts. These results suggest landing biomechanics is central to bat biology: it was critical to flight adaptation in the past, mediates roost use in the present, and may affect bats' ability to respond to deforestation in the future.