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Genomic insights into the demographic history and local adaptation of wild boars across Eurasia.

Wild boars exhibit genetic and phenotypic diversity shaped by migrations and local adaptations. Their expansion across Eurasia, especially in Central Asia, remains underexplored. Here, we present newly sequenced whole-genome data of 47 wild boars from Eastern Asia, Central Asia, and Europe, combined with 49 existing genomes, creating a comprehensive dataset of 96 individuals. Our analyses show that Asian wild boars and Southeast Asian Suids split ∼3.6 million years ago (mya), with Central Asian and Southern Chinese ancestors diverging ∼1.8 mya. The split between Central Asian and European-Near East ancestors occurred ∼0.9 mya, followed by a European-Near East divergence ∼0.6 mya. We identify signatures of local adaptation in Central Asian populations, including two positively selected variants in LPIN1, associated with lipid metabolism, and a missense mutation in ALPK2, linked to meat traits. These findings provide insights into wild boar dispersal and adaptation and shed light on domestic pig breeding.

Animals

Metagenomic insights into the global wild boar faecal microbiome reveal novel taxa and carbohydrate degraders distinguishing wild and domesticated Sus.

BACKGROUND: The inclusion of fibre in domestic pig diets is favourable from a digestive health, environmental, and socio-economic perspective. Unlike the highly optimized formulated diets of domestic pigs, wild boars feed opportunistically, consuming a broad range of foods that consist predominantly of plant materials. Consequently, the intestinal microbiota of wild boars is thought to be adapted to a versatile, fibre-rich diet and may represent a valuable source of probiotics for enhancing fibre degradation. However, comprehensive studies characterizing the wild boar gut microbiome, particularly its community structure and carbohydrate utilization potential, and comparison to that of domestic pigs are still lacking. RESULTS: We collected 89 faecal samples from wild boars across four countries and analysed them primarily using metagenomic sequencing. De novo assembly yielded 3,288 high- and medium-quality metagenome-assembled genomes (MAGs) representing 968 distinct species, of which 538 were previously unknown. Incorporating these MAGs enabled robust microbiome comparisons with 125 previously published samples largely from domestic pigs, which revealed significant structural and functional differences. These differences resolved into two community types, determined not by host species but by diet and lifestyle: C1 comprising 81% of samples from free-ranging, foraging wild boars and C2 consisting of 93% of samples from captive, fed domestic pigs. The lower alpha-diversity observed in C1 likely reflected the impact of highly fluctuating dietary resources and environmental conditions, resulting in dominance of fewer resilient or adaptable taxa. Nevertheless, both community types maintained substantial carbohydrate utilization potential: while C2 exhibited a higher relative abundance of CAZymesub genes associated with a broader range of carbohydrate substrate (CHO) classes, C1 was enriched in individual species that were generally richer in CAZymesub genes and CHO classes. To leverage this potential, we curated a catalogue of carbohydrate degraders from both community types and identified 47 highly versatile species, with several novel species amongst them. CONCLUSIONS: This study uncovered the previously untapped microbial diversity in the wild boar faecal microbiome and demonstrated that the faecal microbiome of Sus is primarily shaped by diet and lifestyle. The two community types identified, which differed both structurally and functionally, represent alternative states of microbiome homeostasis in wild versus domesticated Sus populations. The curated catalogue of carbohydrate degraders provides a valuable resource to guide tailored probiotic supplementation during dietary transitions to novel fibrous feedstocks. Video Abstract.

Animals

Genetic history and adaptation of Eurasian wild boars inform livestock breeding.

Historical expansions of wild boars (Sus scrofa) across Eurasia have shaped phenotypic variation, genetic diversity, and local adaptation of their populations. The study by Wang et al.1 investigates the demographic history and genetic adaptation of Eurasian wild boars based on 96 whole-genome sequences, informing a critical role of Central Asian populations in their expansions and identifying key genes and variants associated with their local adaptation. Also, the adaptive variants are potentially useful for domestic pig breeding in future.

Animals

Prevalence of Erysipelothrix rhusiopathiae in tonsils of domestic pigs and wild boars in Sweden.

Erysipelothrix rhusiopathiae (ER) causes erysipelas in multiple animal species and may persist in the environment or be carried asymptomatically. It is estimated that 30-50% of apparently healthy or convalescent pigs harbour ER in their tonsils and other lymphoid tissues. This study aimed to determine the prevalence of ER in the tonsils of healthy Swedish fattening pigs and wild boars. Tonsils were collected from 200 fattening pigs at slaughter from ten abattoirs across Sweden in 2017, with one pig per herd sampled. Wild boars (n = 180) were sampled during hunting, primarily in Östergötland County, in 2018. Cultures were performed using selective media and isolates were confirmed as ER by MALDI-TOF MS. ER was recovered from 6/200 pig tonsils (3.0%), all originating from three abattoirs in southern Sweden. ER was isolated from 76/167 (45.5%) of wild boar tonsils. Whole-genome sequencing revealed a high genetic diversity among the isolates with no dominant clones. Overall, these results indicate that Swedish pig husbandry, characterized by indoor rearing of fattening pigs, age-segregated rearing, sow vaccination, enhanced biosecurity, and restricted straw access largely prevents tonsillar colonization by ER aligning with the low occurrence of clinically diagnosed erysipelas in such herds. For wild boars, the high isolation rate suggests that wild boar could act as a reservoir and potential source of infection for domestic pigs. The potential zoonotic risk should also be considered.

Animals

Appearance of the wild boar brain.

On eight brains of wild boars, the appearance of the exterior and interior brain structures was studied. The brain was preserved in the skull by formalin solution injection into the carotid artery. After having been set up for 4 months in a 5% formalin solution, the brain was removed in conjunction with the coverings. Subsequently, the brain was preserved in 5% formalin for 2 months. By careful dissection and elaboration of special preparations, the appearance of the grey and white substance of the brain, of the basal ganglia and of certain portions of the limbic system was studied. On the frontal and horizontal sections of the brain the appearance of the brain matter, of the basal ganglia and of the brain ventricles was studied. The exterior and interior morphology of the cerebellum was investigated on special preparations.

Animals

Trichinella spiralis in wild boars (Sus scrofa).

During the period 1.7. 1972--31.6. 1977 muscle samples from 137 wild boars were examined for Trichinella spiralis. Larvae of T. spiralis were demonstrated in 4 animals. The major part (83) of the wild boars examined, including the 4 positive ones, originated from one particular game park. The rate of infection with T. spiralis in the game park concerned was 4.8%. Calculated on the basis of the total of animals examined, the rate of infection was 2.9%.

Animal Population Groups

Mitsuokella apri sp. nov., a novel species of the family Selenomonadaceae isolated from faeces of a wild boar (Sus scrofa).

A Gram-stain-negative, rod-shaped, obligately anaerobic strain, designated WILCCON 0060T, was isolated from the faecal sample of a wild boar (Sus scrofa) collected on the Island of Ubin (Pulau Ubin), Singapore (1.4126°N, 103.9577°E). Phylogenetic and comparative analyses based on 16S rRNA gene and whole-genome sequences indicated that strain WILCCON 0060T belongs to the genus Mitsuokella, within the family Selenomonadaceae. Notably, the average nucleotide identity and digital DNA-DNA hybridization values between strain WILCCON 0060T and the type strains of two existing Mitsuokella species, Mitsuokella multacida DSM 20544T and Mitsuokella jalaludinii DSM 13811T, only ranged from 84.6-84.9% and 24.1-24.7%, respectively, both well below the recommended species delineation thresholds of 95.0% and 70.0%. Supported by additional physiological, biochemical and genomic differences, these findings collectively indicate that strain WILCCON 0060T represents a novel species within the genus Mitsuokella. We propose the species name Mitsuokella apri sp. nov., pertaining the isolation of the type strain WILCCON 0060T (= DSM 120052T = LMG 33761T) from a faecal sample of a wild boar.

Animals

[Clinical examination of the blood of wild boars (Sus scrofa L.) naturally infested with parasites following administration of anthelminthics].

With 24 head of wild boars (Sus scrofa L.) of both sexes of the age of one to two years, kept in a game preserve and naturally infected with parasites of the species Mestastrongylus pudendotectus, M. elongatus, Ascarops strongylina, Physocephalus sexalatus, Ascaris suum, Globocephalus urosubulatus, Oesophagostomum dentatum, Trichocephalus suis, Eimeria debliecki, and E. perminuta, three experiments were performed with feeds premedicated with anthelmintics: pyrantel tartrate + diethylcarbamazine tartrate (a dose of 25 + 50 mg kg-1 of live weight), Mebendazole 5 p. c. premix and Mebendazole 50 p. c. premix (doses of 10 mg kg-1 and 40 mg kg-1 of live weight) administered for three consecutive days. According to the results of the helminthological dissections the effectiveness of pyrantel tartrate + diethylcarbamazine tartrate reached from 58.1 to 100 p. c. compared with the different species of nematodes, Mebendazole 5 p.c. premix from 47.8 to 100 p. c., and Mebendazole 50 p. c. premix reached the effectiveness of 85.4 to 100 p.c with the mentioned therapeutic doses. The results obtained from a coprological investigation showed the effectiveness, in the case of pyrantel tartrate + diethylcarbamazine tartrate, of 99.2 and 70.65 p. c. on the sixth and fifteeenth day after application, in the case of Mebendazole 5 p. c. premix 94.4 and 79.41 p. c. on the tenth and twentieth day after application, and in the case of of Mebendazole 50 p. c. premix it amounted to 96.0 and 100 p. c. on the tenth and twentieth day after application. In 22 head of wild boars of the total number of examined animals the minimum, maximum, and average values of the number of erythrocytes, leucocytes, of the hemoglobin content, of the hematocrit, MCV, MCH, MCHC, of the white blood count, of the protein total, of the fractions of albumin, alpha-, beta-, and gamma-globulin, of the activity of SGOT and SGPT, and of the metabolism of calcium, phosphorus, and magnesium were determined. The investigation was performed in the shortest possible time after the killing of the animals. In the examined values no marked deviations in 48 hours were found after the application had finished compared with the values determined in non-treated animals.

Animals

[Dynamics and karyotyping of a population of wild boar with clear colored fur].

The population of wild boars living in the wood of Chize contains 25 % of animals having a clear coloured fur. Chromosomal study of these, don't reveal any anomaly of number or structure of their chromosomes. This modification seems be due to a genic mutation and not to an eventual hybridization with domestic pigs.

Animals

Course of antibiotic sensitivities in Escherichia coli and Staphylococcus aureus from animals.

In order to establish the evolution of resistance against the common antibiotics from the beginning of their use up to the present time, the sensitivity of Escherichia coli isolated from the cecum of wild boars was determined. The MIC's of E. coli from these animals in a zoological garden was examined for comparison. The samples from the wild boars were collected in five forests in the Belgian Ardennes. The MIC's obtained (Table 1) are comparable to the mean values given in the early literature concerning strains of human origin (Table 7). E. coli from wild boars in a zoological garden has less sensitivity than from domesticated animals. However, the MIC's of staphylococci from fecal matter of the animals in captivity were not markedly enhanced except for streptomycin (Table 3). It was striking to find that staphylococci were absent in all the fecal samples from the wild boars living in their natural environment. The specific habitat of staphylococci is in man. Wild boars are the ancestors of domestic pigs. The MIC's of E. coli from the latter were determined for evaluation of altered resistance. All isolated strains were fairly resistant to the six substances tested (Table 2). Chloramphenicol was still the most active antibiotic. Staphylococci from some domestic animals (pigs, cattle, chicken) were sensitive to all the substances tested except the aminoglucosides and ampicillin (Table 3). E. coli from pigs bred on large farms in Spain (Toledo and Badajoz Provinces) were also highly resistant (Table 4) to five compounds and sensitive to cephalotin, polymyxin B, furoxone, and Carbadox. The samples obtained from family farms also contained unsensitive strains (Avila Province). These animals had never been given antibacterial feed additives as was confirmed by examination of feed samples (Table 6). Staphylococci when present in the Spanish samples can be considered to be antibiotic sensitive with the same exceptions as in the Belgian samples and also unsensitive to chloramphenicol. The use of antibiotics in animal feed was very common in Spain as was shown by feed analysis (Table 6). The risk of transferable resistance by plasmids between animal species must not be very high. In some cases where resistance formation could be mediated by R-factors, sensitive E. coli or staphylococci were isolated. Resistance was not generalized among animals from the same farm or in adjacent sties. No explanation for this discrepancy was found.

Animal Feed

[On the heavy-metal-contamination of vension (author's transl)].

A survey is given on the heavy-metal-contamination of venison (total number of samples: 224) with special consideration of geographical and ecological aspects. In the liver of rabbits, and average of 0.55 ppm Hg and 1.10 ppm Pb was found, which was more than ten resp. three times the amount found in the livers of roe, red deer and wild boars. The mean Cd-content of wild-boars'-livers was 0.06 ppm, a value double as high as in rabbits, roes and red deer. The regional or ecological differences were of minor importance. Whereas the Hg- and Pb-values did not show any remarkable dependency on the animals' age, the Cd-values were higher in older animals. The Hg-values of the hair were in the range of 0.1 ppm.

Animals