Geographical contrasts of Y-chromosomal haplogroups from wild and domestic goats reveal ancient migrations and recent introgressions.

By their paternal transmission, Y-chromosomal haplotypes are sensitive markers of population history and male-mediated introgression. Previous studies identified biallelic single-nucleotide variants in the SRY, ZFY and DDX3Y genes, which in domestic goats identified four major Y-chromosomal haplotypes, Y1A, Y1B, Y2A and Y2B, with a marked geographical partitioning. Here, we extracted goat Y-chromosomal variants from whole-genome sequences of 386 domestic goats (75 breeds) and seven wild goat species, which were generated by the VarGoats goat genome project. Phylogenetic analyses indicated domestic haplogroups corresponding to Y1B, Y2A and Y2B, respectively, whereas Y1A is split into Y1AA and Y1AB. All five haplogroups were detected in 26 ancient DNA samples from southeast Europe or Asia. Haplotypes from present-day bezoars are not shared with domestic goats and are attached to deep nodes of the trees and networks. Haplogroup distributions for 186 domestic breeds indicate ancient paternal population bottlenecks and expansions during migrations into northern Europe, eastern and southern Asia, and Africa south of the Sahara. In addition, sharing of haplogroups indicates male-mediated introgressions, most notably an early gene flow from Asian goats into Madagascar and the crossbreeding that in the 19th century resulted in the popular Boer and Anglo-Nubian breeds. More recent introgressions are those from European goats into the native Korean goat population and from Boer goat into Uganda, Kenya, Tanzania, Malawi and Zimbabwe. This study illustrates the power of the Y-chromosomal variants for reconstructing the history of domestic species with a wide geographical range.

Search for Selection Signatures Related to Trypanosomosis Tolerance in African Goats.

Livestock is heavily affected by trypanosomosis in Africa. Through strong selective pressure, several African indigenous breeds of cattle and small ruminants have acquired varying degrees of tolerance against this disease. In this study, we combined LFMM and PCAdapt for analyzing two datasets of goats from West-Central Africa and East Africa, respectively, both comprising breeds with different assumed levels of trypanotolerance. The objectives were (i) to identify molecular signatures of selection related to trypanotolerance; and (ii) to guide an optimal sampling for subsequent studies. From 33 identified signatures, 18 had been detected previously in the literature as being mainly associated with climatic adaptations. The most plausible signatures of trypanotolerance indicate the genes DIS3L2, COPS7B, PD5A, UBE2K, and UBR1. The last gene is of particular interest since previous literature has already identified E3-ubiquitin ligases as playing a decisive role in the immune response. For following-up on these findings, the West-Central African area appears particularly relevant because of (i) a clear parasitic load gradient related to a humidity gradient, and (ii) still restricted admixture levels between goat breeds. This study illustrates the importance of protecting local breeds, which have retained unique allelic combinations conferring their remarkable adaptations.

Prevalence of Toxoplasma gondii infection among animals in Algeria: A systematic review and meta-analysis.

Toxoplasma gondii is a zoonotic parasite that can infect all warm-blooded animals. It is responsible for considerable economic losses in some regions and farming systems. This review aims to synthesize current findings on the prevalence and risk factors associated with T. gondii infection in animal species in Algeria. It was performed according to the recommendations of the PRISMA guideline. A total of 14 papers from 1955 to 2020 were eligible to be included in this systematic review and meta-analysis study including a number of 10,187 animals of which 2594 were positive cases (25.46 %) (24.62-26.31 %, 95 %CI). Prevalence of Toxoplasma-infection was 20.04 % in cattle, 22.57 % in sheep, 33.61 % in goats, 28.17 % in horses, 30 % in donkeys, 70.31 % in stray cats, 14.57 % in local rabbits, 30.47 % in dogs and 50.70 % in poultry farms. Adult animals and females were most infected. The highest prevalences were reported in stray cats and poultry. Rabbits were the least infected. This analysis showed a trend of increasing infection since 2015 (R² = 0.129, p > 0.05) which requires further studies to provide better prevention strategies.

First report on Cryptosporidium parvum, Escherichia coli K99, rotavirus and coronavirus in neonatal lambs from north-center region, Algeria.

The etiology of neonatal diarrhea is multifactorial and remains one of the greatest health problems in sheep livestock farming. Faecal samples from 559 neonatal lambs aged less than 30 days from 30 sheepfolds located in the north-center region of Algeria were screened with pathogen-specific antigen ELISA for Cryptosporidium parvum, Escherichia coli K99, rotavirus, and coronavirus. Of the 559 lambs, 312 (58.81 %), 155 (27.72 %), 72 (12.88 %) and 20 (3.57 %) were positives for C. parvum, E. coli K99, rotavirus and coronavirus antigens, respectively. The prevalence of C. parvum was the highest (p < 0.0001). C. parvum, E. coli K99, rotavirus and coronavirus were observed in 23 (76.66 %), 17 (56.66 %), 9 (30 %) and 3 (10 %) sheepfolds, respectively. Compared to age, the prevalence of C. parvum was highest during the second and third week of age (p < 0.001). In contrast, other pathogens were found to be more frequent in lambs aged ≤7 days (p < 0.001). The number of lambs with diarrhea was 280 (50.09 %) of which 280 (100 %), 127 (45.35 %), 52 (18.57 %) and 10 (3.57 %) were found to be infected with C. parvum, E. coli K99, rotavirus and coronavirus, respectively (p < 0.0001). In various combinations, mixed infections were detected only with C. parvum. This is the first report of C. parvum, E. coli K99, rotavirus, and coronavirus in ≤30-days old neonatal lambs in Algeria. Special attention should be given to the first colostrum feeding, hygiene of the farm, prevention and control measures for a better prevention of neonatal diarrhea in lambs.

Molecular detection of the B1 gene of Toxoplasma gondii in blood samples of female sheep and goats in Tebessa, northeastern Algeria.

Toxoplasmosis, caused by Toxoplasma gondii, is a parasitic zoonosis of crucial medical and veterinary importance. It is mainly diagnosed by serological methods which are limited by insufficient sensitivity. Therefore, it is necessary to rely on direct detection of the parasite. The present study was aimed for direct detection of the parasite DNA in the blood samples of sheep and goats using PCR targeting the B1 gene. The study was carried out in 20 small ruminant farms between 2016 and 2018 in Tebessa region, part of north-eastern Algeria, and concerned 227 and 91 aborted female sheep and goats respectively. DNA of T. gondii was detected in 35.24 % and 18.68 % blood samples of sheep and goats respectively (p < 0.001). Molecular prevalence was higher in 13-24 month old female sheep (93.33 %) than 1-12 month old female sheep (14.37 %) (p < 0.0001). While, in goats no significant difference was observed in relation to age. Female sheep that aborted between 1-60 days of gestation were found to be more infected (46.41 %) compared to females that aborted between 61-120 days of gestation (12.16 %) (p < 0.001). Whereas, female goats that aborted between 61-120 days of gestation were found to be more infested (30.77 %) compared to females that aborted between 1-60 days of gestation (16.67 %) (p < 0.001). This study revealed that small ruminants are highly infected with T. gondii, which represents a major risk for the consumer in Tebessa. Further studies are needed to improve our knowledge of the different genotypes of T. gondii infecting small ruminant population.

Molecular detection of avian spirochete Borrelia anserina in Argas persicus ticks in Algeria.

Argasid ticks are one of the most important poultry ectoparasites. They affect poultry directly through blood meal and indirectly through the transmission of pathogens essentially Borrelia anserina, agent of avian borreliosis, one of the most widespread poultry diseases in the world, and is of great economic importance. This study was conducted between April 2014 and March 2015 in the region of Ksar El Boukhari, Algeria, in order to investigate the presence of soft ticks in laying hen farms and to detect B. anserina bacteria using molecular tools. DNA was extracted and screened for the presence of Borrelia spp. DNA by real-time polymerase chain reaction (qPCR). Borrelia spp. screening was performed using primers and probe targeting the 16S rRNA gene. A total of 83 traditional laying hen farms were visited, of which 39 (46.98 %) were found infested with A. persicus tick. Molecular analysis revealed that 2/34 (5.88 %) of ticks were infected by B. anserina. None of the ticks tested were positive for Rickettsia spp., and Coxiella burnetii. These results constitute the first report in Algeria of A. persicus harboring B. anserina.

Serological and histopathological investigation of brucellosis in cattle in Medea region, Northern Algeria.

AIM: This study was performed to determine the prevalence of bovine brucellosis in Medea region, Northern Algeria. MATERIALS AND METHODS: The study was carried out on 495 non-vaccinated cattle, of which 280 (30 males and 250 females) belonged to 57 cattle farms and 215 cows were sampled at abattoirs of Medea. Sera collected from the cattle were tested using the Rose Bengal test and confirmed by histopathological analysis. RESULTS: Serological examination revealed that 7/57 farms (12.28%) were infected, of which 7/280 (2.5%) cattle were seropositive. The prevalence in females and males was 2.4% (6/250) and 3.33% (1/30), respectively. No significant difference has been observed between females and males. Older animals (≥8 years) were infected more. The prevalence of infection was 9.1%. Seroprevalence of Brucella infection in cows that have already had abortion was higher compared with non-aborted cows (4.34% and 2.20%, respectively). In abattoirs, a total of 25 (11.62%) seropositive cows were detected, and the histopathological analysis was positive in all these cows. CONCLUSION: The study indicates that brucellosis indeed exists in cattle in Medea and shows that the meat of slaughtered cattle tested positive for brucellosis may constitute a real risk of transmission to both butchery personnel and consumers, which requires that the meat of infected animals should be analyzed before being marketed.

Genetic homogeneity of North-African goats.

North Africa represents a rich and early reservoir of goat genetic diversity, from which the main African breeds have been derived. In this study, the genetic diversity of four indigenous Algerian goat breeds (i.e., Arabia, Makatia, M'Zabite and Kabyle, with n = 12 for each breed) has been investigated for the first time by genome-wide SNP genotyping; moreover in a broader context, genetic structuration of Algerian and Moroccan goats was explored (via FST, MDS, STRUCTURE, FineSTRUCTURE, BAPS, sPCA and DAPC analyses). At national level, the study revealed high level of genetic diversity and a significant phenomenon of admixture affecting all the Algerian breeds. At broader scale, clear global genetic homogeneity appeared considering both Algerian and Moroccan stocks. Indeed, genetic structuration was almost nonexistent among Arabia (from Algeria), Draa, Black and Nord (from Morocco), while the ancestral Kabyle and M'Zabite breeds, reared by Berber peoples, showed genetic distinctness. The study highlighted the threat to the Maghrebin stock, probably induced by unsupervised cross-breeding practices which have intensified in recent centuries. Moreover, it underlined the necessity to deepen our understanding of the genetic resources represented by the resilient North-African goat stock.

Assessing admixture by multivariate analyses of phenotypic differentiation in the Algerian goat livestock.

In Algeria, goat research has been largely neglected, in spite of the economic importance of this domestic species for rural livelihoods. Goat farming is traditional and cross-breeding practices are current. The phenotypic variability of the four main native breeds (Arabia, Makatia, M'zabite and Kabyle), and of two exotic breeds (Alpine and Saanen), was investigated for the first time, using multivariate discriminant analysis. A total of 892 females were sampled in a large area, including the cradle of the native breeds, and phenotyped with 23 quantitative measures and 10 qualitative traits. Our results suggested that cross-breeding practices have ever led to critical consequences, particularly for Makatia and M'zabite. The information reported in this study has to be carefully considered in order to establish governmental plan able to prevent the genetic dilution of the Algerian goat livestock.