Acute changes in the colonic microbiota are associated with large intestinal forms of surgical colic

Background Horses that undergo surgery for treatment of primary large colon disease have been reported to be at increased risk of developing recurrent colic episodes postoperatively. The reasons for this are currently unknown. The aim of the current study was to characterise the faecal microbiota of horses with colic signs associated with primary large colon lesions treated surgically and to compare the composition of their faecal microbiota to that of a control group of horses undergoing emergency orthopaedic treatment. Faecal samples were collected from horses in both groups on admission to hospital, during hospitalisation and following discharge from hospital for a total duration of 12 weeks. Additionally, colonic content samples were collected from surgical colic patients if pelvic flexure enterotomy was performed during laparotomy. A total of 12 samples were collected per horse. DNA was extracted from samples using a commercial kit. Amplicon mixtures were created by PCR amplification of the V1 – V2 regions of the bacterial 16S rRNA genes and submitted for sequencing using the Ion Torrent PGM next-generation sequencing system. Multivariate data analysis was used to characterise the faecal microbiota and to investigate differences between groups. Results Reduced species richness was evident in the colonic samples of the colic group compared to concurrent sampling of the faeces. Alpha and beta diversity differed significantly between the faecal and colonic microbiota with 304 significantly differentially abundant OTUs identified. Only 46 OTUs varied significantly between the colic and control group. There were no significant differences in alpha and beta diversity of faecal microbiota between colic and control horses at admission. However, this lack of significant differences between groups should be interpreted with caution due to a small sample size. Conclusions The results of the current study suggest that faecal samples collected at hospital admission in colic cases may not accurately represent changes in upper gut microbiota in horses with colic due to large colon disease

Genome-wide association study for systemic lupus erythematosus in an egyptian population

Systemic lupus erythematosus (SLE) susceptibility has a strong genetic component. Genome-wide association studies (GWAS) across trans-ancestral populations show both common and distinct genetic variants of susceptibility across European and Asian ancestries, while many other ethnic populations remain underexplored. We conducted the first SLE GWAS on Egyptians–an admixed North African/Middle Eastern population–using 537 patients and 883 controls. To identify novel susceptibility loci and replicate previously known loci, we performed imputation-based association analysis with 6,382,276 SNPs while accounting for individual admixture. We validated the association analysis using adaptive permutation tests (n = 109). We identified a novel genome-wide significant locus near IRS1/miR-5702 (Pcorrected = 1.98 × 10−8) and eight novel suggestive loci (Pcorrected 0.8) with lead SNPs from four suggestive loci (ARMC9, DIAPH3, IFLDT1, and ENTPD3) were associated with differential gene expression (3.5 × 10−95 < p < 1.0 × 10−2) across diverse tissues. These loci are involved in cellular proliferation and invasion—pathways prominent in lupus and nephritis. Our study highlights the utility of GWAS in an admixed Egyptian population for delineating new genetic associations and for understanding SLE pathogenesis

Efficacy of ovulation synchronization with timed artificial insemination in treatment of follicular cysts in dairy cows

The efficacy of five ovulation-synchronization protocols with FTAI in treatment of cows diagnosed with follicular cysts was investigated in a nonrandomized study in a single herd. Cows identified with follicular structures >25 mm on two subsequent ultrasonographic (USG) examinations 7–10 days apart (n = 552) were assigned to one of the five treatment regimens on the day of the second USG examination. Treatment regimens were Ovsynch (GnRH-7d-PGF2α-56h-GnRH-16h-FTAI), New-CIDR (as Ovsynch with a new CIDR insert being fitted between days 0 and 7), Reused-CIDR (as New-CIDR but the CIDR insert was previously used for 7 days in another cow), G-New CIDR (Pre-GnRH on day 0 with the New-CIDR regimen being initiated 7 days later), and RG-Ovsynch (Pre-GnRH on day 0 and then every 7 days until detection of a luteal structure upon USG examination; at that point the Ovsynch was initiated). A subset of cows was subjected to ovarian USG examination at the time of PGF2α administration, at insemination, and 8–10 days post-insemination. Progesterone-releasing ability of new and reused CIDR inserts were evaluated in cows diagnosed with severe ovarian inactivity (n = 16). The data were analyzed using logistic regression with pregnancy per AI on days 30 (P/Al 30) and 70 (P/AI 70) post-insemination were included as outcome measures. Compared with Ovsynch, RG-Ovsynch improved the P/AI 30 (OR = 2.6, P = 0.03) and the P/AI 70 (OR = 2.5, P = 0.05). New-CIDR and G-New CIDR were associated with non-significant increase in P/AI 30 (OR = 2.1, P = 0.09 and OR = 2.3, P = 0.07, respectively) and P/AI 70 (OR = 2.01, P = 0.09 and OR = 2.2, P = 0.09, respectively). Reused-CIDR was not associated with improvement in P/AI (P = 0.93 and 0.79 for P/AI 30 and P/AI 70, respectively). RG-Ovsynch had a longer diagnosis-to-FTAI interval (median 24, IQR 17,31). The dominant ovarian structures and the presence of a cyst or a luteal structure at PGF2α administration or at insemination were not associated with P/AI. The new and re-used CIDR inserts produced comparable concentrations of serum progesterone 3 h, 3 days and 7 days post CIDR insertion. In conclusion, the RG-Ovsynch improved the P/AI whereas the New-CIDR and the G-New CIDR regimens tended to increase the P/AI compared with Ovsynch. Marginal differences in P/AI between RG-Ovsynch, New-CIDR, and G-New-CIDR together with prolonged diagnosis-to-FTAI in RG-Ovsynch should be considered if to evaluate the economic value of these regimens

A cross-sectional study of the prevalence of lameness and digital dermatitis in dairy cattle herds in Egypt

Abstract Background Lameness is a significant problem for the dairy industry worldwide. No previous studies have evaluated the prevalence of lameness or digital dermatitis (DD) in dairy cattle herds in Egypt. A total of 16,098 dairy cows from 55 dairy herds in 11 Egyptian governorates underwent visual locomotion scoring using a 4-point scoring system. Cows that had a lameness score ≥ 2 were considered clinically lame. Following manure removal with water and using a flashlight, the cows’ hind feet were examined in the milking parlour to identify DD lesions and classify with M-score. Furthermore, each cow was assigned a hock score (a 3-point scale) and a hygiene score (a 4-point scale). The cow-, within-and between-herd prevalence of lameness and DD and associated 95% confidence intervals (CI) were calculated. The prevalence of hock lesions and poor cow hygiene was also calculated. Results Of the examined cows, 6,883 were found to be clinically lame (42.8%, 95% CI = 42.0–43.5%). The average within-herd prevalence of lameness was 43.1% (95% CI = 35.9–50.3%). None of the dairy herds recruited into the study were found to be free from clinical lameness. The average within-herd prevalence of DD was 6.4% (95% CI = 4.9–8.0%). The herd-level prevalence of DD was 92.7% (95% CI = 85.9–99.6%). Active DD lesions (M1, M2, M4.1) were identified in 464 cows (2.9%) while inactive lesions (M3, M4) were identified in 559 cows (3.5%). The within-herd prevalence of hock lesions (score 2 or 3) was 12.6% (95% CI = 4.03–21.1%) while a severe hock lesion had within-herd prevalence of 0.31% (95% CI = 0.12–0.51%). Cow-level prevalence of hock lesions was 6.2% (n = 847, 95% CI = 5.8–6.2%). The majority of examined cows had a hygiene score of 4 (n = 10,814, prevalence = 70.3%, 95% CI = 69.5–71%). Conclusions The prevalence of lameness was higher than prevalence estimates reported for other countries which could be due to differing management and/or environmental factors. DD was identified at lower prevalence in most herds but with high herd-level prevalence. Poor cow hygiene was notable in most herds. Measures to reduce the prevalence of lameness and to improve cow hygiene in dairy cattle herds in Egypt are therefore needed

Geographical Variations in Virulence Factors and Antimicrobial Resistance Amongst Staphylococci Isolated From Dogs From the United Kingdom and Romania

The objective of this study was to compare virulence and resistance factors of mucosal and cutaneous staphylococci from dogs with pyoderma in the UK and Romania, two countries with different approaches to antimicrobial use in companion animals. Staphylococcal isolates (n = 166) identified to the species level as being Staphylococcus pseudintermedius or coagulase negative (CoNS) were analyzed for their antimicrobial resistance (AMR) profile and presence of resistance and virulence genes. Of the investigated isolates, 26 were methicillin-resistant S. pseudintermedius (MRSP), 89 were methicillin-susceptible S. pseudintermedius (MSSP) and 51 were coagulase negative staphylococci (CoNS). A significantly larger number of isolates originating from Romania were resistant to clindamycin, tetracycline, and chloramphenicol compared to the UK isolates (P < 0.05). Resistance to amoxicillin-clavulanic acid, gentamicin, and trimethoprim-sulphamethoxazole was more evident in UK isolates. Fusidic acid resistance was common in Staphylococcus spp. isolates from both countries. Most isolates carried virulence factors associated with siet (exfoliative toxin) and luk (leucocidin) genes. All MRSP UK isolates exhibited fusidic acid resistance genes whilst this was very rare in the MRSP isolates from Romania. The chlorhexidine resistance gene qacA/B was frequently identified in CoNS isolates from the UK (P < 0.001). The current study documented differences in antimicrobial resistance profiles of Staphylococcus spp. isolates from dogs in two geographical locations in Europe, which could reflect differences in antimicrobial prescribing patterns. The study also highlights the need for further studies and interventions on antimicrobial use, prescribing patterns and AMR surveillance in companion animals in Romania

An abattoir study of the prevalence of foot lesions and claw measurements in water buffalo in Egypt.

BackgroundLameness has been associated with compromised animal welfare and reduced productivity in dairy cattle herds worldwide. However, little is known about the prevalence of claw lesions in the dairy buffalo population in Egypt. Furthermore, the optimum measurements for claw trimming in buffalo are unknown. A cross-sectional cadaver study was conducted where 135 pair buffalo hind feet were collected from 4 slaughterhouses and examined for the presence of claw lesions. The proportion and associated 95% confidence interval (CI) of each type of lesion were calculated. A separate set of healthy claws (n = 26) underwent ultrasonography (US) and computed tomography (CT). The agreement between US and CT measurements was assessed using Passing-Bablok regression and intraclass correlation coefficient. The CT measurements were used to calculate trimming recommendations.ResultsAt least one lesion was identified in 242 claws (89.6%, 95% CI = 85.4-93.0). In healthy claws, poor to moderate agreement was identified between US and CT measurements which could be due a sample size of the study. The average ± standard deviation (SD) minimum recommended external wall length of the lateral and medial claws in heifers was 7.1 ± 0.36 cm and 7.5 ± 0.35 cm, respectively. The average ± SD minimum recommended external wall length in buffaloes over five years of age was 8.2 ± 0.27 cm and 8.4 ± 0.39 cm for the lateral and medial claws, respectively.ConclusionsThe study found a high prevalence of claw lesions in buffalo in Egypt, the clinical significance of which requires further elucidation. Recommended measurements will help guide claw trimming in buffalo to minimise lesions

Additional file 1 of An abattoir study of the prevalence of foot lesions and claw measurements in water buffalo in Egypt

Additional file 1. Claw examination sheet