A review on the nexus of autophagy genes from the perspective of polycystic ovary syndrome.

Polycystic ovary syndrome or PCOS is an endocrine disorder in women of reproductive age. It is a diversified multi factorial disorder and diagnosis is very complicated because of its overlapping symptoms some of which are irregular menstrual cycle, acne in face, excess level of androgen (AE), insulin resistance, obesity, cardiovascular disease, mood disorder and type 2 diabetes (T2DM). PCOS may be caused by hormonal imbalance, genetic and epigenetic vulnerability, hypothalamic and ovarian troubles. PCOS is essentially hyperandrogenimia with oligo-anovulation. This review explains the abnormal regulation of autophagy related genes and proteins in different cells at various stages which leads to the genesis of PCOS. During nutrient starvation cells face stress condition, which it tries to overcome by activating its macroautophagy mechanism and by degrading the cytoplasmic material. This provides energy to the cell facilitating its survival. Downregulation of autophagy related genes in endometria has been observed in PCOS women. PCOS can be managed by maintaining proper lifestyle and medical treatment. Healthy meals and regular exercise can prevent the excessive weight and also reduce the PCOS complications. Medicines such as metformin, clomiphene, and the oral contraceptive pill can also balance the hormonal level. The imbalance in regulation of autophagy genes has been discussed with correlation to PCOS. The different management strategies for PCOS have also been summarized.

Nonsynonymous mutations in VEGF receptor binding domain alter the efficacy of bevacizumab treatment.

Vascular endothelial growth factor (VEGF) mediated angiogenesis is crucial for tumor progression. Isoforms of VEGF bind to different VEGF receptors (VEGFRs) to initiate angiogenesis specific cellular signaling. Inhibitors that target both the receptors and ligands are in clinical use to impede angiogenesis. Bevacizumab, a monoclonal antibody (mAb) approved by the Food and Drug Administration (FDA), binds in the VEGF receptor binding domain (RBD) of all soluble isoforms of VEGF and inhibits the VEGF-VEGFR interaction. Bevacizumab is also used in combination with other chemotherapeutic agents for a better therapeutic outcome. Understanding the intricate polymorphic character of VEGFA gene and the influence of missense or nonsynonymous mutations in the form of nonsynonymous polymorphisms (nsSNPs) on RBD of VEGF may aid in increasing the efficacy of this drug. This study has identified 18 potential nsSNPs in VEGFA gene that affect the VEGF RBD structure and alter its binding pattern to bevacizumab. The mutated RBDs, modeled using trRosetta, in addition to the changed pattern of secondary structure, post translational modification and stability compared to the wild type, have shown contrasting binding affinity and molecular interaction pattern with bevacizumab. Molecular docking analysis by ClusPro and visualization using PyMol and PDBsum tools have detected 17 nsSNPs with decreased binding affinity to bevacizumab and therefore may impact the treatment efficacy. Whereas VEGF RBD expressed due to rs1267535717 (R229H) nsSNP of VEGFA has increased affinity to the mAb. This study suggests that genetic characterization of VEGFA before bevacizumab mediated cancer treatment is essential in predicting the appropriate efficacy of the drug, as the treatment efficiency may vary at individual level.

Optimization of Distributed Energy Resources Operation in Green Buildings Environment.

Without a well-defined energy management plan, achieving meaningful improvements in human lifestyle becomes challenging. Adequate energy resources are essential for development, but they are both limited and costly. In the literature, several solutions have been proposed for energy management but they either minimize energy consumption or improve the occupant's comfort index. The energy management problem is a multi-objective problem where the user wants to reduce energy consumption while keeping the occupant's comfort index intact. To address the multi-objective problem this paper proposed an energy control system for a green environment called PMC (Power Management and Control). The system is based on hybrid energy optimization, energy prediction, and multi-preprocessing. The combination of GA (Genetic Algorithm) and PSO (Particle Swarm Optimization) is performed to make a fusion methodology to improve the occupant comfort index (OCI) and decrease energy utilization. The proposed framework gives a better OCI when compared with its counterparts, the Ant Bee Colony Knowledge Base framework (ABCKB), GA-based prediction framework (GAP), Hybrid Prediction with Single Optimization framework (SOHP), and PSO-based power consumption framework. Compared with the existing AEO framework, the PMC gives practically the same OCI but consumes less energy. The PMC framework additionally accomplished the ideal OCI (i-e 1) when compared with the existing model, FA-GA (i-e 0.98). The PMC model consumed less energy as compared to existing models such as the ABCKB, GAP, PSO, and AEO. The PMC model consumed a little bit more energy than the SOHP but provided a better OCI. The comparative outcomes show the capability of the PMC framework to reduce energy utilization and improve the OCI. Unlike other existing methodologies except for the AEO framework, the PMC technique is additionally confirmed through a simulation by controlling the indoor environment using actuators, such as fan, light, AC, and boiler.

Evaluating the transmission feasibility of SARS-CoV-2 Omicron (B.1.1.529) variant to 143 mammalian hosts: insights from S protein RBD and host ACE2 interaction studies.

In comparison to previously known severe respiratory syndrome coronavirus 2 (SARS-CoV-2) variants, the newly emerged Omicron (B.1.1.529) variant shows higher infectivity in humans. Exceptionally high infectivity of this variant raises concern of its possible transmission via other intermediate hosts. The SARS-CoV-2 infectivity is established via the association of spike (S) protein receptor binding domain (RBD) with host angiotensin I converting enzyme 2 (hACE2) receptor. In the course of this study, we investigated the interaction between Omicron S protein RBD with the ACE2 receptor of 143 mammalian hosts including human by protein-protein interaction analysis. The goal of this study was to forecast the likelihood that the virus may infect other mammalian species that coexist with or are close to humans in the household, rural, agricultural, or zoological environments. The Omicron RBD was found to interact with higher binding affinity with the ACE2 receptor of 122 mammalian hosts via different amino acid residues from the human ACE2 (hACE2). The rat (Rattus rattus) ACE2 was found to show the strongest interaction with Omicron RBD with a binding affinity of -1393.6 kcal/mol. These distinct strong binding affinity of RBD of Omicron with host ACE2 indicates a greater potential of new host transmissibility and infection via intermediate hosts. Though expected but the phylogenetic position of the mammalian species may not dictate the Omicron RBD binding to the host ACE2 receptor suggesting an involvement of multiple factors in guiding host divergence of the variant.

Common causes of hearing impairment among children less than 8 years of age in District Bahawalpur, Punjab Pakistan.

OBJECTIVE: To find out the common causes of hearing loss among young children, and to compare the causes along gender lines. Method: The cross-sectional study was conducted from September 2020 to March 2021 at two government hospitals and one private clinic in Bahawalpur, Pakistan, and comprised children of either gender aged <8 years with complaint of decreased hearing. They were examined and tested for hearing impairment. Data was analysed using SPSS 22. RESULTS: Of the 328 subjects, 164(50%) each were girls and boys. The overall mean age was 4.20±2.08 years. Sensorineural hearing loss was found in 178(54.3%), cases, conductive in 118(36%) and mixed type in 32(9.8%). Otitis media with effusion 89(27.1%) was the commonest cause of hearing impairment, followed by consanguinity 73(22.3%). There was no significant difference between the male and female children (p>0.05). CONCLUSIONS: Otitis media with effusion was the commonest cause of hearing impairment, followed by consanguinity. Gender had no significant role to play in this regard.

Vitamin C supplementation ameliorates liver function profile and antiviral treatment response in Hepatitis C patients.

An imbalance between oxidative stress and antioxidative defence mediates a variety of diseases pathogenesis. The present study aims to assess the possible outcome of supplementation of oral vitamin-C (VC), an antioxidant, in Viral Hepatitis C (HCV) treatment as an adjuvant therapy. 200 HCV-patients were selected, 100 were given Vitamin-C (1000 mg/day) along with anti HCV treatment (sofosbuvir plus daclatasvir) while the other 100 took only anti-HCV treatment for 4weeks. The serum ascorbic acid (Vitamin-C) levels and functions of the liver were tested before and after the VC supplementation. HCV patients with relatively low serum ascorbic acid showed significant improvement after the intake of vitamin C. After 4 weeks of treatment, AST, ALP, albumin, and total, direct and indirect bilirubin were improved significantly in the VC group; whereas only ALT and indirect bilirubin were improved in both groups when associated with the control subjects. Comparing the two treatment groups at 4weeks; more effective and significant improvement was observed in ALT (p<0.01), AST (p<0.001), direct (p<0.01) and indirect bilirubin (p<0.001), total proteins (p<0.001) and albumin (p<0.05) in patients with VC supplementation on anti-viral treatment compared to only anti-viral treatment group. Thus, VC supplementation improves the antiviral therapy outcome by bestowing a beneficial effect in minimizing liver damage in HCV cases.

Characterization of Ocimum basilicum synthesized silver nanoparticles and its relative toxicity to some insecticides against tobacco cutworm, Spodoptera litura Feb. (Lepidoptera; Noctuidae).

Tobacco cutworm, Spodoptera litura Feb. (Lepidoptera; Noctuidae) is a notorious cosmopolitan pest of numerous crops. Frequent evolution of insecticide resistance and polyphagous nature favors the survival of this voracious pest. Nanotechnology offers an alternative technique to overcome the limitations of existing pest management strategies. In the present study, the silver nanoparticles were synthesized from Ocimum basilicum leaf extract and UV-spectra at 464.17 nm confirmed their synthesis while crystalline nature of nanoparticles was evaluated by X-rays diffraction (XRD) pattern and scanning electron microscopy (SEM) revealed their octagonal to spherical shape. Insecticidal potential of O. basilicum synthesized silver nanoparticles (ObAgNPs) was evaluated in comparison with some synthetic insecticides owning different mode of actions, including Coragen®, Proclaim®, Tracer® and Talstar® against S. litura. Probit analysis of 2nd, 3rd, 4th and 5th instars of S. litura showed that lethal concentrations (LCs) of tested nanoparticles and pesticides were positively correlated with older instars. All values of LC50, LC90 and LC95 were statistically different from each other with maximum on the 4th instar and minimum on 2nd instar of S. litura. Tukey's HSD test revealed that ObAgNPs caused maximum mortality (21.67-96.67%) in 2nd instar larvae at the rate of 100-1500 mg/L followed by Coragen® (18.33-91.67%), Proclaim® (13.33-78.33%) and Talstar® (13.33-68.33%), while Tracer indicated the lowest larval mortality (11.67-66.67%) at the rate of 60-120 mg/L and a similar trend was assessed for all the successive instars of S. litura. Higher activity of carboxyl esterase and glutathione-s-transferases confirmed the development of insecticide resistance against the synthetic chemicals. Conclusively, ObAgNPs were found to be eco-friendly but the most effective biogenic compounds for the suppression of S. litura population as compared to the selected synthetic chemicals which may be hazardous for the environment as well as human health. This study will assist the pesticide industries to re-standardize the dose rates against Spodoptera litura.

A Deep Learning Based Approach for Localization and Recognition of Pakistani Vehicle License Plates.

License plate localization is the process of finding the license plate area and drawing a bounding box around it, while recognition is the process of identifying the text within the bounding box. The current state-of-the-art license plate localization and recognition approaches require license plates of standard size, style, fonts, and colors. Unfortunately, in Pakistan, license plates are non-standard and vary in terms of the characteristics mentioned above. This paper presents a deep-learning-based approach to localize and recognize Pakistani license plates with non-uniform and non-standardized sizes, fonts, and styles. We developed a new Pakistani license plate dataset (PLPD) to train and evaluate the proposed model. We conducted extensive experiments to compare the accuracy of the proposed approach with existing techniques. The results show that the proposed method outperformed the other methods to localize and recognize non-standard license plates.

Heavy metal phytoextraction potential of indigenous tree species of the family fabaceae.

Untreated industrial wastewater (IWW) creates a number of problems in ecosystem. This study highlights the possibility of using IWW for forest irrigation. Five tree species were selected for this study, Albizia lebbeck, Bauhinia purpurea, Dalbergia sissoo, Millettia peguensis, and Pongamia pinnata, and these species were grown in pots and were irrigated with different concentrations of IWW, rich in heavy metals. All the species showed positive results for fresh weight, plant height, and stem diameter. The maximum proline content was observed in B. purpurea (6.33), whereas the least quantity was observed in P. pinnata (3.89). Lead uptake (163.801 mg/day) by B. purpurea was promising. Uptake of Cr and Cu was slow in all species. Translocation factor of D. sissoo was maximum, that is 3.37. This study successfully combats wastewater problem. These five species are much tolerant in IWW and can be successfully used for phytoextraction processes. The chromium accumulation in stem is as follows: D. sissoo > A. lebbeck > M. peguensis > P. pinnata > B. purpurea. Metal Bioaccumulation in leaf and root was less. The idea is to utilize IWW to generate urban forests (in eco-friendly and sustainable way), which can reduce multiple problems such as IWW toxicity and air pollution through urban forestry.

Radial forearm free flap: A dynamic flap for single-staged multiple subunit reconstruction.

We report the case of a middle aged patient with biopsy proven squamous cell carcinoma of buccal mucosa who presented to us in Aga Khan University Hospital Karachi in April, 2017 and required reconstruction of buccal mucosa, upper lip and lower lip. As per protocol of our institute the lesion was excised by the head and neck surgeon and the defect was reconstructed by our team. The defect was large comprising of buccal mucosa including the left oral commissure, upper lip and the lower lip. It was reconstructed via a free flap and a radial forearm free flap. A specially designed radial forearm free flap was harvested and used for reconstruction which resulted in a good aesthetic and functional outcome.

Decomposable Polyvinyl Alcohol-Based Super-Hydrophobic Three-Dimensional Porous Material for Effective Water/Oil Separation.

The development of the oil industry brings the critical problem of ocean pollution by oil spill or fossil fuels. The use of materials for water/oil separation is one of the effective approaches to solve this crisis. Polyvinyl alcohol (PVA) has been used  to prepare water/oil separation materials. Currently, glutaraldehyde has been employed as the cross-linking agent, which is well known to be toxic and environmentally unfriendly. Moreover, it is difficult to deal with the disposal of the Across-linked material. Here, we propose a strategy of fabricating macroporous material which was prepared by PVA and sodium silicate (Na2SiO3) in aqueous solution. Following through with the one-step method of sol-gel reaction of hydroxyl groups with trimethoxy(octadecyl)silane, the low surface energy substance was grafted on the macroporous material and a super-hydrophobic macroporous membrane for water/oil separation was prepared. As oil sorbent, the as-prepared dried super-hydrophobic PVA/Na2SiO3 porous materials (PSD6S) have the adsorption capacity of 1.8-7.0 g/g for oil uptake, which depends on the type of oil liquid. Typically, the separation efficiency of this material could reach more than 99% even after 10 times of use without the help of ambient pressure. It is noteworthy that the as-prepared samples could be easily decomposable and dissolvable completely in acidic medium at a rapid rate.

Engaging with community-based public and private mid-level providers for promoting the use of modern contraceptive methods in rural Pakistan: results from two innovative birth spacing interventions.

BACKGROUND: Family planning (FP) interventions aimed at reducing population growth have negligible during the last two decades in Pakistan. Innovative FP interventions that help reduce the growing population burden are the need of the hour. Marie Stopes Society--Pakistan implemented an operational research project--'Evidence for Innovating to Save Lives', to explore effective and viable intervention models that can promote healthy timing and spacing of pregnancy in rural and under-served communities of Sindh, Punjab and Khyber Pakhtunkhwa provinces of Pakistan. METHODS: We conducted a quasi-experimental (pre- and post-intervention with control arm) study to assess the effectiveness of each of the two intervention models, (1) Suraj model (meaning 'Sun' in English), which uses social franchises (SF) along with a demand-side financing (DSF) approach using free vouchers, and (2) Community Midwife (CMW) model, in promoting the use of modern contraceptive methods compared to respective controls. Baseline and endline cross-sectional household surveys were conducted, 24 months apart, by recruiting 5566 and 6316 married women of reproductive age (MWRA) respectively. We used Stata version 8 to report the net effect of interventions on outcome indicators using difference-in-differences analysis. Multivariate Cox proportional hazard regression analysis was used to assess the net effect of the intervention on current contraceptive use, keeping time constant and adjusting for other variables in the model. RESULTS: The Suraj model was effective in significantly increasing awareness about FP methods among MWRA by 14% percentage points, current contraceptive use by 5% percentage points and long term modern method--intrauterine device (IUD) use by 6% percentage points. The CMW model significantly increased contraceptive awareness by 28% percentage points, ever use of contraceptives by 7% percentage points and, IUD use by 3% percentage points. Additionally the Suraj intervention led to a 35% greater prevalence (prevalence ratio: 1.35, 95% CI: 1.22-1.50) of contraceptive use among MWRA. CONCLUSION: Suraj intervention highlights the importance of embedding subsidized FP services within the communities of the beneficiaries. The outcomes of the CMW intervention also improved the use of long-term contraceptives. These findings indicate the necessity of designing and implementing FP initiatives involving local mid-level providers to expand contraceptive coverage in under-served areas.

HBC-Evo: predicting human breast cancer by exploiting amino acid sequence-based feature spaces and evolutionary ensemble system.

We developed genetic programming (GP)-based evolutionary ensemble system for the early diagnosis, prognosis and prediction of human breast cancer. This system has effectively exploited the diversity in feature and decision spaces. First, individual learners are trained in different feature spaces using physicochemical properties of protein amino acids. Their predictions are then stacked to develop the best solution during GP evolution process. Finally, results for HBC-Evo system are obtained with optimal threshold, which is computed using particle swarm optimization. Our novel approach has demonstrated promising results compared to state of the art approaches.

Can-Evo-Ens: Classifier stacking based evolutionary ensemble system for prediction of human breast cancer using amino acid sequences.

The diagnostic of human breast cancer is an intricate process and specific indicators may produce negative results. In order to avoid misleading results, accurate and reliable diagnostic system for breast cancer is indispensable. Recently, several interesting machine-learning (ML) approaches are proposed for prediction of breast cancer. To this end, we developed a novel classifier stacking based evolutionary ensemble system "Can-Evo-Ens" for predicting amino acid sequences associated with breast cancer. In this paper, first, we selected four diverse-type of ML algorithms of Naïve Bayes, K-Nearest Neighbor, Support Vector Machines, and Random Forest as base-level classifiers. These classifiers are trained individually in different feature spaces using physicochemical properties of amino acids. In order to exploit the decision spaces, the preliminary predictions of base-level classifiers are stacked. Genetic programming (GP) is then employed to develop a meta-classifier that optimal combine the predictions of the base classifiers. The most suitable threshold value of the best-evolved predictor is computed using Particle Swarm Optimization technique. Our experiments have demonstrated the robustness of Can-Evo-Ens system for independent validation dataset. The proposed system has achieved the highest value of Area Under Curve (AUC) of ROC Curve of 99.95% for cancer prediction. The comparative results revealed that proposed approach is better than individual ML approaches and conventional ensemble approaches of AdaBoostM1, Bagging, GentleBoost, and Random Subspace. It is expected that the proposed novel system would have a major impact on the fields of Biomedical, Genomics, Proteomics, Bioinformatics, and Drug Development.

Rhizobium pakistanensis sp. nov., isolated from groundnut (Arachis hypogaea) nodules grown in rainfed Pothwar, Pakistan.

A Gram-negative, white, non-motile, rod shaped bacterial strain BN-19(T) was isolated from a root nodule of groundnut (Arachis hypogaea) in Pakistan. Phylogenetic analysis based on 16S rRNA gene sequence revealed that strain BN-19(T) formed a subclade in the genus Rhizobium together with Rhizobium alkalisoli CCBAU 01393(T), Rhizobium vignae CCBAU 05176(T), Rhizobium huautlense SO2(T) and Rhizobium tarimense PL-41(T) with sequence similarities of 97.5, 97.3, 97.2 and 97.1 % respectively. Sequence analysis of housekeeping genes atpD, glnII and recA (with sequence similarities of ≤92 %) confirmed the unique position of BN-19(T) in the genus Rhizobium. DNA-DNA relatedness between the strain BN-19(T) and R. alkalisoli CCBAU 01393(T), R. vignae CCBAU 05176(T), R. huautlense SO2(T) and R. tarimense PL-41(T) were 20.6, 22.5, 15.9 and 20.5 % respectively, further confirming that BN-19(T) represents a novel species in the genus Rhizobium. The DNA G + C content was 60.1 mol%. The dominant fatty acids of strain BN-19(T) were C19:0 cyclo ω8c, summed feature 2 (C14:0 3OH and/or C16:1 iso I) and summed feature 8 (C18:1 ω7c). Some phenotypic features also differentiate the strain BN-19(T) from the related species. On the basis of these results, strain BN-19(T) is considered to represent a novel species in the genus Rhizobium, for which the name Rhizobium pakistanensis sp. nov. is proposed. The type strain is BN-19(T) (=LMG 27895(T) = CCBAU 101086(T)).

Continuation rates and reasons for discontinuation of intra-uterine device in three provinces of Pakistan: results of a 24-month prospective client follow-up.

BACKGROUND: Long-acting reversible contraceptives, such as the intrauterine device (IUD), remain underutilised in Pakistan with high discontinuation rates. Based on a 24-month prospective client follow-up (nested within a larger quasi-experimental study), this paper presents the comparison of two intervention models, one using private mid-level providers branded as "Suraj" and the other using community midwives (CMWs) of Maternal Newborn and Child Health Programme, for method continuation among IUD users. Moreover, determinants of IUD continuation and the reasons for discontinuation, and switching behaviour were studied within each arm. METHODS: A total of 1,163 IUD users, 824 from Suraj and 339 from the CMW model, were enrolled in this 24-month prospective client follow-up. Participants were followed-up by female community mobilisers physically every second month to ascertain continued IUD usage and to collect information on associated factors, switching behaviour, reasons for discontinuation, and pregnancy occurrence. The probabilities of IUD continuation and the risk factors for discontinuation were estimated by life table analysis and Cox proportional-hazard techniques, respectively. RESULTS: The cumulative probabilities of IUD continuation at 24 months in Suraj and CMW models were 82% and 80%, respectively. The difference between the two intervention areas was not significant. The probability distributions of IUD continuation were also similar in both interventions (Log rank test: χ(2) = 0.06, df = 1, P = 0.81; Breslow test: χ(2) = 0.6, df = 1, P = 0.44). Health concerns (Suraj = 57.1%, CMW = 38.7%) and pregnancy desire (Suraj = 29.3%, CMW = 40.3%) were reported as the most prominent reasons for IUD discontinuation in both intervention arms. IUD discontinuation was significantly associated with place of residence in Suraj and with age (15-25 years) in the CMW model. CONCLUSION: CMWs and private providers are equally capable of providing quality IUD services and ensuring higher method continuation. Pakistan's National Maternal Newborn and Child Health programme should consider training CMWs and providing IUDs through them. Moreover, private sector mid-level providers could be engaged in promoting the use of IUDs.

IDM-PhyChm-Ens: intelligent decision-making ensemble methodology for classification of human breast cancer using physicochemical properties of amino acids.

Development of an accurate and reliable intelligent decision-making method for the construction of cancer diagnosis system is one of the fast growing research areas of health sciences. Such decision-making system can provide adequate information for cancer diagnosis and drug discovery. Descriptors derived from physicochemical properties of protein sequences are very useful for classifying cancerous proteins. Recently, several interesting research studies have been reported on breast cancer classification. To this end, we propose the exploitation of the physicochemical properties of amino acids in protein primary sequences such as hydrophobicity (Hd) and hydrophilicity (Hb) for breast cancer classification. Hd and Hb properties of amino acids, in recent literature, are reported to be quite effective in characterizing the constituent amino acids and are used to study protein foldings, interactions, structures, and sequence-order effects. Especially, using these physicochemical properties, we observed that proline, serine, tyrosine, cysteine, arginine, and asparagine amino acids offer high discrimination between cancerous and healthy proteins. In addition, unlike traditional ensemble classification approaches, the proposed 'IDM-PhyChm-Ens' method was developed by combining the decision spaces of a specific classifier trained on different feature spaces. The different feature spaces used were amino acid composition, split amino acid composition, and pseudo amino acid composition. Consequently, we have exploited different feature spaces using Hd and Hb properties of amino acids to develop an accurate method for classification of cancerous protein sequences. We developed ensemble classifiers using diverse learning algorithms such as random forest (RF), support vector machines (SVM), and K-nearest neighbor (KNN) trained on different feature spaces. We observed that ensemble-RF, in case of cancer classification, performed better than ensemble-SVM and ensemble-KNN. Our analysis demonstrates that ensemble-RF, ensemble-SVM and ensemble-KNN are more effective than their individual counterparts. The proposed 'IDM-PhyChm-Ens' method has shown improved performance compared to existing techniques.

Genetic analysis of post-weaning growth traits of Thalli sheep under tropical conditions.

Present investigation was carried out to study the influence of genetic and non-genetic factors affecting post-weaning performance traits in Thalli sheep. Data on post-weaning growth of Thalli sheep maintained at Livestock Experiment Station, Rakh Ghulaman, District Bhakkar-Punjab, Pakistan during 1977-2003 were subjected to genetic analysis. The average values for weight at 180 and 270 days of age, yearling weight and post-weaning average daily gain were 22.37 ± 4.21, 25.96 ± 4.90 and 28.93 ± 5.20 kg and 28 ± 0.01 g/day, respectively. Weight at 180, 270 and 365 days of age and post-weaning average daily gain were significantly affected by year of birth, sex, type of birth and weaning weight (covariable) whereas season of birth was a significant source of variation for 180 and 270 days of age. The heritability estimates for 180 and 270 days, yearling weight and post-weaning average daily gain were 0.07 ± 0.02, 0.08 ± 0.02, 0.07 ± 0.02 and 0.07 ± 0.02, respectively.

Elucidating the evolution of monkeypox virus genomes through phylo-geo-network and haplogroup analysis.

BACKGROUND: As the world settles down from the COVID-19 pandemic, many countries are faced with an unexpected outbreak of monkeypox infection. Monkeypox is a zoonotic disease caused by monkeypox virus (MPXV), which is an enveloped, double stranded DNA virus belonging to the Poxviridae family. Presently, we construct and analyze the phylo-geo-network and the corresponding haplogroups. Presently, we performed the haplogroup analysis with their defining mutations and phylogenetic lineage study along with geographical distributions with the aim to understand the evolutionary path of the MPXV across the world. RESULTS: Information about 719 full length genomes of MPXV were collected from GISAID repository and the sequences extracted from NCBI. The alignment of 719 MPXV genomes and their subsequent analysis revealed a total of 1530 segregating sites of which 330 were parsimony informative (PI) sites. The variations had a positive value of Tajima's D statistic indicating some mutations being prevalent and hence balancing selection. A total of 39 haplogroups were observed in the phylo-geo-network and their defining mutations along with the evolutionary path has been discussed. The phylo-geo-network revealed the nodal haplogroup is represented by GISAID ID 13889450, haplogroup A1, an isolate from Germany, having a total of 296 identical sequences in the study incident across 22 countries. The localized evolution is highlighted by country specific sequences and haplogroups. USA had a total of 58 genomes and 13 haplogroups as compared to Peru (89 genomes, 7 haplogroups) and Germany (26 genomes, 6 haplogroups). CONCLUSIONS: The evolution of MPXV can be happening in a localized manner and hence accumulation of variations in the MPXV genomes needs to be monitored in order to be prepared for any possible threats.