Context: SARS-CoV-2, a member of family Coronaviridae and the causative agent of COVID-19, is a virus which is transmitted to human and other mammals. Aims: To analyze the B-cell epitope conserved region and viroinformatics-based study of the SARS-CoV-2 lineage from Indonesian B.1.1.7 isolates to invent a vaccine nominee for overcoming COVID-19. Methods: The sequences of seven Indonesian B.1.1.7 isolates, Wuhan-Hu-1 isolate, and WIV04 isolate were extracted from the GISAID EpiCoV and GenBank, NCBI. MEGA X was employed to understand the transformations of amino acid in the S protein and to develop a molecular phylogenetic tree. The IEDB was implemented to reveal the linear B-cell epitopes. In addition, PEP-FOLD3 web server was utilized to perform peptide modeling, while docking was performed using PatchDock, FireDock, and the PyMOL software. Moreover, in silico cloning was developed by using SnapGene v.3.2.1 software. Results: In this study, the changes of amino acid in all seven Indonesian B.1.1.7 isolates were uncovered. Furthermore, various peptides based on the B-cell epitope prediction, allergenicity prediction, toxicity prediction from S protein to generate a vaccine contrary to SARS-CoV-2 were identified. Furthermore, the development of in silico cloning using pET plasmid was successfully achieved. Conclusions: This study exhibits the transformations of amino acid in Indonesian B.1.1.7 isolates, and proposes four peptides (“LTPGDSSSGWTAG”, “VRQIAPGQTGKIAD”, “ILPDPSKPSKRS”, and “KNHTSPDVDLG”) from S protein as the candidate for a peptide-based vaccine. However, further advance trials such as in vitro and in vivo testing are involved for validation.

Adequate global vaccine coverage during an influenza pandemic is essential to mitigate morbidity, mortality, and economic impact. Vaccine development and production needs to be sufficient to meet a vast global demand, requiring international cooperation and local vaccine production capacity, especially in resource-constrained countries. The use of adjuvants is one approach to augment the number of available vaccine doses and to overcome potential vaccine shortages. Appropriately selected adjuvant technologies can decrease the amount of vaccine antigen required per dose, may broaden or lengthen the conferred protection against disease, and may even allow protective single-dose vaccination. Here we describe a technology transfer collaboration between Switzerland and Indonesia that led to the establishment of a vaccine formulation platform in Surabaya which involved the transfer of equipment and expertise to enable research and development of adjuvanted vaccine formulations and delivery systems. This new Indonesian capability aims to facilitate local and regional access to know-how relating to adjuvanted vaccine formulations, thus promoting their application to local vaccine developers. In this review, we aim to share the “lessons learned” from this project to both support and inspire future scientific collaborations of a similar nature.

Introduction Indonesia kick-started the big project of COVID-19 vaccination program in January 2021 by employed vaccine to the president of Indonesia. The outbreak and rapid transmission of COVID-19 have endangered the global health and economy. This study aimed to investigate the full-length genome mutation analysis of 166 Indonesian SARS-CoV-2 isolates as 12 January 2021. Methods All data of isolates was extracted from the Global Initiative on Sharing All Influenza Data (GISAID) EpiCoV database. CoVsurver was employed to investigate the full-length genome mutation analysis of all isolates. Furthermore, this study also focused on the unlocking of mutation in Indonesian SARS-CoV-2 isolates S protein. WIV04 isolate that was originated from Wuhan, China was used as a virus reference according to CoVsurver default. All data was visualized using GraphPad Prism software, PyMOL, and BioRender. Results This study result showed that a full-length genome mutation analysis of 166 Indonesian SARS-CoV-2 isolates was successfully discovered. Every single mutation in S protein was described and then visualised by employing BioRender. Furthermore, it also found that D614G mutation appeared in 103 Indonesian SARS-CoV-2 isolates. Conclusion To sum up, this study helps to observe the spread of the COVID-19 transmission. However, it would like to propose that the epidemiological surveillance and genomics studies might be improved on COVID-19 pandemic in Indonesia.

Background: As a multi-functional cytokine, interleukin-6 (IL-6) is advanced in endometriosis. Probiotics are known to be able to modulate/regulate immune responses through downregulation of the pro-inflammatory cytokine IL-6. Lactobacillus plantarum IS-10506 (LIS-10506) is a novel probiotics strain derived from curd (a milk product which look like a yogurt) from traditionally made from buffalo milk or usually called by dadih from West Sumatra, Indonesia. This investigation intended to comprehend the impact of LIS-10506 administration on IL-6 expression in the endometrial tissue, serum IL-6 levels and endometriosis implant areas in mice model for endometriosis. Methods: This study conducted at the Animal Laboratory, Professor Nidom Foundation, Surabaya, Indonesia from January to June 2021. This experimental study was conducted on 32 adult female mice 12 weeks old divided into 4 groups in a completely randomized design with a posttest only control group design. LIS-10506 microencapsulation of curd was administered orally at a dose of 109 CFU/mice/day for 7 and 21 days. Serum IL-6 levels were assessed using IL-6 ELISA Kit for mice, IL-6 expression was assessed semi quantitatively according to the Remmele method and implant areas were measured by the area of hyperemia in mice’s peritoneal wall. Result: This investigation revealed that the peritoneal IL-6 expression and implant area experienced a decrease. In summary, the administration of LIS-10506 could downregulate pro-inflammatory cytokine IL-6. This present study has demonstrated the effect of LIS-10506 on one of the pathophysiological pathways in endometriosis.

Background: The genetic diversity information of local cattle and crossbred in South Sulawesi, Indonesia is essential for the establishment of conservation and breeding strategies. This research targeted to evaluate the phylogenetic relationship and genetic diversity of local and crossbred (CB) cattle. Methods: The present research organized at the Animal Laboratory, Professor Nidom Foundation, Surabaya, Indonesia from February to October 2021. The genome was isolated from 20 whole blood samples from seven purebreed belongs to Singosari National Artificial Insemination Center Malang, Indonesia, four crossbred in Gowa and nine crossbred in Sidrap, South Sulawesi, Indonesia. Partial sequences of mtDNA cytochrome oxidase subunit I (COI) gene were amplified employing the polymerase chain reaction technique. Result: This study revealed that a lot of single nucleotide polymorphism (SNP) found in local cattle (Bali and Peranakan Ongole) and CB cattle in Gowa and Sidrap indicated various genetic diversity can be used as a marker candidate and potential to be developed into future research knowing the correlation of the SNP with the growth rate of CB. Thus, this information will be helpful for further strategy in breeding development program.

Introduction: Toxoplasma gondii is a zoonotic parasite capable of infecting nearly all warm-blooded animals, including humans. T. gondii is the causative agent of toxoplasmosis. Toxoplasmosis is dangerous in cases of immunocompromised individuals or pregnant women. Transmission generally occurs by consumption of raw or undercooked meat containing infected cysts or oocysts. The BAG1 gene is specific to the bradyzoite stage and was used as a molecular marker in this study. This study aims to determine the presence of T. gondii in raw chicken, goat, and pork meat samples from Surabaya, Indonesia, using PCR with BAG1 gene primers.Materials and Methods: This study employed a cross-sectional design, with raw meat samples collected from modern supermarkets in various areas of Surabaya using simple random sampling. Raw meat samples underwent DNA extraction, polymerase chain reaction (PCR) with BAG1 gene primers, and electrophoresis. The length of the PCR product obtained was 470 bp. The results were analyzed descriptively, with positive and negative samples categorized based on meat sampling location and type.Results: T. gondii DNA was found in chicken and goat meat samples. The highest positivity rates were observed in chicken meat, ranging from 20% to 90%. No T. gondii DNA was detected in any pork samples (0%).Conclusion: Raw meat from supermarkets in modern times could, therefore, serve as a source of T. gondii infection. More excellent monitoring of meat products and complete cooking are necessary to minimize transmission risks of toxoplasmosis.