Archaic mitochondrial DNA inserts in modern day nuclear genomes

Traces of interbreeding of Neanderthals and Denisovans with modern humans in the form of archaic DNA have been detected in the genomes of present-day human populations outside sub-Saharan Africa. Up to now, only nuclear archaic DNA has been detected in modern humans; we therefore attempted to identify archaic mitochondrial DNA (mtDNA) residing in modern human nuclear genomes as nuclear inserts of mitochondrial DNA (NUMTs)

Analisis Mikrosatelit Pada Sampel Feses Gajah Sumatera (Elephas Maximus Sumatranus) Di Taman Nasional Tesso Nilo, Riau

Sumatran elephant (Elephas maximus sumatranus) is an endemic land mammal on Sumatra Island which now is on critically endangered. The population of Sumatran elephant in Riau Province spread in 9 pouches of population, one of them is population in Tesso Nilo National Park (TNNP). Habitat fragmentation and land conversion in protected areas caused condition of Sumatran elephant\u27s population had deteriorated. Therefore, we need a precise conservation effort to save the population of Sumatran elephant in TNNP. These efforts require appropriate information on the number of individuals and population genetic. The aims of this study were to determine the number of individuals, variation and frequency of allele, and the level of heterozygosity of Sumatran elephant population in TNNP based on genetic information. Molecular analysis using microsatellite marker was performed on 108 non-invasive samples which were collected using CMR method. The result revealed that there were 73 individuals of Sumatran elephant in TNNP. The average number of allele variation from 13 microsatelite loci which were analized was 2.85 allele/locus with average observed heterozygosity (0.507) is higher than expected heterozygosity (0.490). Those indicates that allele frequencies found to be above of the Hardy-Weinberg equilibrium. This studyproved that there is no genetic pressure of Sumatran elephant population in TNNP

Rasio Seks Dan Sebaran Spasial Populasi Gajah Sumatera (Elephas Maximus Sumatranus) Di Taman Nasional Tesso Nilo, Riau

The Sumatran Elephant (Elephas maximus sumatranus) is one of the largest mammal and endemic species on the island of Sumatra. It's conservation status is critically endangered. The information about sex ratio and spatial distribution is an important component to make a priority in conservation strategy. The aims of this study were to determine sex ratio and spatial distribution of Sumatran Elephant in Tesso Nilo National Park. The multiplex PCR method was used in this study to amplify fragments SRY1 and AMELY2 on the Y chromosome and fragment PLP1 on the X chromosome for sex identification in Sumatran Elephant. The analysis of spatial distribution were conducted using Arc GIS 10.1. The result indicated that sex ratio of Sumatran Elephant population in TNNP is 1:3 and the distribution of Sumatran Elephant is generally spread outside of the region TNNP

Bioprospecting of Bacterial Symbiont of Tunicate Didemnum Molle From Sambangan, Karimunjawa Islands

Coral reef is a productive ecosystem with high biodiversity in the sea and being targeted to find a useful bioactive compound. However, the serious problem in development of bioactive compounds from marine invertebrate is the supply problem, because to get a small amounts of active compounds a massive numbers of sea organisms are needed. Tunicate is an animal in coral reef ecosystem that produces many bioactive compounds with pharmacological activities, such as, antibacterial, antitumor, and anticancer compounds. It has been reported that bacterial symbionts of coral reef invertebrates may synthesize the same compounds as the host. The purposes of this research are to isolate and to identify microbes which have antibacterial activity against MDR bacteria based PCR 16S rRNA and to detect the existence of PKS and NRPS biosynthetic gene fragments from tunicate bacteria of Didemnum molle. Out of 15 bacterial isolates, one isolate showed antibacterial potential against Escherichia coli and Staphylococcus sp. Molecular identification result showed that TS2A5 bacterium has a homology of 99 % with Virgibacillus sp. strain GSP17 16S ribosomal RNA gene. This isolate was also capable of amplifying NRPS gene fragment

Interleukin-1 genetic polymorphisms in knee osteoarthritis: What do we know? A meta-analysis and systematic review

Purpose Interleukin-1 is the main proinflammatory cytokine in osteoarthritis (OA). Several single-nucleotide polymorphisms (SNPs) within the IL-1 gene cluster (IL-1 beta, IL-1R1, and IL-1RN) have been determined, but their associations with knee OA remain poorly understood. The present study aimed to identify the associations between IL-1 SNPs and knee osteoarthritis. Methods This meta-analysis and systematic review included all comparative studies published in the MEDLINE/PubMed, Embase, Google Scholar, and Cochrane Library databases. We performed a systematic search to identify relevant studies on the evaluation of the correlation between the IL-1 gene and knee OA published up to February 2020 that met the eligibility criteria. Nine studies on a total of 2256 knees with OA and 3527 healthy knees met the eligibility criteria. Results associated with IL-1A, IL-1B, IL-1R1, and IL-1RN SNPs were extracted and compared between knees with OA and healthy knees. Methodological quality was assessed using the Newcastle-Ottawa scale (NOS). All studies with fair or good quality were included. Results The meta-analysis showed that the risk of knee OA is decreased by the IL-1RN*1 and IL-1RN*1/*1 genotypes and increased by the IL-1RN*2 and I-L1RN*1/*2 genotypes. The systematic review revealed only two studies associating the IL-1RN allele, none associating the IL-1B polymorphism, and only one study associating IL-1A and IL-1R1 polymorphisms with knee OA. Conclusions Several IL-1RN alleles and genotypes play a role in knee OA but other genetic variations in the IL-1 region were still conflicting in its association with knee OA.Orthopaedics, Trauma Surgery and Rehabilitatio

Mitogenomes reveal two major influxes of Papuan ancestry across Wallacea following the last glacial maximum and Austronesian contact

The tropical archipelago of Wallacea contains thousands of individual islands interspersed between mainland Asia and Near Oceania, and marks the location of a series of ancient oceanic voyages leading to the peopling of Sahul—i.e., the former continent that joined Australia and New Guinea at a time of lowered sea level—by 50,000 years ago. Despite the apparent deep antiquity of human presence in Wallacea, prior population history research in this region has been hampered by patchy archaeological and genetic records and is largely concentrated upon more recent history that follows the arrival of Austronesian seafarers ~3000–4000 years ago (3–4 ka). To shed light on the deeper history of Wallacea and its connections with New Guinea and Australia, we performed phylogeographic analyses on 656 whole mitogenomes from these three regions, including 186 new samples from eight Wallacean islands and three West Papuan populations. Our results point to a surprisingly dynamic population history in Wallacea, marked by two periods of extensive demographic change concentrated around the Last Glacial Maximum ~15 ka and post-Austronesian contact ~3 ka. These changes appear to have greatly diminished genetic signals informative about the original peopling of Sahul, and have important implications for our current understanding of the population history of the region.1. Introduction 2. Materials and Methods 2.1. Sample Collection and Ethics 2.2. Mitochondrial Sequence Generation 2.3. Combined Wallacea–Sahul Dataset 2.4. Phylogenetic Parameter Estimation 2.5. Using Ancestral Node Dates from Geographically Exclusive Clades to Infer Demographic History 2.6. Migration Model Inference and Testing 2.7. Simulating and Estimating the Timing of Migration Events 3. Results 3.1. Summary of New Mitochondrial Haplogroups from Wallacea and West Papua 3.2. Phylogeographic Analyses 4. Discussion 4.1. Post-LGM Population Expansions and Movements 4.2. Redistribution of Papuan mtDNA Lineages Following Austronesian Contact 4.3. Comparison with Wallacean Archaeological and Linguistic Records 5. Conclusion

Hemostatic Status of Pre and Post Intracoronary Injection of Peripheral Blood Stem Cells in Patients with Recent Myocardial Infarction

Aim: to investigate hemostatic parameter changes, such as platelet aggregation, blood and plasma viscosity, prothrombin time, APTT, CRP and fibrinogen, before and after administration of stem cell therapy. Methods: a total of 24 patients were enrolled. Peripheral blood stem cells (PBSCs) were harvested and injected into the infarct-related artery after 5 consecutive days of G-CSF administration. Recombinant human erythropoietin was administered at the time of intracoronary PBSCs injection. Results: we were able to evaluate 11 from 24 of patients regarding hemostatic status pre–post stem cell injection. There were no significant difference between baseline vs 3 months in spontaneous aggregation (p=0.350), PT (p=0.793), aPTT (p=0.255) and TT (p=0.254). There were also no significant difference between baseline vs 3 months in plasma viscosity (p=0.442) and blood viscosity (p=0.843). Nevertheless the patient who had their blood and plasma viscosity above or below normal laboratory range return to normal level after the treatment. Both PT and APTT also show normalization value. Both Fibrinogen and CRP level show significant decrease between baseline and 3 months after treatment (p=0.009) and (p=0.04) respectively. Conclusion: combined G-CSF and EPO based-intracoronary infusion of PBSCs may open new perspective in the treatment of hypercoagulable state post AMI

Hemostatic Status of Pre and Post Intracoronary Injection of Peripheral Blood Stem Cells in Patients with Recent Myocardial Infarction

Aim: to investigate hemostatic parameter changes, such as platelet aggregation, blood and plasma viscosity, prothrombin time, APTT, CRP and fibrinogen, before and after administration of stem cell therapy. Methods: a total of 24 patients were enrolled. Peripheral blood stem cells (PBSCs) were harvested and injected into the infarct-related artery after 5 consecutive days of G-CSF administration. Recombinant human erythropoietin was administered at the time of intracoronary PBSCs injection. Results: we were able to evaluate 11 from 24 of patients regarding hemostatic status pre–post stem cell injection. There were no significant difference between baseline vs 3 months in spontaneous aggregation (p=0.350), PT (p=0.793), aPTT (p=0.255) and TT (p=0.254). There were also no significant difference between baseline vs 3 months in plasma viscosity (p=0.442) and blood viscosity (p=0.843). Nevertheless the patient who had their blood and plasma viscosity above or below normal laboratory range return to normal level after the treatment. Both PT and APTT also show normalization value. Both Fibrinogen and CRP level show significant decrease between baseline and 3 months after treatment (p=0.009) and (p=0.04) respectively. Conclusion: combined G-CSF and EPO based-intracoronary infusion of PBSCs may open new perspective in the treatment of hypercoagulable state post AMI. Key words: coagulation, platelet aggregation, myocardial infarction, hypercoagulatio