Indonesian Institute of Sciences

About: Indonesian Institute of Sciences is a facility organization based out in Jakarta, Indonesia. It is known for research contribution in the topics: Population & Genus. The organization has 4795 authors who have published 10544 publications receiving 76990 citations. The organization is also known as: Indonesian Institute of Sciences Cibinong, Indonesia.

Genetic diversity of Indonesian cattle breeds based on microsatellite markers.

Abstract: Objective This research was conducted to study the genetic diversity in several Indonesian cattle breeds using microsatellite markers to classify the Indonesian cattle breeds. Methods A total of 229 DNA samples from of 10 cattle breeds were used in this study. The polymerase chain reaction process was conducted using 12 labeled primers. The size of allele was generated using the multiplex DNA fragment analysis. The POPGEN and CERVUS programs were used to obtain the observed number of alleles, effective number of alleles, observed heterozygosity value, expected heterozygosity value, allele frequency, genetic differentiation, the global heterozygote deficit among breeds, and the heterozygote deficit within the breed, gene flow, Hardy-Weinberg equilibrium, and polymorphism information content values. The MEGA program was used to generate a dendrogram that illustrates the relationship among cattle population. Bayesian clustering assignments were analyzed using STRUCTURE program. The GENETIX program was used to perform the correspondence factorial analysis (CFA). The GENALEX program was used to perform the principal coordinates analysis (PCoA) and analysis of molecular variance. The principal component analysis (PCA) was performed using adegenet package of R program. Results A total of 862 alleles were detected in this study. The INRA23 allele 205 is a specific allele candidate for the Sumba Ongole cattle, while the allele 219 is a specific allele candidate for Ongole Grade. This study revealed a very close genetic relationship between the Ongole Grade and Sumba Ongole cattle and between the Madura and Pasundan cattle. The results from the CFA, PCoA, and PCA analysis in this study provide scientific evidence regarding the genetic relationship between Banteng and Bali cattle. According to the genetic relationship, the Pesisir cattle were classified as Bos indicus cattle. Conclusion All identified alleles in this study were able to classify the cattle population into three clusters i.e. Bos taurus cluster (Simmental Purebred, Simmental Crossbred, and Holstein Friesian cattle); Bos indicus cluster (Sumba Ongole, Ongole Grade, Madura, Pasundan, and Pesisir cattle); and Bos javanicus cluster (Banteng and Bali cattle).

Effects of thermal stress on the immune and oxidative stress responses of juvenile sea cucumber Holothuria scabra.

Abstract: Holothuria scabra is the most valued and cultured tropical sea cucumber, given the great demand of this species for human consumption. However, despite its ecological and economic relevance, little is known regarding its immune responses under thermal stress. Here, the main goal was to study the response of sea cucumbers to temperature stress, assessing sub-organismal alterations and acclimation capacities of juveniles to temperature changes. After changing temperature (1 °C/day) for 6 days, organisms were exposed to temperature conditions of 21 °C (cold), 27 °C (control), and 33 °C (warm) over a 30 day period. At each 15-day interval (T0, T15, and T30), six replicates per condition were killed for biochemical analysis. Immune responses were addressed by studying the activity of phenoloxidase (PO) and prophenoloxidase (ProPO) in the coelomic fluid. Antioxidant defence responses—catalase (CAT), superoxide dismutase (SOD), and glutathione reductase (GR) enzymatic activities—were measured in the muscle and respiratory tree tissues, whereas oxidative damage was evaluated by measuring levels of superoxide radicals (ROS), DNA-strand breaks and lipid peroxidation (LPO). Juvenile H. scabra increased SOD and PO activities when temperature was elevated, and revealed low levels of ROS and damage in both cold and warm treatments throughout the experiment, confirming the organism’s moderate thermal stress. After the short acclimation period, the immune and antioxidant responses prevented damage and maintained homeostasis. This multi-biomarker approach highlights its usefulness to monitor the health of H. scabra and to gain insight concerning the use of this high-valued species in global-scale aquaculture from different temperature regions.

Crustal Structure Along Sunda-Banda Arc Transition Zone from Teleseismic Receiver Functions

Abstract: We analyzed receiver function of teleseismic events recorded at twelve Indonesian-GEOFON (IA-GE) broadband stations using nonlinear Neighbourhood Algorithm (NA) inversion and H-k stacking methods to estimate crustal thickness, Vp/Vs ratios and S-wave velocity structure along Sunda-Banda arc transition zone. We observed crustal thickness of 34–37 km in Timor Island, which is consistent with the previous works. The thick crust (> 30 km) is also found beneath Sumba and Flores Islands, which might be related to the arc-continent collision causing the thickened crust. In Timor and Sumba Islands, we observed high Vp/Vs ratio (> 1.84) with low velocity zone that might be associated with the presence of mafic and ultramafic materials and fluid filled fracture zone. The high Vp/Vs ratio observed at Sumbawa and Flores volcanic Islands might be an indication of partial melt related to the upwelling of hot asthenosphere material through the subducted slab.