Judul: De Novo Assembly of Sengon (Falcataria moluccana Miq.) Reference Genome
Abstrak: Sengon (Falcataria moluccana Miq.) merupakan komoditas unggulan hutan rakyat yang berpotensi dikembangkan menjadi jenis unggulan industri perkayuan. Serangan boktor (Xystrocera festiva) menjadi ancaman besar yang dapat menurunkan produksi hingga 100%. Pengendalian molekuler yang didukung perkembangan teknologi dapat digunakan untuk mengetahui gen-gen resisten yang mendukung program pemuliaan sengon. Penelitian ini bertujuan menyusun sekuens genom referensi sengon secara de novo dan mengidentifikasi keberadaan gen Alpha-amylase inhibitor (AI) dan Trypsin inhibitor (TI) pada sekuens genom yang disusun. Penyusunan genom dilakukan dengan sequencing DNA, pengecekan kualitas reads data, genom assembly, dan anotasi genom. Ray assembler memiliki cakupan genom yang terbaik walaupun sebgaian besar gen BUSCOnya tidak lengkap diterjemahkan. Terdapat dua sekuens yang mengandung gen Alpha-amylase Inhibitor (AI) dan 19 sekuens mengandung gen Trypsin Inhibitor (TI)., Sengon (Falcataria moluccana Miq.) is a leading commodity for community forests and potential to be developed into a superior type on timber industry. The presence of boktor (Xystrocera festiva) is major threat to this commodity that can reduce production up to 100%. Molecular control supported by technological developments can be used to determine resistance genes to support breeding program. This study aims to compile de novo reference genome of sengon and identify the presence of Alpha-amylase inhibitor (AI) and Trypsin inhibitor (TI) genes in the compiled genome sequence. The genome assembly methods by DNA sequencing, quality control of reads data, genome assembly, and genome annotation. Ray assembler has the best genome coverage although the completeness of the BUSCOs gene is widely classified as missing gene. There were two sequences containing the Alpha-amylase Inhibitor (AI) gene and 19 sequences containing the Trypsin Inhibitor (TI) gene.
Keyword: alpha-amylase inhibitor, Falcataria moluccana, next generation sequencing, trypsin inhibitor, whole genome sequencing

Judul: Analisis Transkriptomik Pohon Sengon (Falcataria moluccana Miq.) Rentan dan Resisten terhadap Hama Boktor (Xystrocera festiva Pascoe).
Abstrak: Sengon (Falcataria moluccana Miq.) plantations in monoculture system has increases boktor (Xystocera festiva Pascoe) pest population and distribution, however there is no effective and efficient control method yet. This study aims to analyze sengon transcriptomic data and identify expressed genes involved in sengon resistance to boktor pests, also other genes related to abiotic and biotic stresses. Unpublishe de novo transcriptomic data was acquired using the RNAseq and deposited in the DDBJ repository with accession number DRA008389. DEG analysis was perfomed using R program with edgeR package. The results of gene screening were then annotated using genes analog with the Swissprot database. DEG analysis produced 6859 upregulated contigs, genes in resistant tree were Heat shock cognate 70 kDA protein, Trypsin inhibitor, and Chalcone synthase. Based on previous research, trypsin inhibitor is a defensive mechanism of sengon against boktor pests, while other genes are known to be involved in the abiotic and biotic stress response.
Keyword: de novo transcriptomic, Falcataria moluccana Miq, trypsin inhibitor, Xystocera festiva Pascoe

Judul: Hamiltonian formulation for linear waves motion in two layers fluid
Abstrak: The surface wave could be considered as a wave that separates two fluids, namely water and air. Based on this assumption, it is introduced the interfacial wave, a wave between two layers of fluid with different density. The formulation of interfacial waves motion begins with deriving the base equation of irrotational ideal fluid. Furthermore, according to irrotational fluid assumption, the base equation can be stated in velocity potential. In this derivation, the fluids domain is assumed to be restricted by rigid lid boundary conditions, both at the upper and lower limit. Therefore, the interfacial waves motion can be explained in a hamiltonian formulation. In the hamiltonian formulation, total energy is defined as the sum of kinetic and potential energy. The hamiltonian system is obtained from reduction of kinetic energy by using the Dirichlet Neumann Operator. The resulted kinetic energy equation is nonlinear. Therefore, this form is linearized by first part of the Taylor expansion. This linearization gives a dispersion relation of linear wave. Based on this dispersion relation, the phase speed of the linear wave depends on the density ratio of the two layers fluid.
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