Judul: Pendekatan Metode Hidroakustik Untuk Analisis Keterkaitan Antara Tipe Substrat Dasar Perairan Dengan Komunitas Demersal
Abstrak: Substrat dasar perairan berperan penting bagi kehidupan biota yang hidup di daerah dasar perairan. Dasar perairan adalah habitat bagi bentos, ikan demersal dan juga biota laut lainnya. Oleh karena itu, akurasi dan kecermatan yang tinggi untuk mengklasifikasikan substrat dasar menjadi penting. Namun data mengenai tipe dasar perairan dan hubungannya dengan biota, khususnya ikan demersal masih sangat kurang. Hal ini disebabkan metode yang dipergunakan secara umum terbatas pada metode grab yang hanya mampu memetakan areal yang sempit berdasarkan stasiun sampling di dasar perairan.
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Judul: Pengukuran dan analisis nilai hambur balik akustik untuk klasifikasi dasar perairan dan hubungannya dengan makrozoobentos di Delta Mahakam
Abstrak: Riverbed substrate is a one of potential abiotic resources. It is useful as habitat, foraging area, and spawning area for most aquatic organisms (Susanto 2000). Riverbed has a very complex substrate composition from small sized substrate into rocky substrate. Over exploitation makes the quality and composition of bottom waters changed. Research on aquatic habitats are usually based on a sampling basis using a corer or a van veen grabber (Romimohtarto and Juwana 2009). But it is not time efficient, covering only narrow area and can be applied only in limited location. One of method that can help to overcome this deficiency is using hydroacoustic technology. Hydroacoustic technology is a technology which used to detect underwater objects by using sound propagation. Acoustic classification system of bottom substrate can predict the substrate type and its geotechnical properties. Hydroacoustic also has been widely used in various applications including marine geology, civil engineering, military science, and fisheries (Lambert et al. 2002; Richardson et al. 2002). This technology is able to provide information regarding the relief of the bottom, fish density, direction and movement of fish, as well as the type of bottom substrate in a relatively rapid and extensive reach. Sea bottom has characteristic in reflecting and scattering sound waves as well as the waters of the sea surface. The resulting effect is more complex due to the nature of the sea floor that is composed of diverse elements ranging from hard rock to soft clay and layers that have different compositions (Urick 1983). Some initial researches on aquatic habitats in Indonesia have been conducted by Manik et al. (2006) using the measurement of surface backscattering strength (SS) of Quantitative Echo Sounder (QES) and the SS value for identification of fish habitat, Pujiyati (2008) which using hydroacoustic method for relationship analysis between bottom substrate types with fish demersal community, Harahap (2010) in quantification of the value of bottom acoustic backscatter using multibeam echosounder, and Allo (2011) which applying the method of Manik et al. (2006) for the quantification and characterization of acoustic backscattering of bottom habitat in the Seribu island. This study was conducted in two phases. The first phase is collection of field data and the second is data processing and analyzing phase. Acoustic data collected were using hydroacoustics instrument SIMRAD EY60 120 kHz frequency and recorded by ER60 software. Sampling substrate was conducted at 9 stations acoustic data recording. Analysis of acoustic data include the value of SV E1, SV E2, and SS. Analysis of the substrate data include the percentage of the fraction (sand, silt, clay), and macrozoobenthos (density, diversity, dominance). Analysis of the relationship between acoustic values, the fraction of the substrate, and macrozoobenthos are using Principal Component Analysis (PCA). The results showed that the type of substrates that are found on sites are sand, muddy sand, sandy mud, and mud. Based on the value of SS for sand (- 12.97 dB), muddy sand (-13.96 dB), sandy mud (-17.14 dB and -15.64 dB), and mud (-30.87 dB to -19.25 dB). It shows also that sand has a high substrate roughness, hardness, and
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Judul: Gene Editing  of Two Cyanide Synthesis-related Genes in Cassava using CRISPR/Cas9
Abstrak: Cassava (Manihot esculenta) contain toxic quantities of cyanogenic glucoside. Reducing the potentially toxic cyanogenic glucoside levels in cassava could be achieved by gene editing through Clustered Regularly Interspaced Short Palindromic Repeats – CRISPR associated protein 9 (CRISPR/Cas9), a high- precision genome editing technique in plants. Two cassava UDP- glucosyltransferase (UGT) paralogs, UGT85K4 and UGT85K5, are the genes catalyzing the synthesis of cyanogenic glucosides in plants. The study aimed to construct the CRISPR/Cas9 recombinant vector carrying single guide RNA (sgRNA) to edit UGT85K4 and UGT85K5 genes, and transform sgRNA CRISPR/Cas9 construct into KU50 cassava calli. Five sgRNAs were designed, considering the on/off target efficiency score and GC content. Those sgRNAs were ligated into pRGEB32 plasmid and introduced to competent Escherichia coli DH5a. The PCR colony and DNA sequencing were performed to verify the sgRNA insert. The amplicons showed the expected band size of recombinant vector (180 bp). Based on sequencing results, only one sgRNA was successfully ligated into the plasmid that will be used to edit the UGT85K5 gene. The sgRNA CRISPR/Cas9 construct in pRGEB32 plasmid was successfully transformed into Agrobacterium tumefaciens and introduced into KU50 cassava calli through co-cultivation. The overgrowth of Agrobacterium occurred after the co-cultivation phase.
Keyword: CRISPR/Cas9, Cyanogenic glucoside, Gene editing, sgRNA