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Abstrak :
This book draws together some mathematical ideas that are useful in population genetics, concentrating on a few aspects which are both biologically relevant and mathematically interesting.

Abstrak :
Fifteen rhizopus oligosporus isolated were isolated from a number of tempeh samples obtained from Mataramm Jember an d Bogor Indonesia;....

Abstrak :
Penelitian keragaman genetik udang mantis di Perairan Pelabuhan ratu dan Cirebon telah dilakukan pada bulan Februari ndash; November 2016. Penelitian ini bertujuan untuk mengetahui keragaman genetik udang mantis di perairan Pelabuhan ratu dan Cirebon. Identifikasi udang mantis menggunakan karakter morfologi dan DNA barcoding dengan menggunakan Cytochrome oksidase sub unit I COI . Analisis karakter morfologi menggunakan software PAST v.3.14 Paleontological Statistics dengan metode cluster. Rekonstruksi pohon filogenetik menggunakan software MEGA 6 dengan metode Neighbour Joining berdasarkan model Tamura-3 paramater dengan bootstrap 1000 kali. Hasil penelitian menunjukkan bahwa stomatopoda yang ditemukan dari lokasi pengambilan sampel terdiri atas Harpiosquilla harpax, Oratosquilla oratoria, Oratosquillina gravieri dan Harpiosquilla annandalei. Rata-rata kelimpahan larva Stomatopoda di perairan Cirebon pada stasiun I, II, III dan IV masing-masing 0,047; 0,018; 0,003 dan 0,003 ind/m3sedangkan larva di perairan Pelabuhan ratu hanya ditemukan di stasiun IV sebanyak 0,003 ind/m3. Hasil dendogram karakter morfometrik terdiri atas tiga kelompok, yaitu kelompok H. harpax Cirebon - H.harpax Pelabuhan ratu , kelompok O. oratoria-H. annandalei, dan kelompok O. gravieri. Kesamaan pada kelompok H. harpax dari Cirebon dan Pelabuhan ratu sebesar 94,5 sedangkan H. annandalei ndash; O.oratoria sebesar 92,5 . Hasil rekonstruksi filogenetik yang dibentuk berdasarkan sekuen yang sudah dicocokkan pada Gene bank yaitu terdiri atas 2 genus yaitu Harpiosquilla dan Oratosquilla. ...... The study of genetic diversity mantis shrimp in the Pelabuhan Ratu and Cirebon waters was conducted in February November 2016. This study aimed to determine the genetic diversity of the mantis shrimp in the Pelabuhan Ratu and Cirebon waters. Mantis shrimp was identified using morphological characters and DNA barcoding used Cytochrome Oxidase subunit I COI . Analysis character morphological were done using PAST software v.3.14 Paleontological Statistics cluster method. Reconstruction of the phylogenetic tree used MEGA software 6 with Neighbour Joining method based on the model of Tamura 3 parameters by bootstrapping 1000 times. The results showed that stomatopods found from sampling sites consist of Harpiosquilla harpax, Oratosquilla oratoria, Oratosquillina gravieri and Harpiosquilla annandalei. The average abundance of larvae stomatopoda were found in Cirebon waters at station I, II, III and IV 0,047 0,018 0.003 and 0.003 ind m3, respectively, while in the Pelabuhan ratu water fourth station were found as much as 0,003 ind m3. Dendogram of morphometric character consists of three groups, namely H. harpax Cirebon H. harpax Pelabuhan ratu , O. Oratoria H. annandalei group, and the group O. gravieri. Similarities were found H.harpax group of Cirebon and Pelabuhan Ratu as much as 94.5 while H. annandalei O. oratoria was 92.5 . The results of phylogenetic reconstruction were formed by sequences that have been matched in the Gene bank which consists of two genera, Harpiosquilla and Oratosquilla.

Abstrak :
Penelitian mengenai kajian keragaman genetik, aspek pertumbuhan dan reproduksi udang mantis di perairan Teluk Banten Serang Propinsi Banten sebagai upaya konservasi dalam pengelolaan sumber daya udang mantis, khususnya Harpiosquilla raphidea telah dilakukan dari bulan Desember 2011 sampai dengan September 2013. Penelitian bertujuan untuk mengkaji dan mengetahui aspekaspek biologi populasi (keragaman genetik, aspek pertumbuhan dan reproduksi). Penelitian dilakukan mengunakan metode survei dan purposive sampling. Lokasi pengambilan sampel udang mantis Harpiosquilla raphidea di perairan Teluk Banten (Provinsi Banten). Hasil Penelitian menunjukkan bahwa keragaman morfologi udang mantis (H. raphidea) yang terekspresi dari perbedaan karakter ukuran tubuh, dari 22 karakter morfologi 20 karakter morfologi berbeda sangat nyata sedangkan 2 karakter lainnya tidak berbeda nyata yaitu lebar abdomen ruas kelima (ASL) dan ruas keenam (ASN). Analisis sekuens nukleotida daerah COI mtDNA udang mantis H. raphidea diperoleh sekuens udang mantis H. raphidea asal Indonesia yang saat ini belum ada di Gene Bank. Pola pertumbuhan udang mantis relatif sama antara jantan dan betina Allometrik (-). Laju pertumbuhan udang mantis Harpiosquilla raphidea tidak jauh berbeda dengan udang mantis lainnya dari Ordo Stomatopoda. Rentang hidup udang mantis di Teluk Banten relatif lebih panjang (5,6 -- 6,7 tahun), dengan nilai pertumbuhan (K) udang mantis jantan lebih tinggi dibandingkan betina. Faktor kondisi udang betina lebih tinggi dari pada jantan dengan nilai pertumbuhan (L¥) antara jantan dan betina pada kisaran yang sama adalah sebesar 369,08 mm. Tingkat kematangan gonad (TKG) udang mantis H. raphidea terindentifikasi dalam empat tingkat perkembangan. Ukuran matang gonad pertama udang mantis betina 199 mm dan udang mantis jantan adalah 230 mm. Udang mantis betina pada TKG II, III dan IV memiliki fekunditas berkisar 24,600--76,809 dengan rata-rata fekunditas 54,082±13,456 butir, sedangkan diameter telur pada TKG III, 510 ?675 μm dengan rata-rata diameter 574 ±6.98 μm. Pengelolaan sumber daya udang mantis di Teluk Banten diarahkan pada kegiatan perbaikan populasi melalui kegiatan konservasi atau upaya domestikasi. Upaya konservasi polulasi melalui pengendalian penangkapan berdasarkan ukuran tangkapan dengan perbaikan habitat serta upaya domestikasi. Populasi Teluk Banten dapat dijadikan sebagai sumber induk dan dapat disilangkan dengan populasi Jambi sebagai selective breeding. ...... This study describes the variation in quantitative characters of both Harpiosquilla raphidea only from different location in Indonesia Research on the study of genetic diversity growth and reproductive aspects of mantis shrimp in the waters of the Banten Bay Banten Province as an initial effort in the mantis shrimp resource management particularly Harpiosquilla raphidea been done. The study aims to assess and determine aspects of population biology genetic differentiation growth and reproductive biology aspects The study was conducted from December 2011 to September 2013 using the survey method and purposive sampling Sampling sites Harpiosquilla raphidea mantis shrimp in the waters of the Banten Bay Banten Province For comparison samples were taken mantis shrimp in the waters of Kuala Tungkal Jambi waters Gebang Kulon Cirebon West Java and water Kubu Raya Pontianak West Kalimantan especially for the analysis of genetic differentiation Research addressing the diversity of morphology of mantis shrimp H raphidea expressed from differences in body size characters morphometric 20 morphometric characters of 22 different characters are very real and 2 were not significantly different character is the fifth segment of the abdomen width ASL and a sixth segment ASN Value farthest distance Banten Bay population is the population of Edinburgh while the population closest to Cirebon Nucleotide sequence analysis of mtDNA COI region of 4 mantis shrimp population dendrogram obtained with the 3 groups clusters first main cluster consisting population Cirebon Jambi Pontianak second cluster population and the third cluster Banten Bay population Farthest genetic distance values based on mtDNA COI sequences are among the Banten Bay population with a population of Jambi While the population closest to Pontianak Aspects of the growth of mantis shrimp have the same relative weight of the long relationship between male and female is a pattern of allometric growth In general the rate of growth of mantis shrimp Harpiosquilla raphidea almost the same and not much different from other mantis shrimp of the order stomatopods but have a life span that is slightly longer ie 5 6 years to 6 7 years Value growth K is higher than male shrimp shrimp females because the female mantis shrimp growth offset to gonadal development and reproductive organs but from the condition factor obtained higher scores than males meaning that the weight gain is also influenced by the gonads and reproductive organs the female mantis shrimp Value growth L only between males and females in the same range of 369 08 mm Reproductive biology into basic information in an effort to better management and conservation efforts of domestication therefore it is very necessary to search the biological aspects of reproduction So the reproductive biology research can provide data and information on the morphological and histological characteristics of gonadal female mantis shrimp and mantis shrimp male Harpiosquilla rahpidea so levels and gonad maturity index can be determined Gonadal matury level of mantis shrimp H raphidea identified in four stages of development Size mature gonads first female mantis shrimp mantis shrimp 199 mm and males is 230 mm Gonadal matury level of mantis shrimp females in II III and IV have fecundity ranged from 24 600 to 76 809 with an average of 54 082 13 456 grains fecundity whereas the diameter of the eggs at Gonadal matury level of III 510 675 m with an average diameter of 574 6 98 mDescriptive method with univariate and multivariate analyses based on quantitative character ratio was used in this study The study aims to assess the distribution of population structure growth and exploitation rate of mantis shrimp Harpiosquilla raphidea Fabricius 1798 Growth coefficient K H raphidea is 0 16 for males and 0 14 for females and Loo is 369 08 same for males and females The value K mantis shrimp H raphidea is same relatively with some other mantis shrimp species such as Squilla mantis Oratosquilla oratoria and O stephensoni but H raphidea have longer life span wich is 5 5 to 6 7 years Mantis shrimp Harpiosquilla raphidea in an abundant marine crustacean in Indonesia It is common amng the most important predators in many shallow tropical and subtropivcal marine habitats The objective of theis study is to provide information on the histological characteristics of the ovary of female mantis shrimp Harpiosquilla rahpidea and spanwned egg The ovaries and spermatogonia a pronounced macroscopic differentiation in size and color with maturation of the ovary and spermatogonia in four developmental The average size of female 199 mm and males mantis shrimp first maturity is 230 mm Female mantis shrimp has a relatively small fecundity which is ranged from 24 600 to 76 809 eggs and eggs diameter in matury stage III is ranged from 510 to 675 m Mantis shrimp resource management in Banten Bay are focused on the repair and conservation of the population Polulasi conservation improvements with domestication and control efforts based on the size of the catchment arrest Banten Bay population may serve as a source of stem and can be crossed with a population of Pontianak and Jambi Recommendations effort did domestication activities in Banten Bay waters can be done by using floating cages enlargement of selected activities on measures that category have not entered the market or small 12 cm Key words genetic diversity growth and reproductive aspects mantis shrimp Banten Bay

Abstrak :
Genes related to starch synthesis and the metabolism contribute to a variety of physicochemical properties that determine the eating/cooking qualities of rice. Our previous study suggested that a set of molecular markers was able to estimate the eating quality of japonica rice. The present study reports the genetic diversity of 22 japonica rice varieties based on markers corresponding to starch synthesizing genes. The mean of the polymorphic information content (PIC: 0.135) value and the diversity index (0.171) indicated a low genetic diversity in these varieties. The phylogenetic tree clearly demonstrated three main clusters: 1) cluster I contained seven varieties with similar physicochemical properties; 2) cluster II only showed a Japanese variety, Koshihikari, and 3) cluster III included the most Korean varieties (14 varieties). This phylogenetic analysis did not completely represent the physicochemical properties differentiation of the japonica varieties, although it did reveal an initial clue to the close relationship between Korean rice and the Japanese and Chinese varieties. Notably, these markers were also able to identify a premium japonica rice. The molecular markers and information concerning the genetic relationship would be useful in improving the japonica rice along with its starch quality of in breeding program.

Keragaman Genetik Padi Japonica berdasarkan Marka terkait Gen Sintesis Pati. Gen terkait sintesis dan metabolism pati berkontribusi pada berbagai sifat fisiko-kimia yang menentukan mutu rasa dan hasil masak (cooking) beras. Penelitian sebelumnya menunjukkan bahwa satu set marka molekuler mampu memprediksi mutu rasa beras japonica. Pada studi ini dilaporka keragaman genetik 22 varietas padi japonica berdasarkan marka untuk gen-gen pensintesis pati. Rata-rata nilai polymorphic information content (PIC:0,135) dan indeks keragaman (0,171) menunjukkan keragaman genetik yang rendah dalam varietas padi ini. Pohon filogenetik menunjukkan tiga kelompok utama yang dibentuk: 1) klaster I terdiri dari tujuh varietas dengan sifat fisikokimia yang mirip; 2) klaster II hanya terdiri dari verietas premium Jepang, Koshihikari, dan 3) klaster III mengelompokkan sebagian besar varietas Korea (14 varietas). Analisis filogenetik ini belum sepenuhnya menggambarkan diferensiasi varietas japonica berdasarkan sifat fisiko-kimia, namun hasil ini mengungkapkan petunjuk awal korelasi yang erat antara padi Korea dengan varietas Jepang dan Cina. Marka-marka tersebut juga mampu mengidentifikasi beras premium japonica. Marka molekuler dan informasi kekerabatan genetik ini akan berguna dalam membantu mengembangkan padi japonica terkait dengan mutu pati dalam program pemuliaan

Abstrak :
Penelitian ini bertujuan untuk mengetahui keragaman genetik dan kekerabatan ikan cupang menggunakan sekuens Cytochrome Oxidase I. Keragaman genetik diketahui menggunakan sekuens Cytochrome Oxidase I. Amplifikasi Cytochrome Oxidase I dilakukan menggunakan primer HCO dan LCO dengan hasil sekuens yang diperoleh berukuran 680 pb. Hasil alignment sekuens menunjukkan keragaman genetik yang kurang signifikan pada B. imbellis, sedangkan pada B. pallifina, B. patoti, dan B. unimaculata menunjukkan keragaman yang cukup signifikan. Tiga spesies ikan cupang dari Kalimantan memiliki kekerabatan yang dekat. Namun demikian, kekerabatan ikan cupang dari Kalimantan dengan ikan cupang dari Sumatera cukup jauh. ...... This study aims to determine the genetic diversity and kinship of fighting fish using Cytochrome Oxidase I. Cytochrome Oxidase I is used to know the genetic diversity of fighting fish. Primer HCO and LCO were used to amplify 680 bp of Cytochrome Oxidase I. The results of sequence alignment showed less significant genetic diversity for B. imbellis, whereas B. pallifina, B. patoti, and B. unimaculata show significant diversity. Three species of fighting fish from Kalimantan are closely related. However, the kinship of fighting fish from Kalimantan with fighting fish from Sumatra are far enough.

Abstrak :
Studi keragaman genetik dilakukan untuk mengetahui hubungan kekerabatan bakteri asam laktat indigenos Indonesia yang memiliki kemampuan resistansi terhadap chloramphenicol dan erythromycin. Hasil uji resistansi menunjukkan bahwa isolat DH1, DH7, dan S34 resistan terhadap chloramphenicol (5 μg/ml), sedangkan isolat T8 resistan terhadap erythromycin (15 μg/ml). Isolat D2, S23, dan T8 diketahui resistan terhadap kombinasi chloramphenicol dan erythromycin (1 μg/ml). Analisis BLAST menunjukkan bahwa isolat bakteri asam laktat terdiri atas Lactobacillus plantarum, L. fermentum, Pediococcus acidilactici, dan P. pentosaceus. Analisis pohon filogenetik diketahui bahwa isolat D2, S12, S34, T3, dan T8 memiliki kekerabatan yang dekat dengan L. plantarum. Isolat R31 dan DH1 memiliki kekerabatan yang dekat dengan L. fermentum. Isolat LK14, S23, R24, DH7,DS13, GR3, HB3 memiliki kekerabatan yang dekat dengan genus Pediococcus.

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Study on genetic diversity was useful to determine the kinship of Indigenous Indonesia lactic acid bacteria which have the capability of resistance to chloramphenicol and erythromycin. The resistance test showed isolates DH1, DH7, and S34 that were resistant to chloramphenicol (5 μg/ml), whereas T8 was resistant to erythromycin (15 μg/ml). Isolates D2, S23, and T8 were remain resistant to the combination of chloramphenicol and erythromycin (1 μg/ml). The results of BLAST analysis showed that there were four different species of lactic acid bacteria, such as Lactobacillus plantarum, L. fermentum, Pediococcus acidilactici, and P. pentosaceus. The results of phylogenetic trees analysis showed that isolates D2, S12, S34, T3, and T8 have a close kinship with L. plantarum, whereas isolates R31 and DH1 have a close kinship with L. fermentum. Moreover, isolates LK14, S23, R24, DH7, DS13, GR3, HB3 have a close kinship to the genus Pediococcus.

Abstrak :
The relationships among allium L. species remain complex. Certain species belonging to the genus allium are medically and economically important and as such merit phylogenetic analysis....