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Biodiversitas Journal of Biological Diversity
Published by Universitas Sebelas Maret
ISSN : 1412033X     EISSN : 20854722     DOI : https://doi.org/10.13057/biodiv/d230231
Core Subject : Science, Agriculture,
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology
The Biodiversitas Journal was first published in 2000 by the Department of Biology, FMNS, Universitas Sebelas Maret, Surakarta, Indonesia, then in 2006 it was co-published by the Society for Indonesian Biodiversity and that department; since 2017 it was also hosted by Smujo. From 2003-2012 it was accredited by DGHE, Ministry of Education, R.I., since 2014 was indexed by Scopus, where DOAJ and Google Scholar was indexed first.
Arjuna Subject : Biokimia, Genetika dan Biologi Molekuler - Biokimia, Genetika dan Biologi Molekuler (Lain-Lain)
Articles 6,269 Documents
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Record of shallow-water sponges in Simeulue Island, Aceh Province, Indonesia EDWIN SETIAWAN; FARID KAMAL MUZAKI; AWIK P.D. NURHAYATI; NOVA MAULIDINA
Biodiversitas Journal of Biological Diversity Vol. 20 No. 11 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d201117

Abstract

Abstract. Setiawan E, Muzaki FK, Nurhayati APD, Maulidina N. 2019. Record of shallow-water sponges in Simeulue Island, Aceh Province, Indonesia. Biodiversitas 20: 3246-3257. The first and present study on shallow water sponges in Simeulue islands, Aceh Province, Indonesia recorded more than twenty species of marine sponges. This first assessment was also part of Ekpedisi Widya Nusantara X (E-WINN X) coastal chapter 2017 where was conducted in Simeulue islands, Aceh. Most of the recorded sponges are common species that are also recognized inhabiting a broad distribution in the West Indo-Pacific marine ecoregion. All recorded shallow-water sponges are Demospongian sponges. Among the three selected types of shallow water sponge habitats, a number of sponges are achieved mostly in shallow reefs in comparison to sandy and mangrove lagoons. The current study on species recorded also documents general characteristic enriches and highlights the importance of filling the gaps in distributional patterns of sponges on the west coast of Sumatra.
The potential of yeasts from the oil-contaminated soil and mangrove rhizosphere for degrading crude oil NUR HIDAYATUL ALAMI; LUTHFI LAILATUL MAULIDIYA; N D KUSWYTASARI; ENNY ZULAIKA; MAYA SHOVITRI
Biodiversitas Journal of Biological Diversity Vol. 20 No. 7 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200707

Abstract

Abstract. Alami NH, Maulidiya LL, Kuswytasari ND, Zulaika E, Shovitri M. 2019. The potential of yeasts from the oil-contaminated soil and mangrove rhizosphere for degrading crude oil. Biodiversitas 20: 1833-1838. Bioremediation of crude oil contaminated soil eventually depends on the activities of microorganisms to degrade contaminants. Bioaugmentation, through the addition of microbial culture to contaminated soil, can be used to enhance degradation rates. This research aimed to determine the effect of yeast formulations isolated from the oil-contaminated soil and mangrove rhizosphere to degrade crude oil and evaluate the most effective yeast formulation and incubation timefor crude oil degradation. This research was conducted by subculturing yeast in the slant agar medium, screening hydrocarbonoclastic yeast in crude oil- Bushnell Hass Mineral Salt (BHMS) medium, biodegradation test, measuring the total cell number with Total Plate Count (TPC), Total Petroleum Hydrocarbon (TPH) test with the gravimetric method, and measuring soil moisture content. The design of the research was Completely Randomized Factorial Design with 3 replications. Data were analyzed quantitatively by using statistical tests for TPC and TPH, while a descriptive qualitative test analyzed soil moisture. The result showed that yeast formulation and incubation time affected crude oil degradation. An effective yeast consortium for oil degradation is T20 consortium with an incubation period of 30 days, which result in 72.26 % oil degradation.
The diversity and physiological activities of weeds in land cultivated with various corn cultivars and fertilized with various nitrogen doses MUJI RAHAYU; PRAPTO YUDONO; DIDIK INDRADEWA; EKO HANUDIN
Biodiversitas Journal of Biological Diversity Vol. 20 No. 3 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200302

Abstract

Abstract. Rahayu M, Yudono P, Indradewa D, Hanudin E. 2019. The diversity and physiological activities of weeds in land cultivated with various corn cultivars and fertilized with various nitrogen doses. Biodiversitas 20: 622-628. Both weeds and corn have nutrient needs. Nitrogen is one of the essential elements required by weeds and corn. Each corn cultivar and weed also has different ability to absorb nitrogen. This study aimed to determine the effect of corn cultivar and nitrogen dose on the diversity and physiological activities of weeds. The research was conducted in Banguntapan, Bantul, Yogyakarta from December 2016 to May 2017. The study used a completely randomized block design with 2 factors with three replications. The first factor was corn cultivar, consisting of four cultivars (Bisi 18, NK 33, DK 95 and Sukmaraga) and the second factor was the nitrogen dose, consisting of three levels (25 kg N ha-1, 150 kg N ha-1 and 275 kg N ha-1). The data were analyzed using 5% variance analysis and continued with Duncan test at 5% level. The results showed that the most commonly found weeds were broadleaves, but the most dominant weed was a grass, namely Dactyloctenium aegyptium, except Sukmaraga with nitrogen doses of 25 kg ha-1 and 150 kg ha-1 in 4 weeks after planting (WAP). In 8 WAP, weeds that grew in land planted with all combinations of cultivars and nitrogen doses were Cyperus rotundus, Dactyloctenium aegyptium, Digitaria ciliaris, Eleusine indica, Eragrostis tenella, Amaranthus spinosus, and Richardia scabra. There were no significant differences on the nitrate reductase activity, chlorophyll content, leaf area index, and dry weight among cultivars. The treatment of 25 kg N ha-1 resulted in the lowest leaf area index and total chlorophyll content, but the highest nitrate reductase activity.
Short communication: The diversity of ureolytic bacteria isolated from limestone in East Java, Indonesia based on amino acid sequences encoded by ureC ENNY ZULAIKA; M. A. PRIO UTOMO; N. HIDAYATUL ALAMI; N. DWIANITA KUSWYTASARI; MAYA SHOVITRI; RIDHO BAYUAJI; ENDRY N. PRASETYO
Biodiversitas Journal of Biological Diversity Vol. 20 No. 8 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200829

Abstract

Abstract. Zulaika E, Utomo MAP, Alami NH, Kuswytasari ND, Shovitri M, Bayuaji R, Prasetyo EN. 2019. Short communication: The diversity of ureolytic bacteria isolated from limestone in East Java, Indonesia based on amino acid sequences encoded by ureC. Biodiversitas 20: 2316-2320. Ureolytic bacteria isolated from limestone are capable to produce urease enzyme which can breaks down urea into carbonate (CO32), has been utilized for various building material bioremediation and restoration. In this present study, we figured out the diversity and genetic relationship of ? sub-unit ureC gene among six ureolytic bacteria (JA1, JB2, JB3, JA4, AK4, and SU1) which were isolated from limestone area in East Java province. PCR was conducted to detect the gene which encoded active site of urease, ureC. Followed by sequences translation using BLAST-X (Basic Local Alignment Search Tool) based on the name and function of formed proteins and then aligned to the conserved domain database. Furthermore, the functions and characters of formed proteins were described. Based on PCR results, all isolates showed 340 bp DNA band which indicate the presence of ureC gene. The results of BLAST-X, JB2 isolates showed 100% similarity with the ? sub-unit ureC gene from Lysinibacillus sphaericus B1-CDA (WP_054549252.1). Whereas, JA1 isolates showed 88% similarity (lowest) with the ? sub-unit ureC gene from Bacillus cihuensis FJAT-14515 (WP_028391929.1). The present study reveals that ureC phylogeny can be used in order to investigate ureolytic bacteria species which isolated from calcareous area in East Java province.
The potential of indigenous bacteria from oil sludge for biosurfactant production using hydrolysate of agricultural waste NI’MATUZAHROH NI’MATUZAHROH; SILVIA KURNIA SARI; IRINE PUSPA NINGRUM; APRILLA DILA PUSFITA; LISA MARJAYANDARI; NASTITI TRIKURNIADEWI; SYAHRIAR NUR MAULANA MALIK IBRAHIM; FATIMAH FATIMAH; TRI NURHARIYATI; TINI SURTININGSIH; HANIF YULIANI
Biodiversitas Journal of Biological Diversity Vol. 20 No. 5 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200529

Abstract

Abstract. Ni’matuzahroh, Sari SK, Ningrum IP, Pusfita AD, Marjayandari L, Trikurniadewi N, Ibrahim SNMM, Fatimah, Nurhariyati T, Surtiningsih T, Yuliani H. 2019. The potential of indigenous bacteria from oil sludge for biosurfactant production using hydrolysate of agricultural waste. Biodiversitas 20: 1374-1379. Biosurfactants are amphipathic compounds which are useful in various fields of health, industry, and remediation. Biosurfactants are produced by bacteria that grow in hydrocarbon or sugar substrates. Hydrolysis product of agricultural waste can be used as a biosurfactant production medium. This research aims to obtain biosurfactant producing bacteria from Balongan oil sludge, Indonesia. The ability to grow and produce biosurfactant by indigenous bacteria was tested using a medium of Synthetic Mineral Water (SMW) added by 209.3 ppm of rice straw hydrolysis product (RSHP). The growth of bacteria was evaluated through Total Plate Count (TPC) and biosurfactant production was evaluated through measurement of emulsification activity and surface tension. Six indigenous bacteria were capable to produce biosurfactants in the RSHP. Emulsification activity was not detected, but surface tension reduction was founded. The best biosurfactant was indicated by surface tension value of 53.56 mN/m with TPC value of 20.07 CFU/mL at the 5th day of incubation by BP (1) 5. The indigenous bacteria were identified as Propionibacterium BP (1) 1, Propionibacterium BP (1) 3, Bacillus BP (1) 4, Corynebacterium BP (1) 5, Corynebacterium BP (1) 8, and Rothia BP (1) 6. Utilization of sugar as hydrolysis product of agricultural waste is an innovation of raw materials for biosurfactant production.
Ethnobotany of traditional medicinal plants used by Dayak Desa Community in Sintang, West Kalimantan, Indonesia MARKUS IYUS SUPIANDI; SUSRIYATI MAHANAL; SITI ZUBAIDAH; HENDRIKUS JULUNG; BENEDIKTUS EGE
Biodiversitas Journal of Biological Diversity Vol. 20 No. 5 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200516

Abstract

Abstract. Supiandi MI, Mahanal S, Zubaidah S, Julung H, Ege B. 2019. Ethnobotany of traditional medicinal plants used by Dayak Desa Community in Sintang, West Kalimantan, Indonesia. Biodiversitas 20: 1264-1270. Dayak Desa community has a long history of using medicinal plants as one of the methods to overcome health problems. Along with the advancement of science, the influx of foreign cultures and environmental degradation, traditional knowledge about medicinal plants and their utilization are only owned by the old generation. This study, therefore, aimed to identify medicinal plants used by Dayak Desa community who lives in Pakak Village. To collect information from the community, a survey was conducted in June 2017. Snowball sampling method was utilized to select 6 informants from whom information related to the plants’ local names, the used parts of the plants, and the ways of managing and using the plants for curing illnesses was obtained through structured interviews. Data analysis was qualitative and quantitative. The results show that 25 species of medicinal plants from 9 families. The most widely used part of the plants is the leaves. The people in the community boil the leaves and drink the extract. Based on the results of the ICS analysis, the plant's value ranged from 1 to 24. The highest value was observed in keladi (Colocasia esculenta L.) and the lowest value was found in kayu kenanga (Canangium odoratum Baill).
The effect of gamma rays irradiation on diversity of Musa paradisiaca var. sapientum as revealed by ISSR molecular marker MARIA SERVIANA DUE; ARI SUSILOWATI; AHMAD YUNUS
Biodiversitas Journal of Biological Diversity Vol. 20 No. 5 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200534

Abstract

Abstract. Due MS, Susilowati A, Yunus A. 2019. The effect of gamma rays irradiation on diversity of Musa paradisiaca var. sapientum as revealed by ISSR molecular marker. Biodiversitas 20: 1416-1422. Pisang Ambon (Musa paradisiaca var. sapientum (L.) Kunt.) is one of the horticultural commodities that have high production in Indonesia, making it a superior product. Bananas are propagated vegetatively, which hampers the production of genetic variation and requires a long generation time in the vegetative cycle. This study aimed to determine the diversity of Pisang Ambon induced by gamma radiation of various dosages (10 Gy, 20 Gy and 30 Gy) in vitro based on the ISSR (Inter-Simple Sequence Repeats) marker. The results showed that gamma-ray radiation influenced the morphological properties of plant height, stem diameter, leaf length, leaf width and leaf number based on ANOVA variance analysis. Increased growth occurs in plants with radiation doses of 10 Gy and 20 Gy. The molecular analysis of ISSR uses 6 primers, namely ISSR 835, ISSR 836, ISSR 846, ISSR 847, ISSR 848 and ISSR 855. Of the 6 primers, only 2 primers were able to produce polymorphisms above 50%. A total of 9 bands were produced, in which 8 bands showed polymorphic with a percentage of 90%. The similarity matrix ranged from 0.25-0.93, indicating the level of variation between mutants. The result of dendrogram was divided into two groups with a coefficient distance of 0.47-0.93; plants at a dose of 10 Gy have the highest diversity with the furthest coefficient of diversity distance of 0.47.
DNA barcoding reveals underestimated species diversity of mantis shrimp larvae (stomatopods) in Banten Bay, Indonesia ABINAWANTO ABINAWANTO; MARIANA D. BAYU INTAN; WISNU WARDHANA; ANOM BOWOLAKSONO
Biodiversitas Journal of Biological Diversity Vol. 20 No. 6 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200637

Abstract

Abstract. Abinawanto, Intan MDB, Wardhana W, Bowolaksono A. 2019. DNA barcoding reveals species diversity of mantis shrimp larvae (stomatopods) from Banten Bay, Indonesia. Biodiversitas 20: 1758-1763. Larvae of stomatopods can be morphologically identified by linking between larval and adult form, but it's difficult applied in the laboratory because of requirement of condition to rearing larvae collected either from plankton, or spawning adults in the laboratory. Molecular methods are the alternative approach to gather accurate taxonomic identification. One of molecular methods is DNA barcoding based upon sequence diversity in cytochrome c oxidase subunit 1 (COI). Research on stomatopod larvae diversity and distribution at six stations in Banten Bay has been studied from October 2013 to March 2014. This study was conducted to identify the diversity of stomatopod larvae through DNA barcoding and also to examine the distribution of stomatopod larvae in Banten Bay. DNA barcoding was used to identify mantis shrimp larvae in Banten Bay, Indonesia. Partial mitochondrial COI were obtained for 37 larvae, revealing five distinct molecular operational taxonomic units (MOTUs). All MOTUs distinctively fell into Squillidea clade. Two Molecular Operational Taxonomic Units, MOTUs were successfully identified to species level (i.e. Anchisquilla fasciata), while three others remained identified to genus level (i.e. Stomatopoda spp). The intraspecific variation of COI ranged from 0% to 3.1% (Kimura 2-parameter distance), whereas interspecific divergence ranged from 5.9% to 20.4%. These results imply that COI genes are suitable for species identification of stomatopod larvae in this area, though the number of unidentified species was higher than the identified ones. This is likely because of the limited database in GenBank. In addition, the two identified species represents new records for this area, suggesting that the mantis shrimp in the area have been underestimated based on traditional biodiversity measures. We recommend to develop a taxonomically-comprehensive DNA barcoding database to improve the accuracy and feasibility of using DNA barcoding for species identification of Indonesia mantis shrimps.
Local knowledge on landscape sustainable-hydrological management reduces soil CO2 emission, fire risk and biomass loss in West Kalimantan Peatland, Indonesia DWI ASTIANI; MOHAMMAD J TAHERZADEH; EVI GUSMAYANTI; TRI WIDIASTUTI; BURHANUDDIN BURHANUDDIN
Biodiversitas Journal of Biological Diversity Vol. 20 No. 3 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200316

Abstract

Abstract. Astiani D, Taherzadeh MJ, Gusmayanti E, Widiastuti T, Burhanuddin. 2019. Local knowledge on landscape sustainable-hydrological management reduces soil CO2 emission, fire risk and biomass loss in West Kalimantan Peatland, Indonesia. Biodiversitas 20: 725-731.  Local knowledge in managing peatlands, especially in the area of peat hydrology, has been practiced through generations to manage peatlands for agriculture and small scale gardens. Farmers in West Kalimantan have developed the way to conserve water by making simple dams using soil or woody plants to hold water from the peat upstream areas on small channels or rivers. To reduce puddles during rain or tides, people make small trenches, so-called parit cacing in the middle of the larger channel. The trench cross-section size is ~30-40 cm2. This channel can maintain the peat water level to the extent of the depth of the channel. These channels, at the same time, are useful, for a clear, easy land ownership border for one farmer family land. The results of CO2 emissions assessment at various water levels on the peatland landscape demonstrate that the landscape which surrounded by the parit cacing trenches can maintain lower CO2 emissions compared to the one that has deeper water levels. The knowledge to develop this channel has also reduced the risk of peatland fire hazard and the amount of peat biomass loss on a fire event. An assessment on the effect of water level on the loss of peat biomass when burned, reduce 30-78% loss risks if compared to water table depth of 60-80cm, which is assumed as general practices on peatland recently. The practices of the knowledge on peatlands hydrology management can reduce the risk of peatland soil CO2 emission as well as loss of peat mass through decomposition and during peat fires.
Short Communication: Genetic diversity of scalloped hammerhead sharks (Sphyrna lewini) landed in Muncar Fishing Port, Banyuwangi FAQIH AKBAR ALGHOZALI; DIAH PERMATA WIJAYANTI; AGUS SABDONO
Biodiversitas Journal of Biological Diversity Vol. 20 No. 4 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200430

Abstract

Abstract. Alghozali FA, Wijayanti DP, Sabdono A. 2019. Short Communication: Genetic diversity of scalloped hammerhead sharks (Sphyrna lewini) landed in Muncar Fishing Port, Banyuwangi. Biodiversitas 20: 1154-1159. The majority of sharks caught in Indonesian fisheries were bycatch products from the tuna longline fisheries, but some regions in Indonesia fish the sharks as their main target. One of these regions is located in Muncar, Banyuwangi, which fishes the endangered Scalloped Hammerhead sharks (Sphyrna lewini) as target species. This research aimed to study the genetic diversity of the endangered Scalloped Hammerhead sharks landed in Muncar Fishing Port, Banyuwangi. Genetic analysis was done through PCR (Polymerase Chain Reaction) amplification and sequencing of the mitochondrial DNA COI (Cytochrome Oxidase subunit I) gene. Out of the 37 samples collected, 30 were successfully amplified and sequenced.The results showed moderate haplotype diversity (Hd: 0,582 ± 0,079) and low nucleotide diversity (?: 0,00392± 0,0024) with five haplotypes (h) and 26 polymorphic sites (S). Tajima’s D neutrality model values indicated a population expansion event. Two different clades were determined through phylogenetic analysis and by GenBank sequences comparison. These results provided basic information and present status of the Scalloped Hammerhead sharks population genetically within the fishing ground (Makassar Strait-Kangean Islands).

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