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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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Forest and land fires in Pelalawan District, Riau, Indonesia: Drivers, pressures, impacts and responses HESTI LESTARI TATA; BUDI HADI NARENDRA; MAWAZIN MAWAZIN
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190224

Abstract

Tata HL, Narendra BH, Mawazin. 2018. Forest and land fires in Pelalawan District, Riau, Indonesia: Drivers, pressures, impacts and responses. Biodiversitas 19: 544-551. Pelalawan District of Riau Province, Indonesia was one of the districts most damaged by fire in 2015. Analysis of factors driving the fires, of pressures arising from the fires and of responses to the fires in Pelalawan District was conducted using two approaches: semi-structured interviews regarding social and policy aspects, and analysis of biophysical factors such as soil properties and spatial data. Results showed that forest functions (i.e. the functions served by different forest types) was positively related to hotspot density (R2=0.9868), while distance to nearest road less affected hotspot distribution (R2=0.1612). Multiple regression analysis of the relationship between hotspots density and four variables resulted in the following model: Y = 0.005384 + 0.000021 Soil Type + 0.000019 Distance to Road + 0.000038 Forest Functions + 0.000017 Land Use type. The pressures were expansion for agriculture, plantation and forest encroachment. Despite many negative impacts of fire, the burning practice on peatland could improve the pH and peat soil fertility (particularly ash and P contents). As a response to fire, a standard operational procedure for forest- and land-fire prevention was launched by the Governor of Riau Province in late 2015. A comprehensive and integrated policy package for forest and land fire prevention and control should include a social dimension in order to effectively reduce fire risk in the district.
Short Communication: Molecular characteristic of taro white cattle based on DNA microsatellite markers LUH GEDE SRI SURYA HERYANI; I NENGAH WANDIA; I WAYAN SUARNA; I KETUT PUJA; NI NYOMAN WERDI SUSARI; KADEK KARANG AGUSTINA
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/d200308

Abstract

Abstract. Heryani LGSS, Wandia IN, Suarna IW, Puja IK, Susari NNW, Agustina KK. 2019. Short Communication: Molecular characteristic of taro white cattle based on DNA microsatellite markers. Biodiversitas 20: 671-675. This research was conducted to assess and characterize the genetics of Taro White cattle. Genetic characterizations of this cattle are essential to conservation and breeding program. A total of 18 samples and 4 pairs of microsatellite DNA markers (BM2113, BM1824, INRA023, and ETH225) were amplified by PCR and the products were run on 8% bis-Acrylamide gels. All microsatellite markers were successfully amplified with a mean allelic number of 3.25. Means of observed and expected heterozygosity were found to be 0,25 and 0,628. The Polymorphism Information Content (PIC) values ranged from 0.448 (BM1824) to 0.627 (BM2113) and fixation index were 0.620. The deviation from Hardy-Weinberg equilibrium revealed that Taro White cattle population exhibited significant deviations from Hardy-Weinberg equilibrium (HWE) and possessed a possibility of inbreeding. The microsatellite loci used or focused in the present study further validate their use for evaluation of genetic diversity of Taro White
Short Communication: Genotyping of kdr allele in insecticide resistant-Aedes aegypti populations from West Sumatra, Indonesia HASMIWATI HASMIWATI; SUPARGIYONO SUPARGIYONO
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190225

Abstract

Hasmiwati, Supargiyono. 2018. Short Communication: Genotyping of kdr allele in insecticide resistant-Aedes aegypti populations from West Sumatra, Indonesia. Biodiversitas 19: 552-558. Aedes aegypti, the primary vector of Dengue fever, is widely distributed in Indonesia including in West Sumatra. Chemical insecticide is an effective way of shedding the chain of Dengue fever transmission. Long-term applications of insecticides have resulted in the development of resistance in Ae. aegypti populations. Knockdown resistance (kdr) allele as a result of point mutations has been found in Voltage-Gated Sodium Channel (VGSC) gene. This study aimed to design allele-specific primers to detect the kdr allele mutations. Ae aegypti samples were collected from several dengue endemic areas in West Sumatra. The susceptibility of adult mosquitos to insecticides was determined by bioassays using impregnation paper test with 0.18% malathion and 0.75% permethrin. In this study, we successfully confirmed that the A. populations have point mutations in the VGSC gene corresponding to S989P and V1016G amino acid substitutions. To genotype S989P and V1016G alleles, we designed kdr allele-specific primers based on the sequence of VGSC gene (NCBI Accession number No. EU399179.1. PCR analysis using the kdr allele-specific primers successfully identified the genotype of Ae. aegypti populations resistant to malathion and permethrin in West Sumatra.
Shallow water sponges along the south coast of Java, Indonesia TRI ARYONO HADI; MUHAMMAD HAFIZT; HADIYANTO HADIYANTO; AGUS BUDIYANTO; RIKOH MANOGAR SIRINGORINGO
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190223

Abstract

Hadi TA, Hafizt M, Hadiyanto, Budiyanto A, Siringoringo RM. 2018. Shallow water sponges along the south coast of Java, Indonesia. Biodiversitas 19: 535-543. Sponges are the most diverse benthic filter feeders, occupying many different types of marine habitat. The south coast of Java is one such marine habitat, very exposed to the open sea. This study investigated the sponge diversity as well as their morphological characters across the south coast of Java. The observations were carried out from 2011 to 2016 in four different locations, including Pamang Peuk, Gunungkidul, Prigi Bay and Bayuwangi. The study found 96 sponge species, from 15 orders, and described them in terms of nine morphological characters. The most common species included Spheciospongia inconstans, Stylissa massa, Callyspongia sp. and Cinachyrella australiensis, while the most common growth forms were massive and encrusting, accounting respectively for 34.4% and 28.1% of the total number of species. There was a significant difference in the number of species found between sub-tidal and intertidal habitats; subtidal sponges were approximately 50% more diverse than intertidal sponges. Apart from the habitat types, the number of sponges varied in relation to the longitude; east Java had more sponge species with more variations in morphology compared to central and west Java. Encrusting and globular growth forms were the most common characteristics of intertidal sponges in west and central Java, while other growth forms comprised the diverse characteristics of the subtidal sponges in the east Java. This baseline information is essential for management of marine biodiversity hotspots in taking decisions for marine life conservation, because the global trajectory of marine habitat degradation is predicted to rise.
The phenotypic appearance of Japanese persimmon (Diospyros kaki L.f.) in Karo District, North Sumatra, Indonesia DIANA SOFIA HANAFIAH; SEPTIAS SANGGITA; KHAIRUNNISA LUBIS
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190226

Abstract

Hanafiah DS, Sanggita S, Lubis K. 2018. The phenotypic appearance of Japanese persimmon (Diospyros kaki L.f.) in Karo District, North Sumatra, Indonesia. Biodiversitas 19: 559-564. The farmers in Karo District began to be less interested in cultivating kesemek or Japanese persimmon (Diospyros kaki L.f.). Due to the price of this commodity has dropped in the market, the farmers cut down the tree and cultivate more favorable horticultural crops, such as vegetable and citrus cultivation. It is necessary to conduct a study to obtained sufficient information to determine the necessary steps in order to preserve Japanese persimmon plants in Karo District. One first steps was to get information of accession characteristic of Japanese persimmon in Karo District. This research aimed to identify relationships of morphological characteristics among individuals of Japanese persimmon plants. The research was conducted from May until July 2017 at Berastagi, Merdeka, Kabanjahe, and Dolat Rayat sub-districts of Karo District, North Sumatra, Indonesia. The survey method using Japanese persimmon descriptor of Diospyros kaki L.f. by the International Union for the Protection of New Varieties (UPOV) with the purposive method for location determination and technique sampling. Thirty-six accessions of Japanese persimmon plants were studied. Based on clustering method of the morphological characteristic, 4 clusters are formed. This difference was canopy form, leaf shape and fruit morphological. Accession 34 from Dolat Rayat Distict has different fruit characters with other accessions.
Review: The impact of social and economic change on domesticated plant diversity with special reference to wet rice field and home-garden farming of West Java, Indonesia JOHAN ISKANDAR; BUDIAWATI S. ISKANDAR; RUHYAT PARTASASMITA
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190227

Abstract

.Iskandar J, Iskandar BS, Partasasmita R. 2018. Review: The impact of social and economic change on domesticated plant diversity with special reference to wet rice field and home-garden farming of West Java, Indonesia. Biodiversitas 19: 565-577. The Impact of social and economic change on genetic diversity of domesticated plants with special reference to wet rice field and home-garden farming of West Java. Various farming systems have played an important role as sources of genetic diversity in plants. A large number of cultivated varieties have been commonly selected, maintained, and distributed by farmers and cultural practices and ecological factors have been involved. These factors, such as soil, climate, pests, and culinary, magical and ritual uses, have influenced farmers in their selection of plants in farming systems. Nowadays, however, the number of plant varieties in various farming systems of Java has dramatically declined. This article attempts to discuss the impact of social and economic change on the genetic diversity of agricultural plants of the wet rice field and home-garden farming, particularly based on data from West Java.
Mercury levels and tolerable weekly intakes (TWI) of tuna and tuna-like species from the Southern Indian Ocean (Indonesia): Public health perspective TRI HANDAYANI; MOHAMAD SYAMSUL MAARIF; ETTY RIANI; NAZORI DJAZULI
Biodiversitas Journal of Biological Diversity Vol. 20 No. 2 (2019)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d200229

Abstract

Abstract. Handayani T, Maarif MS, Riani E, Djazuli N. 2019. Mercury levels and tolerable weekly intakes (TWI) of tuna and tuna-like species from the Southern Indian Ocean (Indonesia): Public health perspective. Biodiversitas 20: 504-509. Tuna and tuna-like species are essential sources of protein for much of the world and provide employment in areas where fishing and processing are concentrated, as well as their value are confirmed as extremely valuable. However, their benefits may be overshadowed by the presence of mercury. The main objectives of the study were to analyze mercury content in tuna and tuna-like caught from Southern Indian Ocean related to its correlation with the weight of fish. The method used was linear regression and tolerable weekly intake (TWI) calculation. Mercury levels in yellowfin tuna (Thunnus albacares) and bigeye tuna (Thunnus obesus) indicated significant variations with the level that ranged from 0.049 to 0.654 mg/kg across individual fish weight, while for tuna-like ranged from 0.014 to 1.908 mg/kg. All mercury levels in tuna not exceeded 1.0 mg/kg, while for tuna-like 7.3% (30 kg up), 27.3% (51 kg up) and 34% (51 kg up) for oilfish (Lepidocybium flavobrunneum), marlin (Makaira indica) and swordfish (Xiphias gladius) were exceeded of 1.0 mg/kg respectively. TWI calculation indicates that people who are not in high-risk categories (most adult and adolescents) may consume about 1,000 g of tuna a week and less than for tuna-like.
Isolation and molecular identification of antimicrobial-producing Lactic Acid Bacteria from chao, South Sulawesi (Indonesia) fermented fish product RISKY NURHIKMAYANI; BUDI SETIADI DARYONO; ENDAH RETNANINGRUM
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/d200418

Abstract

Abstract. Nurhikmayani R, Daryono BS, Retnaningrum E. 2019. Isolation and molecular identification of antimicrobial-producing Lactic Acid Bacteria from chao, South Sulawesi (Indonesia) fermented fish product. Biodiversitas 20: 1063-1068. Chao is traditional fermented fish made of anchovy (Stolephorus sp.), rice, salt, and fermented naturally on controlled environment. The product comes from Pangkep Regency, South Sulawesi. Chao has the potential for the source of high-grade lactic acid bacteria isolates, especially for antimicrobial compound. Antimicrobial compound produced by lactic acid bacteria is a biopreservative compound with many advantages. The purposes of this investigation were to isolate antimicrobial-producing lactic acid bacteria from chao and to identify their isolates based on the molecular properties. Lactic acid bacteria were isolated from chao using Man Ragosa Sharpe Agar (MRSA) medium added with 0.1 % CaCO3, followed by the ability test to produce antimicrobial compound against Staphylococcus aureus FNCC 0047 as an indicator. The spectrum of crude antimicrobial as cell-free supernatant (CFS) was determined by antagonism against S. aureus FNCC 0047 and Escherichia coli FNCC 0049 on agar well diffusion test. Selected isolates of antimicrobial-producing lactic acid bacteria molecularly identified from 16S rRNA marker using primer 27F and 1492R. We obtained four isolates of lactic acid bacteria that showed the antimicrobial activity. This crude antimicrobial compound could inhibit both gram-positive Staphylococcus aureus FNCC0047 and gram-negative bacteria Escherichia coli FNCC0049. The highest crude antimicrobial activity of isolates was observed on IB1C strain. The results of molecular characterization suggested that the IB1C and IB3B strain were identified as Lactobacillus plantarum, whereas IB3E and IB3F were identified as Pediococcus pentosaceus.
Optimization of manganese bioleaching activity and molecular characterization of indigenous heterotrophic bacteria isolated from the sulfuric area DENAYA ANDRYA PRASIDYA; WAHYU WILOPO; I WAYAN WARMADA; ENDAH RETNANINGRUM
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/d200716

Abstract

Abstract. Prasidya DA, Wilopo W, Warmada IW, Retnaningrum E. 2019. Optimization of manganese bioleaching activity and molecular characterization of indigenous heterotrophic bacteria isolated from the sulfuric area. Biodiversitas 20: 1904-1909.  The present research evaluated the manganese bioleaching potency of a heterotrophic bacteria KB3B1. This bacterial strain has been isolated from sulfuric area located at Ungaran, Middle of Java, Indonesia using modified 9K medium by adding of several organic nutrients. The manganese bioleaching activities of the strain was analysed by applying of varying glycine concentrations (0, 5, 10, 15 mg mL-1) with pyrolusite pulp densities of 0.02 g cm-3 on a rotary shaker at 180 rpm for 18 days incubation. Several parameters, including the growth of bacteria, pH values, the concentration of soluble manganese and cyanide, were investigated at the interval of 3 days. Molecular characteristics of the strain were further analyzed based on 16S rDNA gene sequences. After 15 days, the maximum yield of manganese 16.6% was achieved under the addition of 10 mg mL-1 glycine. This maximum extract obtained was followed by the maximum bacterial growth, pH, and cyanide product of the strain. Phylogenetic analysis showed that the strain was closely related with Bacillus niacini EP89. Besides, the average frequencies of guanine and cytosine (G+C) of the strain was in same range as that of the reference bacteria in the GenBank and Bergey's Manual Systematics of Bacteria.
Diversity, potential and conservation of Annonaceae in Bogor Botanic Gardens, Indonesia TRI HANDAYANI
Biodiversitas Journal of Biological Diversity Vol. 19 No. 2 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190230

Abstract

Handayani T. 2018. Diversity, potential and conservation of Annonaceae in Bogor Botanic Gardens, Indonesia. Biodiversitas 19: 591-603. The Annonaceae is a large family of trees, shrubs and climbers consisting of about 109 genera and 2440 species. This family has important economic value for fresh fruit, cosmetics and perfumes, timber, traditional medicines, processed foods and beverages, insecticides, and ornamental plants. It also has an important role in forest ecosystems and in environmental management, as a key habitat organism. Despite its many uses, the family has not received special attention, and many of its species have been forgotten. Therefore, efforts are required to conserve the Annonaceae. Conservation of the Annonaceae depends upon ex-situ as well as in-situ methods. Conservation by ex situ approaches is considered effective because it can save from extinction species that are rare, endemic or of as yet recognized, unknown usefulness.The research reported in this paper aimed to determine Annonaceae diversity in Bogor Botanic Gardens (BBG), West Java, Indonesia as well as its current and potential utilization, with a view to developing ways of ensuring preservation of the collection within the Gardens. The study used direct observation of the Garden’s collection, compilation and scrutiny of relevant data from the long-term BBG registration database, analysis of past research data, and a literature study. Currently, BBG holds in its collection about 28 genera and 83 species of the Annonaceae family. The collection is estimated to cover 80% of the total species scattered across the Malesian region. Within the collection there are 49 tree species (59.04%), 14 shrub species (16.87%) and 20 liana species (24.09%). Most of the collections are from Java and Sumatra, while the fewest are from Maluku Islands and Papua. Among 40 species observed, 7 species are used for their fruit, 7 species have cosmetic or perfume uses, 22 species are a source of timber, 34 species have uses in traditional medicine, 6 species are used in the food or beverage industry, 19 species can be used as ornamental plants, 8 species for insecticides, and 4 species for other uses.The Annonaceae collections consist of young and old plants.Plants within the Gardens that are more than 100 years old include trees (7 species), shrubs (3 species) and a liana (1 species).The most widely used parts for traditional medicine are roots and leaves. This paper discusses the efforts taken by BBG to conserve the Annonaceae, include maintaining the diversity of the collection, researching the potential usefulness of the collection and exploring different approaches to its conservation.

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