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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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Carbon sequestration and growth of Anthocephalus cadamba plantation in North Kalimantan, Indonesia AGUS SARJONO; ABUBAKAR M. LAHJIE; B.D.A.S. SIMARANGKIR; R. KRISTININGRUM; YOSEP RUSLIM
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180414

Abstract

Sarjono A, Lahjie AM, Simarangkir BDAS, Kristiningrum R, Ruslim Y. 2017. Carbon sequestration and growth of Anthocephalus cadamba plantation in North Kalimantan, Indonesia. Biodiversitas 18: 1385-1393. Forest plantation of Jabon (Anthocephalus cadamba) plays many important roles for the primary source of timber production and also the carbon absorption for environmental amelioration. The growth of A. cadamba trees was measured using the formulas of MAI (Mean Annual Increment) and PAI (Periodic Annual Increment) as the basis of the increment measurement, while the analysis of biomass and carbon with simple linear regression (y = a + bx) was used, with the coefficient of R2 = 0.90. The annual increment of A. cadamba trees reached its maximum point or the intersection between MAI and PAI at the age of 8 years, showing the maximum production of A. cadamba trees. Forest plantation of A. cadamba produced biomass and carbon sequestration of 81.90 ton ha-1 and 39.31 ton ha-1, respectively at the age of 8 years. However, the amount of biomass and carbon in another plot of A. cadamba trees was 96.85 ton ha-1 and 46.49 ton ha-1, respectively. While the values of the third plot were 116.84 ton ha-1 and 56.08 ton ha-1, respectively. The correlation between the diameter and biomass production and the correlation between the age of stands and carbon production were very strong with R2 value was higher than 0.90. This indicated that Jabon (Anthocephalus cadamba) plantation had important roles in carbon sequestration and biomass production.
Short Communication: The potential of various indigenous Trichoderma spp. to suppress Plasmodiophora brassicae the pathogen of clubroot disease on cabbage I KETUT SUADA
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180417

Abstract

Suada IK. 2017. Short Communication: The potential of various indigenous Trichoderma spp. to suppress Plasmodiophora brassicae, the pathogen of clubroot disease on cabbage. Biodiversitas 18: 1424-1429. On the island of Bali, cabbage (Brassica oleracea L.) is a vegetable that has high economic value especially for farmers who cultivate it as a cash crop. However, the clubroot disease caused by the microbial pathogen Plasmodiophora brassicae decreases its productivity. Much effort has been expended in attempts to decrease the pathogen attack by use of synthetic fungicides, however, this has not had much success; more over such pesticide applications generate environmental pollution. Therefore, biological control using Trichoderma or other organisms antagonistic to the pathogen is an attractive alternative. The purpose of this study was to find, isolate and identify Trichoderma spp. able to decrease the disease incidence and increase plant growth. Twelve indigenous Trichoderma isolates were tested on cabbage plants grown in polybags containing local soil media culture treated with the Trichoderma inocula at a concentration of 1.5x106 CFU per polybag. The results showed that three Trichoderma isolates, i.e. T. hamatum-1, T. harzianum-1, and T. harzianum-2, were able to decrease the clubroot disease and increase cabbage growth as well.
Review: Progress and potential of DNA barcoding for species identification of fish species AYESHA IMTIAZ; SITI AZIZAH MOHD NOR; DARLINA MD. NAIM
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180415

Abstract

Imtiaz A, Mohd Nor SA, Md. Naim D. 2017. Review: Progress and potential of DNA barcoding for species identification of fish species. Biodiversitas 18: 1394-1405. DNA barcoding is a molecular technique to identify species by utilizing 600-800 base pairs genetic primer segments of mitochondrial gene cytochrome oxidase I. DNA barcoding has high potential to identify species into taxa, resolves ambiguousness in species identification, helps in accurate species identification, categorize species for conservation and also communize the information in the form of database system. The main challenge to this technique is regarding the use of barcoding information on ‘biological species concept’. The extreme diversity of fish and their economic importance has made this group a major target of DNA barcoding. DNA barcoding can assign the status of known to unknown sample but it also has the ability to detect previously un-sampled species as distinct. In this review, we present an overview of DNA barcoding and introduce current advances and limitation of this promising technique.
Evaluation of expression analysis of putrescine n-methyltransferase gene during different stages of growth in the medicinal plant Physalis divaricata (Solanaceae) ELHAM MOALLEM; ABDOLLAH GHASEMIPIRBALOUTI; TAHER NEJADSATTARI; ALIREZA IRANBAKHSH; IRAJ MEHREGAN
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180418

Abstract

Moallem E, Ghasemipirbalouti A, Nejadsattari T, Iranbakhsh A, Mehregan I. 2017. Evaluation of expression analysis of putrescine n-methyltransferase gene during different stages of growth in the medicinal plant Physalis divaricata (Solanaceae). Biodiversitas 18: 1430-1437. Physalis divaricata (Solanaceae) is one of the most prevalent weeds in summer crops. Putrescine Nmethyltransferase (PMT) is a key enzyme in the biosynthesis of nicotine, tropane alkaloids atropine, scopolamine, cocaine, and calystegines. The present study set to compare PMT gene expression during different growth stages of Ph. divaricata using RT-qPCR assay. RNA extraction was performed from root and leaf samples of a total number of 40 individuals Ph. divaricata at different growth stages (late vegetative and fruiting stages) collected from southwestern Iran. RT-qPCR of cDNA reversely synthesized from RNA was carried out using SYBR®Premix Ex TaqTM II kit. PMT gene expression levels were analyzed using ΔΔCT method. The results showed that expression level of PMT in late vegetative stage samples was significantly higher compared to fruiting stage samples. The expression level of PMT similarly changed in root and leaf samples. Direct visualization of alkaloids in different tissues using Wagner histochemical tests showed more concentrations of alkaloids in leaf idioblasts and root stele.
Short Communication: New record of a primitive brachiopod, Lingula sp. in Lubuk Damar, Indonesia ANANINGTYAS S. DARMARINI; YUSLI WARDIATNO; TRI PRARTONO; KADARWAN SOEWARDI
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180419

Abstract

Darmarini AS, Wardiatno Y, Prartono T, Soewardi K. 2017. Short Communication: New record of primitive brachiopod, Lingula sp. in mangrove ecosystem of Lubuk Damar, Aceh Tamiang, Indonesia. Biodiversitas 18: 1438-1444.. Darmarini AS, Wardiatno Y, Prartono T, Soewardi K. 2017. Short Communication: New record of primitive brachiopod, Lingula sp. in mangrove ecosystem of Lubuk Damar, Aceh Tamiang, Indonesia. Biodiversitas 18: 1438-1444.. This study reports the occurrence of the primitive brachiopod, Lingula in mangrove ecosystem as a new record in Indonesia. Specimens were collected from the mangrove sediment at a depth of between the sediment surface and 20 cm beneath. . Lingula has a glossy shell and oval-ovate shell shape. The color of shell is brownish or greenish. In posterior a point where pedicle occurs is found. The pedicle is a prolongation of the body like an anchor, with varying length, rough, hard and striped texture. Pedicle has soft transparent layer and the edges are covered by the substrate. The inside body of Lingula, there is a lophophore, which is the characteristic of this species The total length of the brachiopod ranges from 3-122 mm. The texture of habitat consists of 39.67% sand, 50.95% silt, and 11.45% clay.
Monthly range of adolescent orangutans (Pongo pygmaeus wurmbii) based on fruit availability in Tuanan Orangutan Research Station, Central Kalimantan, Indonesia FAJAR SAPUTRA; DYAH PERWITASARI- FARAJALLAH; SRI SUCI UTAMI- ATMOKO; TOMI ARIYANTO; MARIA A. VAN NOORDWIJK
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180420

Abstract

Setyawan. 2017. Monthly range of adolescent orangutans (Pongo pygmaeus wurmbii) based on fruit availability in Tuanan Orangutan Research Station, Central Kalimantan, Indonesia. Biodiversitas 18: 1445-1452. Adolescent orangutans become competitors with mothers supporting newborn infants. Thus, adolescent orangutans must coordinate with other orangutans in order to find fruit. How adolescent orangutans respond is reflected in the size and utilization of their home range area. The aims of our research were to determine (i) fruit availability, as an important component of orangutan diet, (ii) and the effect of fruit availability on home range use by adolescent orangutan. This research was conducted from August 2013 to July 2014 in Tuanan Orangutan Research Station, Central Kalimantan. The fruit trail method was used to estimate abundance of fruits (both from trees and lianas).Fallen fruit on census trails was assessed once per month, while focal animal sampling was used to estimate the home range by tagging a GPS point every 30 minutes during the tracking of an orangutan. In total, 62 tree and 15 liana species included in the known orangutan diet were fruiting during this study period. The highest period of fruit abundance for orangutan food occurred in November until January. Adolescent orangutans responded by increasing their monthly ranging area during this time of high fruit availability and decreased their range when fruit availability was low. Adolescent orangutans often used areas in their monthly range that had a high to medium abundance of fruit trees. When the number of trees bearing fruit decreased (low period), adolescent orangutans changed their monthly range to areas that consisted of medium to high abundance of liana fruit. Their ranging strategy optimized use of low quality habitat in order to survive in degraded forests.
Short Communication: The normal karyotyping result of Indonesian native breed bull qualified for artificial insemination GATOT CIPTADI; MUH NUR IHSAN; VERONICA M. ANI NURGIARTININGSIH; IRSANTI PUTRI ARDYAH; MUDAWAMAH MUDAWAMAH
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180422

Abstract

Ciptadi G, Ihsan MN, Nurgiartiningsih VMA, Ardyah IP, Mudawamah M. 2017. Short Communication: The normal karyotyping result of Indonesian native breed bull qualified for artificial insemination. Biodiversitas 18: 1462-1467. Bali and Madura cattle are important native breed in Indonesia, both descendants of wild banteng (Bos javanicus). These breeds are categorized as a small type beef cattle, and are indigenous, well adapted and, have high resistance to diseases. The aims of this research were to analyze dendrograms of these breed and karyotype breeding bull selected for Artificial Insemination (AI). The result showed that the 2n diploid number of chromosome of all cattle was 60 and they were considered normal, based on the number and structure of chromosomes. Fiftyeight acrocentric autosomes and 2 sex chromosome were observed, including a submetacentric X-large chromosome submetacentric and a small Y chromosome. Dendrogram analysis showed that Bali and Madura cattle were closely related and derived more from their ancestor wild banteng than from Java cattle. It is recommended to perform a chromosomal investigation of breeding bulls especially those used for freezing semen production and AI implementation.
Short Communication: Lack of differentiation within the bigeye tuna population of Indonesia NI PUTU DIAN PERTIWI; BUDI NUGRAHA; RIRIK KARTIKA SULISTYANINGSIH; IRWAN JATMIKO; ANDRIANUS SEMBIRING; ANGKA MAHARDINI; NI KADEK DITA CAHYANI; AJI WAHYU ANGGORO; HAWIS H. MADDUPPA; PAUL H. BARBER; GUSTI NGURAH MAHARDIKA
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180416

Abstract

Pertiwi NPD, Nugraha B, Kartika R, Sulistyaningsih RK, Jatmiko I, Sembiring A, Mahardini A, Cahyani NKD, Anggoro AW, Madduppa HH, Ambariyanto A, Barber PH, Mahardika GN. 2017. Short Communication: Lack of differentiation within the bigeye tuna population of Indonesia. Biodiversitas 18: 1406-1413. All highly migratory tuna and tuna-like species have vast feeding grounds and spawning grounds. Indonesia’s tuna catch is the largest in the world. However, genetic diversity in the population structure within particular tuna species in Indonesia is very limited. Here we provide genetic data for bigeye tuna (Thunnus obesus) covering fishing grounds and local fish markets throughout Indonesia. A fragment of mitochondrial DNA in the D-loop control region was amplified from samples collected across Indonesia in the biennium 2012-2013. The results showed high haplotype diversity and low nucleotide diversity in our samples. Little differentiation occured between the eleven diverse sampling locations, nor was any separation detected between general regions of Indonesia, nor between samples from fishing grounds and samples from fish markets.
Biological parameters of fish stock estimation in Cirata Reservoir (West Java, Indonesia): A comparative analysis of bio-economic models ZUZY ANNA; ASEP AGUS HANDAKA SURYANA; INE MAULINA; ACHMAD RIZAL; PURNA HINDAYANI
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180423

Abstract

Anna Z, Handaka AA, Maulina I, Rizal A, Hindayani P. 2017. Biological parameters of fish stock estimation in Cirata Reservoir (West Java, Indonesia): A comparative analysis of bio-economic models. Biodiversitas 18: 1468-1474. Fish resources in reservoirs such as Cirata have a strategic value, especially for the surrounding community in terms of fulfilling the need for nutricious food, subsistence, and economic purposes. Unfortunately, until now there has been no serious attention from the government to develop and manage fish resources in these waters. From time series data it can be seen that there is a decrease in fish production, which is an indication of a decrease of fish stock, which has a negative impact on the wellfare of surrounding commmunity, as well as the sustainability of fish resources and their ecosystems. To meet the food safety and economic needs of the community, a healthy and sustainable fish resource is a must, characterized by sustainable inputs and outputs, so that the stock of fish resources will be maintained. In order to fulfill this need, a basic understanding of the biological and economic conditions of the dynamics of fish resources in these waters as a basis for sustainable management is needed. Research was conducted to calculate the biological parameters of fish resources through Fox, CYP, Walters Hilborn and Schnute algorithms, using quarterly catch and effort data from 2011 to 2015, collected from secondary and cross checking data. Furthermore, using price and cost data series, adjusted by consumer price index, the variable of input, output and economic rent of sustainable, optimal and open access management regimes were analyzed. The results of the study indicate that the most statistically appropriate model for estimating biological parameters in Cirata are the Fox and CYP models, and fisheries management using the optimal regime provides the most efficient results, where fewer inputs will result in the maximum profit. The research suggests the need for immediate enforcement of management rules based on sustainable management regimes through input or output restrictions on capture fisheries in Cirata Reservoirs.
Heavy metal tolerance in indigenous bacteria isolated from the industrial sewage in Kemisan River, Tangerang, Banten, Indonesia WAHYU IRAWATI; SEMUEL RIAK; NIDA SOPIAH; SUSI SULISTIA
Biodiversitas Journal of Biological Diversity Vol. 18 No. 4 (2017)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d180425

Abstract

Irawati W, Riak S, Sopiah N, Sulistia S. 2017. Heavy metal tolerance in indigenous bacteria isolated from the industrial sewage in Kemisan River, Tangerang, Banten, Indonesia. Biodiversitas 18: 1481-1486. The bacterial study is a part of human calling in preserving the earth. Many indigenous bacteria isolated from heavy metal contaminated sites had resistance to heavy metal toxicity and could be used for heavy metal removal. The aims of this study were to isolate heavy metal-tolerant indigenous bacteria from the industrial sewage of Kemisan River in Tangerang, Banten, Indonesia. The potency of bacterial isolates to remove heavy metals was also determined. The heavy-metal tolerance was determined by measuring the minimum inhibitory concentration. The potency of bacterial isolate for removing heavy metals from the medium was determined by an atomic absorption spectrophotometer. The results showed that there were eight heavy metal-resistant bacteria isolated from Kemisan River with minimum inhibitory concentration ranging from 7 mM to 11 mM. Isolate PbSI1 was the highest lead tolerant bacteria, and also tolerant to copper and zinc. The isolate was able to remove 91.25% lead, 73.38% zinc, and 98.57% copper from medium supplemented with the mixture of these heavy metals. The addition of 9 mM of lead in the medium affected the morphological appearance of isolate colonies i.e PbSI1 and PbSI3 to become darker which might occur due to the survival mechanism of bacteria by absorbing the lead inside the cells. The finding of this study indicated that isolate PbSI1 was a promising bacterium, which could be further developed for heavy metal removal.

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