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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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The potential risk of tree regeneration failure in species-rich Taba Penanjung lowland rainforest, Bengkulu, Indonesia AGUS SUSATYA
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190541

Abstract

Susatya A. 2018. The potential risk of tree regeneration failure in species-rich Taba Penanjung lowland rainforest, Bengkulu, Indonesia. Biodiversitas 19: 1891-1901. Tropical lowland rain forest is recognized by its high species richness with very few trees per species. It is also known for having tendency to outcrossing of its species with different floral sexualities, which requires the synchronization between flowering of its trees and the presence of pollinators. Such ecological attributes raise possible constraints for the forest trees to regenerate. The objective of the study was to assess the potential risk of failed regeneration for each tree species of the forest. Each of species with dbh of more than 5 cm in a one-ha plot was collected, identified, and its ecological criteria, including rarity, floral sexuality, seed size, and flowering phenology were determined. The potential risk of the failure of regeneration was calculated by summing all scores from Analytical Hierarchical Process of the criteria. The results indicated that the forest consisted of 118 species belonging to 69 genera and 37 families. Rare species accounted to 52.10% of the total species. Of the 118 species, the potential medium risk category contributed to 38.14%, and more than 33% were grouped into very high and high risk or were more prone to failed regeneration in the future. All rare dioecious species were categorized into very high and high risks. Only 21 species (17.79%) are listed in 2017’s IUCN red list. Among unevaluated species, 22 and 13 species were respectively included in very high and high potential risk categories. The results revealed more detailed potential risk of failed regeneration of tree species, and can serve as basic information to develop proper conservation management.
Short Communication: Species confirmation of juvenile cloudy grouper, Epinephelus erythrurus (Valenciennes, 1828), based on a morphologic analysis and partial CO1 gene sequencing YANTI ARIYANTI; ACHMAD FARAJALLAH
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/d200341

Abstract

Abstract. Ariyanti Y, Farajallah A. 2019. Species confirmation of juvenile cloudy grouper, Epinephelus erythrurus (Valenciennes, 1828), based on a morphologic analysis and partial CO1 gene sequencing. Biodiversitas 20: 914-921. The genus Epinephelus is the most species among the genera within the subfamily Epinephelinae. Species identification techniques for groupers, especially in the Epinephelus, are commonly based on color patterns and a suite of morphological characters, including body shape and the size and number of fins, scales and gill rakers. In some species, juveniles are morphologically distinct from adults of the same species, making morphological identification highly problematic. This present work will provide some morphological description or variations of juveniles that have been identified as Epinephelus erythrurus based on CO1 sequences. Further, the present study demonstrates that a molecular genetic technique, based on partial sequencing of the mitochondrial CO1 gene, may be used for the rapid species confirmation of every developmental stage and phase of an organism (juvenile E. erythrurus). Two DNA sequences of E. erythrurus from the Pangandaran District (7o43’8.31”S 108o30’11.59”E) have been submitted to GenBank under accession numbers KP998441 and KP998442.
Growth characteristics and copper accumulation of bacterial consortium Acinetobacter sp. and Cupriavidus sp. isolated from a wastewater treatment plant WAHYU IRAWATI; TRIWIBOWO YUWONO; NOMMENSEN PANGIHUTAN OMPUSUNGGU
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190540

Abstract

Irawati W, Yuwono T, Ompusunggu NP. 2018. Growth characteristics and copper accumulation of bacterial consortium Acinetobacter sp. and Cupriavidus sp. isolated from a wastewater treatment plant. Biodiversitas 19: 1884-1890. Pollutant treatments are part of the human calling, as the crown of creation, to subdue, preserve, and cultivate the earth in bringing goodness for all creatures. Bioremediation of copper using indigenous bacteria is well known as the best water treatment for polluted environment recovery. Acinetobacter sp. and Cupriavidus sp. are indigenous bacteria isolated from industrial sewage in Indonesia. Bioremediation in environment is a process involving community of bacterial consortium for heavy metal or any other polluting materials accumulation. The purposes of this research were: (i) to characterize growth of Acinetobacter sp. and Cupriavidus sp. consortia in sewage medium, enrichment medium, and medium supplemented with copper, (ii) to establish the potency of bacterial consortia to accumulate copper. The growth of bacteria was observed based on cell turbidity using spectrophotometer at wavelength of 600 nm. Cells pellet was destructed by nitric acid at 100oC and copper concentration was analyzed by atomic absorption spectrophotometer as copper accumulation value. The results showed that the growth of bacterial consortia in medium containing copper was better than that of single bacterium. The best bacterial consortium was the mixture of Acinetobacter sp. IrC1 and Acinetobacter sp. IrC2. The use of sewage as cultivation medium decreased bacterial growth by up to 25% but still resulted in the same level of logarithmic phase in enrichment medium. The highest accumulation capability was of a consortium of Acinetobacter sp. IrC1 and Acinetobacter sp. IrC2 at a level of 6.45 g/mg copper/g cells dry weight, suggesting that 5.09% of copper were accumulated by cells. It was concluded that the best composition of consortia in growth and copper accumulation capability was the mixture of Acinetobacter sp. IrC1 and Acinetobacter sp. IrC2. These results may be due to the fact that both bacteria belong to the same genus that allowed them for synergistic interactions.
Molecular identification of coffee (Coffea arabica) pollinator insects in North Sumatra, Indonesia based on designed COI primers AIDA FITRIANI SITOMPUL; ELIDA HAFNI SIREGAR; DEWI IMELDA ROESMA; DAHELMI DAHELMI; EKO PRASETYA
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190539

Abstract

Sitompul FA, Siregar EH, Roesma DI, Dahelmi, Prasetya E. 2018. Molecular identification of coffee (Coffea arabica) pollinator insects in North Sumatra, Indonesia based on designed COI primers. Biodiversitas 19: 1877-1883. Coffee (Coffea arabica L.) is one of the most important economic commodities in the province of North Sumatra, Indonesia. Insects associated with pollination of C. arabica are one of the key factors for successful cultivation of C. arabica, but, the research regarding of these was still limited. The population of coffee plant is scattered across the highlands of Indonesia and the pollination of C. arabica is strongly believed linked to a diverse group of pollinating insects. However, lack of taxonomic identification of insects pollinating these plants has become one of constraints to succeed the cultivation of C. Arabica. This study aimed to analyze types and variations of pollinating insects of C. arabica in the province of North Sumatra, Indonesia, using DNA barcoding. DNA barcoding is now considered an alternative method of molecular identification. Sixteen of C. arabica flower visitors were captured in different planting location in North Sumatra province. Using mtDNA markers, the cytochrome oxidase subunit sequence I (COI), about 12 pollinator insect species were identified based on the COI sequence i.e Amegilla cingulata, Apis dorsata, Apis cerana, Trigona chanchamayoensis, Idiella divisa, Dolichopodidae sp., Allactoneura sp., Stomorhina discolor, Phytomia erratica, Rhiniidae sp., Melipona bicolor, and Hymenoptera sp.
Determination of leaf status of soybean varieties on shading : chlorophyll and chloroplast: Leaf status of soybean varieties on shading LISA MAWARNI; TENGKU CHAIRUN NISA; JUSTIN A NAPITUPULU; KARYUDI KARYUDI
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/d200243

Abstract

Abstract. Mawarni L, Nisa TC, Napitupulu JA, Karyudi. 2019. Determination of leaf status of soybean varieties on shading. Biodiversitas 20: 615-620. The shading tolerant soybean varieties could be identified through the character growth such as leaf status. This study was aimed to obtain the shading tolerant of soybean variety based on their seed size and on the leaf status. Design of experiments was a split-plot design with three replications. The level of shading as the main plot with four levels of treatment was without shading, 30%, 50%, and 70% shading. Soybean varieties as the subplot had 4 genotypes namely Anjasmoro, Pangrango, Tanggamus, and Nanti wherein one variety comes with large seed; two come with medium seeds and the other one comes with small seed. The leaf status for determination was the greenness of leaves, the sum of chlorophyll a, chlorophyll b, total chlorophyll a and b, the forms of chloroplasts and leaf area. The soybean varieties with different seed sizes showed the differences only on the leaf area but not on leaf greenness or on the sum of chlorophyll. Nanti variety, having small seed, turns out to have the largest leaf area but is not shade tolerant. The large leaf area may be due to the forming of tetra foliate leaves on Nanti variety. The form of chloroplast of Anjasmoro variety in 70% shading is better than other varieties. Therefore, determining leaf status can identify shading tolerant of soybeans.
Short Communication: Variation in vocal cord morphometric characters among dangdut type and the slow type Gaga Chicken ABINAWANTO ABINAWANTO; ALFI SOPHIAN; PIPIH SUNINGSI EFENDI; TITIN SISWANTINING
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190542

Abstract

Abinawanto, Sophian A, Effendi PS, Siswantining T. 2018. Short Communication: Variation in vocal cord morphometric characters among dangdut type and the slow type Gaga Chicken. Biodiversitas 19: 1902-1905. Gaga chicken is one of the ornamental chicken originating from Sidendreng and Rapang (South Sulawesi). Gaga chicken has a unique crowing sound, like people laugh. Gaga’s chicken which has a long and fast crowing sound known as the dangdut type, while those with short and slow crowing sound are known as slow type. Study was conducted in Pinrang (South Sulawesi), where one of the pure strains are located. Samples were collected from Kanie, Bullo, Macege, Rappang, and Sidenreng. The purpose of study was to determine the characteristics of the vocal cord morphometric among the dangdut type and the slow type of Gaga’s chicken. All of the morphometric data were recorded and analyzed by Mean Test, using SPSS (version 22). The results showed that there was no significant difference (a = 0.010) among the dangdut type and the slow type based on syrinx morphometric. Meanwhile, according to the trachea muscle morphometric the results showed that the trachea muscle of dangdut type was longer than the slow type (a < 0.010). In addition, either the right or the left trachea muscle of dangdut type was longer than either the right or the left trachea muscle of the slow type (a < 0.010).
Spatial distribution of echinoderms in littoral area of Ambon Island, Eastern Indonesia ANA SETYASTUTI; WAHYU PURBIANTORO; HADIYANTO HADIYANTO
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190544

Abstract

Setyastuti A, Purbiantoro W, Hadiyanto. 2018. Spatial distribution of echinoderms in littoral area of Ambon Island, Eastern Indonesia. Biodiversitas 19: 1919-1925. Echinoderms samples were collected in Ambon Island as part of the marine resource inventories designed to study the biodiversity of Maluku Archipelago. The purpose of this works was to investigate the abundance and genus richness of echinoderms within the five sampling sites using single transect orthogonal to the coast consisted of 10-quadrat plot of 5x5m, the distance between plots was 10m at each site. Furthermore, this study also aimed to understand the relation of substrate type and community composition within those five sites. The substrate was classified into four types (sea-grass, macro-algae, sand, rocks and/or dead coral) noted by presence/absence mark at each plot. The differences in total abundance and genus richness among those sites were analyzed using an Analysis of Deviance following a Generalized Linear Models (GLMs) fitted by Poisson and log link. However, in term of genus composition, the data were visualized using a Principal Coordination Analysis (PCoA) plots calculated from Bray-Curtis dissimilarity based on the log (x+1) transformed abundance data. A total of 910 individuals of echinoderms belonging to 19 genera was successfully recorded. Total abundance of echinoderms was different significantly among sites (p<0.05). The most abundant echinoderms were collected from Tanjung Tiram, approximately 68.71 individuals/quadrat, which was almost 1.4 times than those in Liang and even 4 times than those in Suli. The genus composition between sites was significantly different (p<0.05). The composition of substrate types among sites was not significantly different (p>0.05), however the composition of substrates correlated significantly with the composition of echinoderms genus (p<0.05, rho=0.36). In conclusion, more complex the substrate variation in an area will affect the diversity and abundance of Echinoderms community therein.
Impact of Bukit Dua Belas rainforest transformation to oil palm plantation on phylogenetic of soil bacterial communities in Sarolangun, Jambi, Sumatra, Indonesia MARINI WIJAYANTI; ARIS TRI WAHYUDI; MUNTI YUHANA; MARTIN ENGELHAUPT; ANJA MERYANDINI
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/d200326

Abstract

Abstract. Wijayanti M, Wahyudi AT, Yuhana M, Engelhaupt M, Meryandini A. 2019. Impact of Bukit Dua Belas rainforest transformation to oil palm plantation on phylogenetic of soil bacterial communities in Sarolangun, Jambi, Sumatra, Indonesia. Biodiversitas 20: 811-818. Land use change from forest to oil palm plantation at Sumatra could decrease biodiversity, including bacterial diversity. The case of Bukit Dua Belas transformation from forest to oil palm plantation was gotten for measuring shift community of soil bacterial in both areas. The diversity of bacterial communities from rainforest and oil palm plantation topsoil in Sumatra was studied using pyrosequencing of 16S rRNA gene and common biodiversity indices. Phylogenetic approach was used to reveal the community shift of bacterial phyla and genera in both areas. Ecological approach was carried out by measuring soil pH, TC (total carbon), TN (total nitrogen), AP (available phosphorous), bacterial diversity with Shannon and Simpson indices, and bacterial richness with Chao1-ACE index and OTUs. Bacterial diversity and richness on lowland forest topsoil and oil palm plantation soil were not different, as soil pH, TC, and TN as substrate factors were not different significantly. The majority of sequences related to Acidobacteria (56.33%), Proteobacteria (27.43%), Actinobacteria (7.11%), and Cyanobacteria (5.55%) were from forest; whereas those related to Acidobacteria (50.11%), Proteobacteria (31.63%), Actinobacteria (7.58%), Chloroflexi (2.60%), and Gemmatimonadetes (2.71%) invented from oil palm plantation. Acidobacteria was the most dominant phyla in both habitats, because soil pH in both areas was acidic (3.77 - 4.80 pHH2O). The genera of alpha-proteobacteria dominated in genera phylotype of bacterial 16S rRNA phylogenetic revealed in both forest and oil palm plantation topsoil. The most genera in phylogenetic tree are Burkholderia from Beta-proteobacteria. The bacterial community shift occurred in forest transformation, even though the oil palm plantation showed more bacterial phyla and genera than the lowland rainforest.
Leaf anatomical characters of four epiphytic orchids of Sempu Island, East Java, Indonesia: The importance in identification and ecological adaptation RIDESTI RINDYASTUTI; SITI NURFADILAH; APRIYONO RAHADIANTORO; LIA HAPSARI; ILHAM KURNIA ABYWIJAYA
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190543

Abstract

Rindyastuti R, Nurfadilah S, Rahadiantoro A, Hapsari L, Abywijaya IK. 2018. Leaf anatomical characters of four epiphytic orchids of Sempu Island, East Java, Indonesia: The importance in identification and ecological adaptation. Biodiversitas 19: 1906-1918. Leaf anatomy features are important characters to support species identification and classification, and they are related to ecological adaptation of species. The aims of the present study were: (i) to investigate leaf anatomical characters of four epiphytic orchids of Sempu Island (Ascochilus emarginatus, Dendrobium subulatum, Thrixspermum subulatum, and Thrixspermum acuminatissimum) in relation to the significance in species identification and ecological adaptation in coastal habitats of Sempu Island, (ii) to compare the adaptive ability of the four species in coastal habitats based on adaptive anatomical characters. The procedure of leaf anatomical studies as follows: orchid leaves were fixed in ethanol 70% and sliced into thin pieces with a microtome, and stained with 1% Safranin. The leaf anatomical organization of orchids (stomata, epidermis, mesophyll, vascular bundles, and other characters such as hypodermis, fibre bundles, raphide bundles, and spiral thickenings) was observed under light microscope. The results showed the comparable data of leaf anatomical characters among the orchids. There was distinct variation in the anatomical characters of the orchids including stomata anomocytic, tetracytic, and cyclocytic; the presence or absence of hypodermis, spiral thickenings, fibre bundles, raphide bundles, and bundle sheaths; homogenous and heterogenous mesophyll; and variation in vascular bundle arrangement. Detailed leaf anatomical characters can be used to distinguish a species from others, which are important to support species identification. The similarity of anatomical characters among these orchids were they possessed relatively thick cuticle and other specific anatomical characters as a structural adaptation to coastal habitat with high irradiation to reduce leaf transpiration. D. subulatum can be considered as the most adaptive orchid species to coastal habitats based on adaptive anatomical characters as it possessed the largest number of adaptive anatomical characters. The implication of this study is the importance of leaf anatomical features to support species identification and to increase understanding of orchid biology and ecology which are important in orchid conservation.
The impacts of traditional homegarden conversion into the commercial one: A case study in Sukapura Village of the Upstream Citarum Watershed, West Java, Indonesia JULIATI PRIHATINI; JOHAN ISKANDAR; RUHYAT PARTASASMITA; DEDEN NURJAMAN
Biodiversitas Journal of Biological Diversity Vol. 19 No. 5 (2018)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d190545

Abstract

Prihatini J, Iskandar J, Partasasmita R, Nurjaman D. 2018. The impacts of traditional homegarden conversion into the commercial one: A case study in Sukapura Village of the Upstream Citarum Watershed, West Java, Indonesia. Biodiversitas 19: 1926-1940. In the past, rural homegardens in West Java were planted with various annual and perennial crops. As a result, the vegetation structure of traditional homegardens in rural areas of West Java, Indonesia was very complex, similar to that of forest vegetation. Nowadays, however, due to rapid development of market economic system in rural areas, many traditional homegardens in West Java have been converted into the commercial ones. Consequently, the structure and functions of the homegardens have drastically changed. For example, the vegetation structure has become simpler and dominated by commercial crops, and the gardens serve mostly economic function instead of providing various ecological, socio-economic and cultural functions. The aim of this study was to elucidate: (i) the ecological history of traditional homegardens, (ii) the changes of structure and functions of the homegardens converted from the traditional into the commercial one, and (iii) the positive and negative impacts of conversion of the traditional homegardens into the commercial ones in the Village of Sukapura, the Subdistrict of Kertasari, the District of Bandung, Upstream Citarum Watershed, West Java. The combination of qualitative and quantitative methods were used, while some techniques, including observations, and in-depth interviews with competent informants were applied in this study. The results of study showed that initially the traditional homegardens in Kertasari Village had been predominantly cropped with various annual and perennial crops. However, due to market economic development, the homegardens have been drastically changed. For example, the commercial vegetable crops, including Welsh onion (Allium fistulosum L), carrot (Daucus carota L) and cabbage (Brassica oleracea var capitata) have been predominantly cultivated in the commercial homegardens. Consequently, the household income of the village people who own the commercial homegardens increased, however, some ecological and socio-cultural functions of the commercial homegardens drastically decreased. In addition, some negative impacts of the commercialization of the homegardens have occurred. We suggest that to develop the sustainable village homegardens for the future, the diversity of plants must be maintained to provide ecological function or ecosystem services and the economic production must be improved to increase the income of the rural people.

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