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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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Anticipated climate changes reveal shifting in habitat suitability of high-altitude selaginellas in Java, Indonesia AHMAD DWI SETYAWAN; Jatna Supriatna; Nisyawati; Ilyas Nursamsi; SUTARNO SUTARNO; SUGIYARTO SUGIYARTO; SUNARTO SUNARTO; Prakash Pradan; SUGENG BUDIHARTA; ARI PITOYO; SAPTA SUHARDONO; PRABANG SETYONO; MUHAMMAD INDRAWAN
Biodiversitas Journal of Biological Diversity Vol. 21 No. 11 (2020)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d211157

Abstract

Abstract. Setyawan AD, Supriatna J, Nisyawati, Nursamsi I, Sutarno, Sugiyarto, Sunarto, Pradan P, Budiharta S, Pitoyo A, Suhardono S, Setyono P, Indrawan M. 2020. Anticipated climate changes reveal shifting in habitat suitability of high-altitude selaginellas in Java, Indonesia. Biodiversitas 21: 5482-5497. High-altitude ecosystems with humid and cool climate are the preferred habitat for some Selaginella species (selaginellas). Such habitats are available in Java, Indonesia, which also has fertile soils with rich mineral contents resulted from volcanic activities. However, the high-altitude ecosystems in Java are threatened by various anthropogenic activities as well as changes in climate conditions, potentially affecting some Selaginella species. This study aimed to investigate the shift in suitable habitat of four species of high-altitude Selaginella spp. (Selaginella involvens, S. opaca, S. ornata, and S. remotifolia) in Java Island under current and future climate conditions predicted by several representative greenhouse gas concentration pathways. Presence data of Selaginella localities were collected from field survey between 2007 and 2014 across the island, as well as occurrence points from the Global Biodiversity Information Facility database. A total of 1,721 occurrence points data along with environmental and climate data were used to develop species distribution models using MaxEnt. Future habitat distributions were projected under four climate scenarios to see the shift in suitable habitat and altitudinal ranges. The results showed that the distribution of the four high-altitude Selaginella species are strongly influenced by altitude, annual average temperature, and annual rainfall. In the present time, 37.32% (48,974 km2) of the area of Java has been predicted to be suitable for high-altitude Selaginella. Under the optimistic climate scenario (RCP 2.6), the highly suitable area will likely to decrease by almost 35% in the year 2080, whereas the medium and low suitable areas will reduce by about 37.2% and 18.3%, respectively. Under the pessimistic scenario (RCP 8.5), about 21.2% of low suitable areas will be lost in 2080, whereas the medium and highly suitable areas are predicted to decrease by around 38.1% and 33.4%, respectively. Under the pessimistic scenario, there will be upward shift by 51.1 m in the year 2030 from the current’s mean altitude and will shift by almost 150 m in the year 2080. The maximum altitude of predicted suitable habitat is also predicted to increase to reach almost 3500 m asl in the year 2080. The results of this study imply that habitat shift of four high-altitude Selaginella species varies depending on the scenario, but in all cases, the losses are greater than gains.
Short communication: Environment and morphometric of sea hare Dolabella auricularia from shrimp pond, Sorong, West Papua, Indonesia ACHMAD SOFIAN; Achmad Suhermanto; SAIDIN SAIDIN; MOHAMMAD SAYUTI; DIAN NOVIANTO; FERLIANA WIDYASARI
Biodiversitas Journal of Biological Diversity Vol. 22 No. 2 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220254

Abstract

Abstract. Sofian A, Suhermanto A, Saidin, Sayuti M, Novianto D, Widyasari F. 2021. Short communication: Environment and morphometric of sea hare Dolabella auricularia from shrimp pond, Sorong West Papua, Indonesia. Biodiversitas 22: xxxx. Dolabella auricularia is a herbivorous marine biota living on the shallow seabed, which is found mostly in Indo-Pacific waters. The purpose of this study was to analyze the environmental and morphometric characteristics of Dolabella auricularia which live in vaname shrimp pond, Sorong, West Papua, Indonesia. Samples were collected from April to June 2020. From the measurement of pond waters environmental conditions, the following data were obtained: temperatures ranging from 31.47 ± 1.08oC, salinity ranging from 31.91 ± 2.29 ppt, pH ranging from 8.02 ± 0.20, brightness 108.00 ± 45.63 cm, and Dissolved Oxygen (DO) ranging from 4.10 ± 0.22 mg/L. The morphometrics of D. auricularia consisted of R-Anterior resp distances with sizes ranging from 38.9 ± 17 mm, wet weight ranging from 170 ± 34 g total lengths ranging from 112 ± 57.83 mm, posterior diameters ranging from 71 ± 41 mm. D. auricularia was found in pond waters as a pest for shrimp culture. However, D. auricularia also has biomedical and economic potentials as raw materials for the pharmaceutical industry. So, further studies are needed for their development.
Pollen morphology and infrageneric classification of selected Callicarpa species (Lamiaceae) from the Philippines and Borneo Jennifer Danila; GRECEBIO JONATHAN D. ALEJANDRO
Biodiversitas Journal of Biological Diversity Vol. 21 No. 12 (2020)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d211234

Abstract

Abstract. Danila JS, Alejandro GJD. 2020. Pollen morphology and infrageneric classification of selected Callicarpa species (Lamiaceae) from the Philippines and Borneo. Biodiversitas 21: 5736-5746. We used pollen grains of ten species representing the controversial genera Geunsia Blume and Callicarpa L. from the key centers of Malesia - Philippines, and Borneo including other countries in Asia. Herbarium specimens and collected samples from the field were examined using Scanning Electron Microscopy (SEM) in search of new characters to establish conclusive evidence that might contribute to the study of the relationship between Geunsia and Callicarpa. Based on SEM observations, both the investigated pollen grains of Geunsia and Callicarpa are mostly small to medium, spheroidal or circular, prolate to oblate, isopolar, and tricolpate. Moreover, the exine surface is mostly coarsely reticulated with a thin perforated colpus edge and sunken finely granulated colpus membrane. However, exine ornamentation shows possible separation of Geunsia and Callicarpa due to various morphological results observed. Several types of exine ornamentation were found in species of the section Callicarpa, i.e., C. erioclona, C. arborea, C. macrophylla, and C. candicans which attributes in the projected separation of these species while four species in the section Geunsia are united as a group having coarsely reticulate exine. Surprisingly, C. arborea samples give additional support to the hypothesis that rugulate exine sculpture might be its plesiomorphic character due to evolutionary evidence of other exine types of this species. On the other hand, pollen size and shape class of the sections of Geunsia and Callicarpa were both observed with similar features having an average pollen size equivalent to medium and a prolate shape supporting the concept of previous studies to nest Geunsia within Callicarpa. This reveals that pollen morphology is useful in the study of infrageneric classification within these groups. However, further morphological studies involving larger number of specimens are needed especially in the study of exine to prove its consistency as diagnostic character in the study of phylogenetic relationship.
Short Communication: Diversity of cellulolytic bacteria isolated from coastal mangrove sediment in Logending Beach, Kebumen, Indonesia hendro pramono; AFIFAH MARIANA; DINI RYANDINI; EMING SUDIANA
Biodiversitas Journal of Biological Diversity Vol. 22 No. 4 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220433

Abstract

Abstract. Pramono H, Mariana A, Ryandini D, Sudiana E. 2021. Short Communication: Diversity of cellulolytic bacteria isolated from coastal mangrove sediment in Logending Beach, Kebumen, Indonesia. Biodiversitas 22: 1869-1878. Bacteria from mangrove sediments have the potential to produce active enzymes and metabolites needed in the industry.  Mangrove ecosystems in various parts of Indonesia have been explored as sources of bacteria. However, the mangrove ecosystems in  Logending Beach, Kebumen District, Indonesia are still unexplored. This study aims to determine the diversity of cellulolytic bacteria using the 16S rRNA gene. Ninety-nine bacteria were isolated from Logending coastal mangrove sediments. Most of them (87.87%) had a cellulolytic activity, with the cellulolytic index values ranged from 0.25–13.96. The LG2 isolate had the highest cellulolytic activity (13.96). Molecular characterization of the LG2 isolate based on the 16S rRNA gene showed that it was similar to the Fictibacillus nanhaiensis strain JSM 082006. This result is new information on cellulolytic bacteria and might be used as a future source of cellulolytic enzymes.
Short Communication: New distributional record of Phyllanthus securinegoides Merr. (Phyllanthaceae) and Rinorea niccolifera Fernando (Violaceae) of Homonhon Island, Philippines Roanne Romeroso; DANILO N. TANDANG; IAN A. NAVARRETE
Biodiversitas Journal of Biological Diversity Vol. 22 No. 1 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220160

Abstract

Abstract. Romeroso RB, Tandang DN, Navarrete IA. 2021. Short Communication: New distributional record of Phyllanthus securinegoides Merr. (Phyllanthaceae) and Rinorea niccolifera Fernando (Violaceae) of Homonhon Island, Philippines. Biodiversitas 22: 501-506. Homonhon Island is an ultramafic forest island located on the east coast of Guiuan, Eastern Samar, Philippines. Due to the naturally rich deposit of Ni and Cr ore, the island is affected by mining activities where metallophytes thrive. These metallophytes have the potential to use in mining industries for ecological restoration. However, metallophytes are least documented in the Philippines. Phyllanthus securinegoides Merr. and Rinorea niccolifera Fernando is some of the metallophytes mostly documented in Surigao, Palawan, and Zambales, Philippines, but are not yet recorded in Samar. Moreover, these metallophytes are considered as new distribution records of metallophytes in the Philippines island. These plant resources must be conserved due to their physiological uniqueness. The study provides photographs and other relevant information of the collected species to compare the previous and present collections based on the previous and available literature.
Der p 1 gene sequence polymorphism in house dust mite Dermatophagoides pteronyssinus Aryani Adji; NURDJANNAH J. NIODE; VENTJE V. MEMAH; JIMMY POSANGI; GRETA J. P. WAHONGAN; TRINA E. TALLEI
Biodiversitas Journal of Biological Diversity Vol. 22 No. 1 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220110

Abstract

Abstract. Adji A, Niode NJ, Memah VV, Posangi J, Wahongan GJP, Tallei TE. 2021. Der p 1 gene sequence polymorphism in house dust mite Dermatophagoides pteronyssinus. Biodiversitas 22: 72-78.  Gene polymorphisms in Dermatophagoides pteronyssinus (DP) mite can affect the immune response that plays a role in atopic disease. This study aimed to determine the polymorphisms of Der p 1 gene from DP. House dust containing DP was used as a source of DNA containing the Der p 1 gene. The gene was amplified using specific primers DP Der 1 P 108F and DP Der 1 P 1509R. The amplified fragments were cloned using the Toyobo pTA2 vector and sorted then compared with the Gene Bank database. The result shows that there are 8 polymorphism sites in the Der p 1 gene positioned at 190 (GR), 463 (CT), 645 (AR), 751 (CY, CT), 787 (CG), 827 (TA; TW), and 1084 (CG). In the Der p 1 gene, there are 5 silent mutations and 3 nonsynonymous substitutions, resulting in amino acid polymorphisms as follows: Histidine H146 to Tyrosine Y146, Alanine A220 to Valine V220 and amino acid X220, and Tyrosine T232 to Serine S232. Polymorphisms in these amino acids lead to a polarity change, from polar to polar and non-polar to non-polar. These dynamics in polarity does not change the structure or function of the allergen protein. So that they can be used for vaccine design strategies.
Seagrass-associated fish species’ richness: evidence to support conservation along the south coast of Lombok Island, Indonesia Abdul Syukur; Agil Al Idrus Idrus; Lalu Zulkifli
Biodiversitas Journal of Biological Diversity Vol. 22 No. 2 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220255

Abstract

Abstract. Syukur A, Al-Idrus A, Zulkifli L. 2021. Seagrass-associated fish species’ richness: evidence to support conservation along the South Coast of Lombok Island, Indonesia. Biodiversitas 22: 988-998. The concept of seagrass conservation at a global scale tends to be less appropriate with regard to the environmental conditions at the regional and local scales, and thus, there is a need for scientific studies at the regional and local scales to support conservation measures. This research aimed to describe the importance of seagrass conservation based on the species richness of seagrass-associated fish. Data were collected from seven seagrass locations using surveys and observation. Data on the fish species present were collected with the gear used by small-scale fishermen to catch fish in the seagrass area and the surrounding waters. Data analysis was descriptive; the statistical analyses performed included calculation of the Shannon-Wiener index of diversity (H '), the Simpson evenness index (E), and the Morisita species richness index (D) as well as cluster analysis. All statistical analyses were performed in IBM SPSS Statistics 25. We found 104 fish species belonging to 38 families. Leiognathidae, Apogonidae, Clupeidae, Carangidae, Channidae, Sillaginidae, and Mullidae are families with high abundance, and 16 fish species have an abundance of individuals above the average value (192 individuals) of the total number of individuals (20,352). Meanwhile, 94.37% of the fish families are the target catch of small-scale fishermen (commercial fish). The diversity of fish species associated with seagrass in the study location is evidence of the survival of seagrass provision services at the local scale for fish. Therefore, scientific evidence of the species richness of fish, species yang domina, and its importance for small-scale fisheries at each seagrass bed in the study location can be used as a source of information for increasing and improving seagrass conservation efforts at the local scale.
A comparison of the milk yield and morphometrics of Irtysh type Simmental cows and their Holstein and Simmental crosses in East Kazakhstan AMANZHAN MAKSUTKANOVICH NUSUPOV; ADILKHAN ABUOVICH SAMBETBAEV; BOLATBEK ZHANAHMETOVICH KOZHEBAEV; KULSARA HALIMARDENOVNA NURZHANOVA; OLGA VASILIEVNA GORELIK
Biodiversitas Journal of Biological Diversity Vol. 22 No. 9 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220908

Abstract

Abstract. Nusupov AM, Sambetbaev AA, Kozhebaev BZ, Nurzhanova KH, Gorelik OV. 2021. A comparison of the milk yield and morphometrics of Irtysh type Simmental cows and their Holstein and Simmental crosses in East Kazakhstan. Biodiversitas 22: 3663-3670. Cattle breeding is still a significant part of agriculture manufacture both in milk and beef production. Dairy manufacture needs more and more modifications to increase milk productivity and produce milk with better nutrition properties. The authors present a comparison of the dairy cattle of the Simmental breed (Kazakhstan Irtysh type) and its cross-breeds with red-piebald Holstein and Simmental breeds. All the animals' breeds were studied at the time of the first lactation period in cows at the “Kamyshinskoye” farm, Shemonaikha District, East Kazakhstan region. We studied the milk productivity, exterior parameters, and reproductive indicators for the control animal group (Simmental breed Irtysh type) and the crosses (cross-breeds) of the red-piebald Holstein when collecting the research results and Irtysh type and Simmental and Irtysh type. All data obtained in this study have been fully compared with the indicators of the first lactation period of Simmental cows of the Irtysh type. As a result of the study, authors have created the curve of the 305-day lactation period, studied the exterior of the animals, the morphological structures of the udder, and the annual capacity cycles of the tested cows' group. The milk yield obtained in the first complete lactation period from the red-piebald Holstein cross-animals was 240 kg or 4.2% more than the control mother group, but the average milk fat percentage has been 0.09% less. On the contrary, the cross of the Irtysh and Simmental breed has a yield less by 258 kg or 4.7% (5277 kg), but a fat milk percentage has been 0.1% more.
Phytoplankton biodiversity trends in nanobubble aerated shrimp farming at Probolinggo coast, East Java, Indonesia Noverita Dian Takarina; Suyud Warno Utomo; Lily Susanti; Nurul Taufiqu Rochman; Dedi Cahyadi; Hardi Junaedi; Henry Kasman Hadi Saputra; Rizki Nugraha Saputra
Biodiversitas Journal of Biological Diversity Vol. 21 No. 12 (2020)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d211256

Abstract

Abstract. Takarina ND, Utomo SW, Susanti L, Rochman NT, Cahyadi D, Junaedi H, Saputra HKH, Saputra RN. 2020. Phytoplankton biodiversity trends in nanobubble aerated shrimp farming at Probolinggo coast, East Java, Indonesia. Biodiversitas 21: 5906-5914. Phytoplankton is known as an important factor in shrimp farming and its abundance and biodiversity are varied. Nanobubble aeration is one of current aquaculture treatments used in brackish water shrimp ponds. This study aimed to investigate phytoplankton biodiversity trends in nanobubble and control ponds within 21-day observation period. The measured water quality parameters were dissolved oxygen (DO), NH4+, NO2-, pH, salinity, temperature, and water clarity. Data analysis includes calculation of abundance and biodiversity using Shannon-Wiener (H’) index and correlation using Principal Component Analysis (PCA). A total of 11 phytoplankton species from 5 divisions was recorded. The results show increasing trends in phytoplankton abundance, species, and H’. In pond with nanobubble, H’ increased from 0.322 (95%CI: 0.074-0.718) to 0.561 (95%CI: 0.208-0.916) after 21 days, while in control pond, H’ increased from 0.199 (95%CI: 0.000-0.520) to 0.326 (95%CI: 0.000-0.683). In the nanobubble pond, species showing increasing trend in abundance were Pleurosigma sp., Nitzchia sp., Anabaena sp., Oscillatoria sp., and Microcystis sp. Whereas, species showing a declining abundance trend were Chlorella sp. and Amphora sp. According to PCA, phytoplankton abundance was positively correlated with pH, water clarity, DO, NO2-, and negative correlation with salinity, temperature, and NH4+.
Short Communication: The bioinformatics perspective of Foeniculum vulgare fruit's bioactive compounds as natural anti-hyperglycemic against alpha-glucosidase Fatchur Rohman; WIRA EKA PUTRA
Biodiversitas Journal of Biological Diversity Vol. 22 No. 1 (2021)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d220111

Abstract

Abstract. Rohman F, Putra WE. 2021. Short Communication: The bioinformatics perspective of Foeniculum vulgare fruit's bioactive compounds as natural anti-hyperglycemic against alpha-glucosidase. Biodiversitas 22: 79-84. The management in controlling the blood glucose level is crucially necessary to be promoted. Many reports showed the harmful effect of glucose toxicity, most of them are the cluster of metabolic disorder. Nowadays, natural products are getting much attention on health issues. The uses of medicinal plants for drug materials are dramatically increasing. In our previous study about local medicinal plants identification, we found that Tengger Tribe in Indonesia uses numerous type of species, including Foeniculum vulgare which was widely found and occupied as traditional medicine by Tengger Tribe in the area of Taman Nasional Bromo Tengger Semeru, East Java, Indonesia. According to their local belief, F. vulgare has been used to ameliorate several types of diseases. Thus, in this present study, we aimed to virtually evaluate the bioactive compounds of F. vulgare for anti-hyperglycemic against the alpha-glucosidase. We performed computational prediction of ligands-protein interaction by molecular docking approaches. The 2D structure of ligands and 3D structure of target protein were retrieved via the database. The natural compound's structure was then evaluated by the Lipinski rule of five to indicate whether it can be categorized as drug-like or not. Moreover, according to our simulation, F. vulgare fruit's bioactive compounds including sterol, anethole, and fenchone might have therapeutic effect to reduce the hyperglycemia incidence by inhibiting the alpha-glucosidase activity. Compared to miglitol, an alpha-glucosidase inhibitor, Sterol have the most significant binding affinity against the alpha-glucosidase. Therefore, these findings suggest that sterol, anethole, and fenchone might be potential new candidates for alpha-glucosidase inhibitors.

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