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All Journal Jurnal Penelitian Saintek Agrotrop : Journal on Agriculture Science Indonesian Journal of Biotechnology Jurnal Pendidikan Biologi Indonesia Biology, Medicine, & Natural Product Chemistry Bioeksperimen: Jurnal Penelitian Biologi Jurnal Penelitian Pendidikan IPA (JPPIPA) Jurnal Bioedukatika Biosfer: Jurnal Pendidikan Biologi Jurnal Pengabdian Masyarakat MIPA dan Pendidikan MIPA Jurnal Pertanian Agros AL-HAYAT: Journal of Biology and Applied Biology Jurnal Pendidikan Sains Indonesia (Indonesian Journal of Science Education) Agroista: Jurnal Agroteknologi Kingdom (The Journal of Biological Studies) IJOBI
Ixora Sartika Mercuriani
Universitas Negeri Yogyakarta
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Decision Sciences, Operations Research & Management Education Environmental Science Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Physics Public Health

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Desain Primer Untuk Isolasi Gen L-LDH Berdasarkan Genom Streptococcus pluranimalium dan Aplikasinya Rifqi, Daffa Muhammad; Mercuriani, Ixora Sartika
Kingdom: The Journal of Biological Studies Vol 10, No 1 (2024): Kingdom: The Journal of Biological Studies
Publisher : Universitas Negeri Yogyakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21831/kingdom.v10i1.18581

Abstract

Asam laktat diketahui merupakan molekul dengan manfaat positif untuk manusia. Molekul tersebut dapat diproduksi oleh bakteri asam laktat. Produksi asam laktat seringkali terganggu karena beberapa spesies bakteri perlu penyesuaian khusus pada substrat, sehingga salah satu solusinya adalah kloning gen atau over-expression enzim L-LDH pada bakteri kompeten. Salah satu langkah prosedur tersebut adalah isolasi gen. Desain primer dilakukan menggunakan aplikasi Benchling pada subjek genom Streptococcus pluranimalium TH11417 dan seluruh primer diujikan secara in-silico menggunakan aplikasi UGENE dan in-vitro menggunakan metode Polymerase Chain Reaction (PCR). Empat pasang primer dihasilkan dengan rincian LSPai 1178, LSPbi 993, LSPad 765, dan LSPbd 846. Primer berhasil menempel dan menghasilkan amplikon yang sesuai pada uji in-silico menggunakan templat genom S. pluranimalium TH11417, namun hanya LSPai 1178 dan LSPad 765 yang dapat menempel pada templat genom S. pluranimalium 14A0014. Primer tidak dapat menempel pada uji in-vitro dikarenakan kontaminasi isolat bakteri templat DNA. Kontaminasi dikonfirmasi melalui analisis sekuen 16s rRNA dan didapatkan bahwa amplikon 16s rRNA isolat bakteri uji sesuai dengan sekuen 16s rRNA Bacillus cereus. Sekuensing basa amplikon uji in-vitro primer LSPai 1178 menunjukkan bahwa amplikon bukan merupakan bagian dari sekuen target.
Identification and genetic study of lactic acid bacteria from intestine of domestic chickens (Gallus gallus domesticus) Ixora Sartika Mercuriani; Heru Nurcahyo; Bernadetta Octavia; Astuti Astuti; Adinda Yuslia Rukmanandita; Fita Nilasari
Indonesian Journal of Biotechnology Vol 30, No 2 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.85963

Abstract

The gastrointestinal tract is one of the habitats of lactic acid bacteria (LAB). This research aims to identify the LAB isolated from the intestines of domestic chickens (Gallus gallus domesticus) based on phenotypic and genotypic characteristics. The LAB was cultivated on enrichment media MRSA + CaCO3 1% and a selection of isolates based on the halo zone. The phenotypic character identification using morphological, physiological and biochemical tests was analyzed by similarity simple matching (SSM) and a dendrogram (MVSP 3.1). Genotypic identification was made by 16S rRNA gene sequences with PCR methods, sequencing and analysis using BLAST at www.ncbi.nlm.nih.gov. The results show that 87 isolates were isolated based on the halo zone. Phenotypic tests were performed on eight isolates (J6, J15, J18, J28, B11, B24, B25 and B26). The results show that four isolates have similarities with the genus Bacillus, two isolates with the genus Lactobacillus, and two with the genus Streptococcus. The identification based on the 16S rRNA gene of four selected isolates (J15, J28, B24 and B26) showed that J15 was identified as Bacillus cereus (98.56% similarity); J28 as Lactobacillus johnsonii (99.67%); B24 as Bacillus cereus (98.30%), and B26 as Streptococcus pluranimalium (96.68%).
In Silico Approach of DNA Barcoding in Cattleya Orchid using nrDNA and matK Markers Wiharyanti, Risma; Mercuriani, Ixora Sartika; Yulianti, Evy; Kuswandi, Paramita Cahyaningrum
Al-Hayat: Journal of Biology and Applied Biology Vol. 8 No. 1 (2025)
Publisher : Fakultas Sains dan Teknologi, UIN Walisongo Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21580/ah.v8i1.25671

Abstract

The Cattleya genus is one of the most commercially valuable orchids. Identifying these orchids based on morphological and phenotypic traits has been challenging. Accurate identification is crucial for distinguishing between native and hybrid species and determining the protected status of certain Cattleya orchids. This research explored potential markers using nrDNA and matK locus for DNA barcoding of the Cattleya genus through an in silico approach. All sequences were collected from the NCBI and analyzed using ClustalX2 for alignment, BioEdit for conversion, and MEGA11 for phylogenetic tree construction. The results revealed that nrDNA showed higher genetic variation compared to matK. However, neither phylogenetic tree could discriminate species precisely, as some Cattleya species were positioned closer to the outgroup. These findings can be used as a reference to support identification of Cattleya using molecular marker. Keywords: Cattleya, matK, molecular barcode, nrDNA
In Silico Approach of DNA Barcoding in Cattleya Orchid using nrDNA and matK Markers Wiharyanti, Risma; Mercuriani, Ixora Sartika; Yulianti, Evy; Kuswandi, Paramita Cahyaningrum
Al-Hayat: Journal of Biology and Applied Biology Vol. 8 No. 1 (2025)
Publisher : Fakultas Sains dan Teknologi, UIN Walisongo Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21580/ah.v8i1.25671

Abstract

The Cattleya genus is one of the most commercially valuable orchids. Identifying these orchids based on morphological and phenotypic traits has been challenging. Accurate identification is crucial for distinguishing between native and hybrid species and determining the protected status of certain Cattleya orchids. This research explored potential markers using nrDNA and matK locus for DNA barcoding of the Cattleya genus through an in silico approach. All sequences were collected from the NCBI and analyzed using ClustalX2 for alignment, BioEdit for conversion, and MEGA11 for phylogenetic tree construction. The results revealed that nrDNA showed higher genetic variation compared to matK. However, neither phylogenetic tree could discriminate species precisely, as some Cattleya species were positioned closer to the outgroup. These findings can be used as a reference to support identification of Cattleya using molecular marker. Keywords: Cattleya, matK, molecular barcode, nrDNA
MOLECULAR IDENTIFICATION OF A LOCAL LACTIC ACID BACTERIA (LAB) ISOLATE (B21) AND PRIMER CONFIRMATION FOR D-Lactate Dehydrogenase (D-LDH) GENE ISOLATION Madhani, Anisa Tiara; Nurcahyo, Heru; Octavia, Bernadetta; Astuti; Mercuriani, Ixora Sartika
Indonesian Journal of Bioscience (IJOBI) Vol. 1 No. 1 (2023): Indonesian Journal of Bioscience (IJOBI)
Publisher : Universitas Negeri Yogyakarta in collaboration with Perhimpunan Biologi Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21831/ijobi.v1i1.104

Abstract

This study aims to identify a lactic acid bacteria (BAL) isolated from native chicken (Gallus gallus domesticus) intestinum (B21) based on 16S rRNA gene sequence and also to confirm primers for PCR-based D-Lactate dehydrogenase (D-LDH) gene isolation. The genomic DNA of B21 was isolated then amplified using 16S rRNA. The PCR product then sequenced and aligned. The sequencing was done in 1st Base Pte. Malaysia. The sequence then aligned using the Basic Local Alignment Search Tool (BLAST) in NCBI to know the similar genome species. Isolation D-LDH gene was done through PCR using 5 primers (idb 0101, idb 1147, idb 0813, idb 1010, and idb 2021) of B21 and also J15 isolate genome. The PCR product were then sequenced and aligned with the D-LDH gene sequences in NCBI. The results of molecular identification based on 16S rRNA markers showed that B21 has 99.45% similarity to Bacillus proteolyticus. Amplification of the LDH gene with idb 1010 primer on J15 isolate yielded 4 fragments (i.e. 650, 1400, 1500, and 1700bp). The results of phylogenetic tests showed that the 1700bp fragment has a high similarity to the D-LDH gene in Myobacterium tuberculosis species with a bootstrap value of 84%. While other size fragments cannot be trusted to have similarity to LDH sequence because they have not reached the minimum bootstrap value that meets the qualifications.
Inducing An Axillary Bud of Dendrobium Red Emperor ‘Prince’ With An Addition of Bap in Vitro Septasari, Mistri; Mercuriani, Ixora Sartika
Indonesian Journal of Bioscience (IJOBI) Vol. 1 No. 2 (2023): Indonesian Journal of Bioscience (IJOBI)
Publisher : Universitas Negeri Yogyakarta in collaboration with Perhimpunan Biologi Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21831/ijobi.v1i2.216

Abstract

The purpose of this study is to determine the effect of the addition of BAP and the position of nodus on the formation of axillary shoots and to know the optimum concentration of BAP for the induction of Dendrobium Red Emperor 'Prince' axial shoots. The research design used is a Complete Factorial Randomized Design consisting of one treatment, namely: concentration of growing regulatory substances (ZPT) BAP (0ppm, 1 ppm, 2 ppm, and 3 pmm), each treatment repeated 5 times. The explant of the nodus were taken from plants produced by previous in vitro culture having 5 nodi. The basic medium used is New Phalaenopsis (NP) + Coconut Water + 1 ppm 2.4-D). The growth of axillary bud growth is measured based on the time of the bud emergence, growth of crown, and that of root. Data obtained were then analyzed using ANOVA. If there was a significant difference, the analysis was continued with a test of DMRT with a significant level of 5%. The results showed the addition of concentrations of 1 ppm and 2 ppm BAP influenced the time of the bud emergence, growth of crown, and that of root. The optimum concentration of BAP to induce the orchid axillary shoots is 2 ppm.
PENGARUH CAHAYA DAN TEMPERATUR TERHADAP PERTUMBUHAN TUNAS DAN PROFIL PROTEIN TANAMAN ANGGREK Phalaenopsis amabilis TRANSGENIK PEMBAWA GEN Ubipro::PaFT Putra, Rinaldi Rizal; Mercuriani, Ixora Sartika; Semiarti, Endang
Bioeksperimen: Jurnal Penelitian Biologi Vol 2, No 2: September 2016
Publisher : Universitas Muhammadiyah Surakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.23917/bioeksperimen.v2i2.2483

Abstract

Penelitian ini bertujuan untuk mencari kondisi yang tepat dalam percepatan pembungaan tanaman Phalaenopsis amabilis transgenik yang telah disisipi gen penentu waktu pembungaan Ubipro::PaFT. Metode penelitian ini menggunakan tanaman transgenik pembawa gen Ubipro::PaFT umur 18 bulan setelah penanaman. Tanaman ditumbuhkan pada inkubator dengan pencahayaan menggunakan lampu LED putih dan kombinasi LED putih biru, dengan fotoperiodisitas 8 jam terang 16 jam gelap, suhu 25ºC pada fase terang dan 20ºC pada fase gelap selama 20 minggu. Setelah 20 minggu pertumbuhan tanaman, dilakukan analisis profil protein dengan metode SDS-PAGE untuk mengetahui protein yang diproduksi pada setiap fase pertumbuhan yang diamati.Hasil penelitian menunjukkan kombinasi cahaya LED putih dan biru meningkatkan pembentukan daun sebesar 60%, panjang daun 70,58%, tetapi belum diperoleh kemunculan infloresen. Analisis profil protein menunjukkan terbentuknya protein dengan ukuran 108,57; 71,30; 56,16; 40,85; 26,79; 13,27; dan 13,12 kilodalton pada tanaman transgenik, tetapi tidak terdeteksi protein dengan ukuran 19,65 kDa yang sesuai dengan berat molekul protein PaFT, sementara protein dengan ukuran sekitar 56,16 kDa sesuai dengan berat molekul protein POH1(Phalaenopsis Orchid Homeobox1). Hal ini menunjukkan bahwa gen vegetatif POH1 mampu menghambat aktivasi gen PaFT pada tanaman P. amabilis transgenik umur 20 minggu, sehingga tanaman masih dalam fase juvenil dan belum mampu diinduksi untuk berbunga.
Development of an electronic student worksheet using local orchid potential to improve critical thinking and collaboration skills in biotechnology learning Annisa Ul Furqhoni; Ixora Sartika Mercuriani
JURNAL BIOEDUKATIKA Vol. 13 No. 3 (2025)
Publisher : Universitas Ahmad Dahlan

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.26555/bioedukatika.v13i3.31149

Abstract

This study aims to develop an electronic (e)-student worksheet  integrated with the Project-Based Learning (PjBL) model and to enhance the critical thinking and collaboration skills of Grade X high school students in biotechnology learning based on the local potential of the Nglanggeran Ancient Volcano Orchid. Employing a Research and Development (R and D) approach, the research used the ADDIE model consisting of Analysis, Design, Development, Implementation, and Evaluation in the product development process. The e-student worksheet was created digitally using Canva and included multimedia elements to increase student engagement. The study involved a limited trial with 15 students and a field trial with 70 students divided into experimental and control groups. Data collection methods included interviews, questionnaires, and pretest-posttest essay-based assessments. Instrument validation showed all items were valid and reliable, with a Cronbach’s Alpha score of 0.843. The results revealed moderate improvement in students’ critical thinking skills with an N gain of 0.67 and collaboration skills with an N gain of 0.61 in the experimental group. These findings indicate that the experimental group outperformed the control group, validating that the contextualized PjBL approach effectively facilitates deeper cognitive processing and reinforces interpersonal skills compared to conventional methods. Statistical analysis using MANOVA confirmed significant differences between the two groups with Wilks’ Lambda value of 0.006 and p value less than 0.001. Expert and user feedback indicated the product was practical, accessible, and contextually relevant.
Sustainable Environmental Education Through Local Potential Studies In The Gunungkidul Region Of Yogyakarta Miftakhul Khasanah; Ixora Sartika Mercuriani; Suyitno Aloysius
Jurnal Penelitian Pendidikan IPA Vol 11 No 11 (2025): November
Publisher : Postgraduate, University of Mataram

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jppipa.v11i11.12081

Abstract

Environmental education plays a crucial role in shaping the character of students as the next generation, enabling them to be aware and concerned about environmental sustainability. Through environmental education, students are equipped not only with theoretical knowledge but also with practical values and skills to encourage them to become agents of change. This study aims to examine the Gunungkidul region as a source of local potential learning information on the topic of environmental change in science or biology learning materials for students. To support its learning activities, this study also adopts environmental education learning trends that can be used as part of efforts to build sustainable environmental education. This research is a literature review, focusing on articles published between 2020 and 2025 to ensure the data used is current and relevant. The results of the study indicate that the Gunungkidul region has great potential as a source of information for science or biology learning for students. In terms of environmental education learning, there are approaches, models, teaching materials, and learning media that teachers can choose or combine to improve the effectiveness of environmental education learning, especially on the topic of environmental change, with the hope that there will be no more gaps in the student learning process, so that student learning outcomes can be more meaningful and sustainable to support environmental sustainability in the future.
Antidiabetic Molecular Mechanisms of Active Compounds from Several Orchids Evy Yulianti; Ixora Sartika Mercuriani; Lili Sugiyarto; Tzou-Chi Huang
Jurnal Penelitian Pendidikan IPA Vol 9 No 8 (2023): August
Publisher : Postgraduate, University of Mataram

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jppipa.v9i8.3940

Abstract

Hyperglycemia condition that leads to diabetes causes various complications. Various active compounds from plants have been studied for their antidiabetic abilities. One of them is the orchid plant. Besides being used as decoration, orchids contain several active compounds that have been proven to be used in medicine, including diabetes. This article discusses the antidiabetic mechanism of several active compounds obtained from orchids. Publication regarding orchid plant for diabetes were found in databases such as PubMed, Google Scholar, Wiley, Science Direct, Medline, Scopus, and Springer. Keywords used in this study were “orchid”, “diabetes”, “hyperglycemia”, “compound” and “herbal”. Out of the 447 collected articles (published in the period between 2011 and 2022), 416 were excluded due to non-relevant studies. There were 31 eligible studies included in this article. In conclusion, the antidiabetic mechanisms of the orchid extracts were as antioxidant, anti-inflammatory and anti-glycation agents, increasing insulin action, influencing lipid metabolism, and inhibiting α‑amylase and α‑glucosidase activity.  
Co-Authors Adinda Yuslia Rukmanandita Afrizal Haris Agus Slamet Akram Akram Anisa Maulidiya* Annisa Ul Furqhoni Aries Bagus Sasongko Astuti Astuti Astuti Ayu Purnamasari Aziz Purwantoro Bekti Sulistya Utami Bernadetta Octavia Candra, Puspa Mega Desi Indriani Dwi Kurniasari Eli Rohaeti ENDANG SEMIARTI Endang Semiarti Endik Deni Nugroho Evy Yulianti Fita Nilasari Heru Nurcahyo Heru Nurcahyo HESTIN YUSWANTI Isana Supiah Yosephine Louise Khoirunnisa Khoirunnisa Kun Sri Budiasih Lili Sugiarto Lili Sugiyarto Madhani, Anisa Tiara Miftakhul Khasanah Nabila Novitasari Nur Aeni Ariyanti Nur Fitriyana Nurfina Aznam Nurhalis Sidabutar Paramita Cahyaningrum Kuswandi Puspa Mega Candra Putra, Rinaldi Rizal Ratna Dewi Ratnawati Ratnawati Ratnawati Ratnawati Ratnawati Retno Arianingrum Rifqi, Daffa Muhammad Rinaldi Rizal Putra, Rinaldi Rizal Rindang Dwiyani Ririn Budiastuti Risma Wiharyanti Seonghoe Jang Septasari, Mistri Setiawan, Andri Dias Sofiatul Milah Sukarti Moeljopawiro Sukarti Moeljopawiro Suyitno Aloysius Tzou-Chi Huang Vlorensius Vlorensius Wika Rinawati Yuyun Fitriani