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All Journal AL KAUNIYAH Teknosains: Media Informasi Sains dan Teknologi Pelita Perkebunan Jurnal Penelitian Sains BIOEDUKASI AL-HAYAT: Journal of Biology and Applied Biology Jurnal Sains dan Edukasi Sains Indonesian Journal of Life Sciences InSTEM Jurnal Malikussaleh Mengabdi Life Science and Biotechnology Biosaintifika: Journal of Biology & Biology Education
Su'udi, Mukhamad
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Religion Agriculture, Biological Sciences & Forestry Humanities Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Computer Science & IT Control & Systems Engineering Education Environmental Science Immunology & microbiology Library & Information Science Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Physics Social Sciences Other

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Pemanfaatan Tanaman Produk Rekayasa Genetika di Indonesia Rizqoni, Moh. Ikmal Alfi; Arum, Asyifa Yasmin; Su'udi, Mukhamad
Jurnal Penelitian Sains Vol 26, No 3 (2024)
Publisher : Faculty of Mathtmatics and Natural Sciences

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.56064/jps.v26i3.1031

Abstract

Beberapa produk yang dihasilkan tanaman memiliki nilai penting bagi manusia dalam kehidupan sehari-hari seperti sebagai bahan pangan, pakan, dan industri. Kebutuhan terhadap produk tersebut setiap tahun semakin meningkat seiring bertambahnya populasi penduduk. Hal ini menjadi masalah di Indonesia karena produksi dalam negeri yang rendah sehingga pasokan utama bersumber dari impor. Rendahnya produktivitas ini disebabkan beberapa hal seperti produktivitas benih rendah, serangan hama dan penyakit, dan kondisi lingkungan. Salah satu upaya untuk mengatasi masalah tersebut adalah dikembangkannya tanaman produk hasil rekayasa genetika (tanaman PRG) karena memiliki sifat unggul yang tidak dimiliki varietas lokal non PRG. Beberapa tanaman PRG yang telah dimanfaatkan di Indonesia adalah tebu PRG NXI-4T yang toleran terhadap kekeringan, Padi Bt 11 dan kapas Bt11 yang tahan terhadap serangan hama. Pemanfaatan dari masing-masing tanaman PRG ini memberi dampak positif seperti meningkatkan hasil pertanian hingga 30-40%, tanaman lebih tahan hama sehingga penggunaan pestisida berkurang, dan keuntungan ekonomi yang dihasilkan meningkat. Pemanfaatan tanaman PRG di Indonesia masih terbatas karena karena biayanya yang mahal dan regulasi yang ketat agar bisa dimanfaatkan secara komersial.Keywords: impor; produktivitas; sifat unggul; tanaman PRG
Identifikasi WIN1 (Wax Inducer1) Pada Tanaman Ubi Kayu (Manihot esculenta Crantz.) Su'udi, Mukhamad; Hasanah, Lailiyah Maulidatul; Puspito, Agung Nugroho; Arimurti, Sattya
Al-Hayat: Journal of Biology and Applied Biology Vol. 4 No. 2 (2021)
Publisher : Fakultas Sains dan Teknologi, UIN Walisongo Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21580/ah.v4i2.8558

Abstract

Tanaman pangan di Indonesia sangat beragam termasuk diantaranya padi, jagung dan ubi kayu. Namun lahan pertanian di Indonesia semakin sempit seiring dengan laju pertumbuhan penduduk yang semakin tinggi. Lahan kering (sub optimal) di Indonesia masih banyak yang belum dimanfaatkan, yang sebenarnya bisa dioptimalkan sebagai lahan pertanian. Tanaman pangan yang memiliki tingkat ketahanan lebih tinggi terhadap lahan kering adalah tanaman ubi kayu, sehingga berpotensi untuk ditanam pada lahan kering. Tahap pertama pemuliaan tanaman ubi kayu adalah mengetahui karakterisasi gen pada tanaman tersebut salah satunya yaitu WIN1. Metode pertama yang dilakukan adalah isolasi DNA daun ubi kayu varietas Adira 1 dan Malang 6, kemudian amplifikasi dengan PCR, dan analisis sekuensing. Hasil menunjukkan tanaman ubi kayu Adira 1 memiliki asam amino yang sama dengan kultivar am560-2 yang terdapat pada GenBank, sedangkan pada varietas Malang 6 terdapat satu asam amino yang berbeda. Hal tersebut dapat dipengaruhi oleh adanya mutasi gen pada varietas ubi kayu serta perbedaan kandungan HCN pada ubi kayu pangan varietas Adira 1, dan ubi kayu industri varietas Malang 6.
Herbal Leaf Tea as an Economic and Health Potential of the Suci Village Community, Panti – Jember Dwinianti, Edia; Setyati, Dwi; Rosida, Waki'atil; Mustafidah, Qori'atul; Su'udi, Mukhamad
Jurnal Inovasi Sains dan Teknologi untuk Masyarakat Vol. 3 No. 1 (2025): Mei
Publisher : Faculty of Mathematics and Natural Sciences, University of Jember. Jl. Kalimantan No.37, Krajan Timur, Jemberlor, Kec. Sumbersari, Jember Regency, East Java 68121

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/instem.v3i1.5355

Abstract

The community in Suci Village, Panti Jember has recognized and cultivated family medicinal plants (TOGA) to provide traditional medicine because of its distance from the city center, limited health facilities and pharmacies. The utilization of TOGA is still limited as herbal medicine through liquid herbal medicine which is less practical and has a short shelf life, so it is necessary to carry out mentoring activities in the development of TOGA for herbal tea leaves. This activity aims to empower the community in Suci Village in optimizing the potential and utilization of local biodiversity as an ingredient for leaf herbal tea. The method of activity implementation included lectures, hands-on practice of making herbal tea leaves and discussions. The Biology lecturer team at the University of Jember introduced the local potential, health benefits of herbal tea leaves, and the production process from washing, drying, packaging, to marketing. The results of this activity showed that the socialization of the potential, benefits and production of herbal tea leaves increased community knowledge by 84% in the utilization of local plants for health and economic potential. In addition, interactive discussions generated additional ideas such as the utilization of beluntas leaves and coffee peels as herbal tea ingredients, as both ingredients are available in Suci Village and have not been optimally utilized. Through this activity, it is hoped that the community in Suci village will be able to develop herbal tea through the utilization of local potential that has health benefits and economic potential through environmentally friendly products.
Identification of Heat Shock Protein 90 (HSP90) Gene Family in Cocoa (Theobroma cacao L.) in Silico Study Mustafidah, Qori'atul; Su'udi, Mukhamad; Pancaningtyas, Sulistyani
Pelita Perkebunan (a Coffee and Cocoa Research Journal) Vol. 41 No. 2 (2025)
Publisher : Indonesian Coffee and Cocoa Research Institute

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22302/iccri.jur.pelitaperkebunan.v41i2.656

Abstract

Heat Shock Protein 90 (HSP90) has an important role in regulating heat stress response, plant development control, and defense reactions. The HSP90 gene family has been extensively reported in numerous plant species, but studies on the HSP90 gene in cocoa (Theobroma cacao L.) remain lacking. Continuous global warming and the use of low-grade quality planting materials are the reasons for low cocoa productivity in Indonesia. Based on this, it is necessary to have good adaptability in cocoa as well as the development of new cultivars so that there is no decrease in cocoa productivity. This study aims to identify the HSP90 gene family in cocoa to recognize the HSP90 functioning in cocoa and provide the necessary information to characterize HSP90 at the genome level. Identification of the HSP90 gene family in T. cacao was carried out through analysis of TcHSP90 sequences obtained from various related databases. The results showed that a total of seven TsHSP90 genes are distributed into ten T. cacao chromosomes. Analysis of the TcHSP90 motif showed that HSP90 is conserved in each T. cacao gene. Cis-acting element analysis showed that TcHSP90 has important roles in growth and development as well as abiotic and hormonal stress responses including defense against pathogens. Phylogenetic analysis showed that TcHSP90 has a similar evolutionary distribution to A. thaliana and S. lycopersicum. The results of this study can be used as a scientific foundation and basic knowledge for the development of new T. cacao cultivars that are resistant to biotic and abiotic stresses by selecting suitable candidate genes for T. cacao breeding.
Sosialisasi Tanaman Obat kepada Siswa SDN Menampu 03, Desa Menampu, Kecamatan Gumukmas, Kabupaten Jember Fitri, Edia; Su'udi, Mukhamad; Fuad Bahrul Ulum; Setyati, Dwi; Dwi Indahning Rohmah
Jurnal Malikussaleh Mengabdi Vol. 4 No. 2 (2025): Jurnal Malikussaleh Mengabdi, Oktober 2025
Publisher : LPPM Universitas Malikussaleh

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29103/jmm.v4i02.24376

Abstract

Berkembang pesatnya teknologi dan industrialisasi di Indonesia menyebabkan terjadi pengikisan pengetahuan tradisional terutama pemanfaatan tanaman obat. Pemanfaatan tanaman obat dalam pengobatan tradisional memiliki manfaat yang sangat penting sebagai upaya pengobatan alami dengan meminimalisasi efek samping. Informasi tentang jenis-jenis tanaman obat sangat penting bagi masyarakat maupun para generasi muda, sejak mereka menempuh pendidikan dasar di sekolah. Tujuan dari kegiatan pengabdian ini untuk meningkatkan pengetahuan siswa tentang manfaat tanaman obat dan menumbuhkan rasa memiliki serta melestarikan warisan nenek moyang terkait pengobatan melalui pemanfaatan obat bahan alam. Metode kegiatan pengabdian melalui pemaparan materi tentang jenis tanaman obat dan manfaatnya, kegiatan tanya jawab dan diskusi, praktik menanam tanaman obat di lingkungan sekolah serta kegiatan education games dengan mencocokkan etiket pada pot tanaman obat yang sesuai. Kegiatan ini berhasil meningkatkan pemahaman siswa melalui kegiatan pemaparan materi dan education games. Kegiatan ini diharapkan dapat juga memupuk rasa memiliki dan melestarikan kearifan lokal Indonesia mengenai pemanfaatan tanaman obat sebagai pengobatan tradisional.
The matK Mini-barcode as a Potential Molecular Identification Tool for Medicinal Orchids Su'udi, Mukhamad; Setyati, Dwi; Khoirunnisa, Gita Ayu; Afidah, Yusfi; Ulum, Fuad Bahrul
Life Science and Biotechnology Vol. 1 No. 1 (2023): May
Publisher : Department of Biology, Faculty Mahematics and Natural Sciences, University of Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/lsb.v1i1.39851

Abstract

matK is one of the universal loci which is commonly used as a barcode in the molecular identification of plants. Up to now, the problem of matK as a single locus is the use of the entire gene region as barcodes. The long amplicon size of matK raises several problems in DNA barcoding. The aim of this study is to uncover a small region of the matK gene as a potential mini-barcode region for alternative sites to get more efficient and effective results. In silico studies performed include the collection of matK sequence of medicinal orchid from GenBank, the amplicon size from matK primer sets that are commonly used in the Orchidaceae family, and PCR analysis. Data analysis was done by comparing the results of PCR amplification from several primer sets: matK 390F-1326R, 743F-R2, 712F-1154R and 712F-1216R. The results show that all primer pairs are able to amplify the DNA template isolated from Dendrobium purpureum. However, the shorter DNA band obtained from matK 743F-R2, 712F-1154R and 712F-1216R primers sets were visualized more thick than the longer amplicon band produced from matK primer 390F-1326R. This indicates that short matK sequence for DNA barcoding (mini-barcode) is more efficient in amplifying DNA templates compared to generally applied barcoding using full length sequences.
Propagation of Dendrobium crumenatum Sw. through In Vitro Seed Culture Using Fertilizer-Enriched and Organic Complex Media Su'udi, Mukhamad; Ziyaroh, Putry Lazimatu
Life Science and Biotechnology Vol. 2 No. 2 (2024): November 2024
Publisher : Department of Biology, Faculty Mahematics and Natural Sciences, University of Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/lsb.v2i2.53562

Abstract

Dendrobium crumenatum Sw. is one of the epiphytic orchids with high ecological and economic value. This study aims to examine the effect of media containing organic compounds enriched with fertilizers for in vitro propagation of D. crumenatum seeds. This culture medium contains organic materials such as potatoes, bananas, coconut water, charcoal, sucrose, and foliar fertilizer. This medium was designed to provide macro, micro, and growth hormone nutrients that support explant growth. The research procedure included sterilization of orchid seeds, explant sowing, and growth observation for about two months. The results showed that orchid seeds experienced optimal growth in media with the addition of coconut water and other organic compounds. The formulation of organic-based media with the addition of coconut water and other supporting compounds is effective in supporting the in vitro growth of orchids, providing opportunities for efficient propagation of orchid species. Explant growth reached 1-2 cm at the 68th day after sowing, with a fresh green colour as an indicator of optimal physiological conditions. The even distribution of shoots indicates that the media provides sufficient space and nutrients without competition between explants. In sum, simple tissue culture media produced from a mixture of organic materials proved reliable function and suited for growing D. crumenatum orchid seeds to produce plantlets, and into further extent it would support conservation efforts. Key words: Conservation, organic materials, pigeon orchid, simple media, tissue culture
Phylogenetic Analysis of Manihot sp. Based on matK and rbcL Markers Rosida, Wakiatil; Ulum, Fuad bahrul; Su'udi, Mukhamad
Life Science and Biotechnology Vol. 3 No. 1 (2025): May 2025
Publisher : Department of Biology, Faculty Mahematics and Natural Sciences, University of Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Cassava (Manihot sp.) is a staple crop of major economic and ethnomedicinal importance. Understanding the phylogenetic relationships within the genus Manihot is essential for clarifying its taxonomy and supporting genetic improvement programs. This study aimed to reconstruct the phylogeny of several Manihot species using two chloroplast DNA markers, matK and rbcL. Sequence data were retrieved from the GenBank database, and Ricinus communis was designated as the outgroup. Phylogenetic analyses were performed using the Neighbor-Joining (NJ) and Maximum Likelihood (ML) methods, each with 1,000 bootstrap replications to assess branch support. The resulting trees consistently clustered Manihot esculenta within a well-supported monophyletic group, indicating a close genetic relationship with other congeners. Distinct clades corresponding to genetic similarity were also observed among the analyzed species. These findings enhance current knowledge of Manihot systematics, providing molecular evidence that supports its taxonomic classification. Furthermore, the results contribute valuable insights for cassava breeding and conservation efforts through improved understanding of its evolutionary relationships.
Evaluasi Lokus Potensial matK dan ITS2 Untuk DNA Barcoding Anggrek Bulbophyllum lobbii Lindl. Su'udi, Mukhamad; Ulum, Fuad Bahrul; Ardiyansah, Muhammad; Fitri, Nurfajri Eka
Al-Kauniyah: Jurnal Biologi Vol. 17 No. 2 (2024): AL-KAUNIYAH JURNAL BIOLOGI
Publisher : Department of Biology, Faculty of Science and Technology, Syarif Hidayatullah State Islami

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/kauniyah.v17i2.33897

Abstract

AbstrakBulbophyllum lobbii Lindl. merupakan anggrek dari famili Orchidaceae yang berpotensi sebagai bahan baku obat herbal. Identikasi morfologi anggrek B. lobii memiliki keterbatasan karena kemiripan spesies dengan anggrek lain. Alternatif identifikasi secara molekuler menggunakan sekuen matK dan ITS2 sebagai barcode dalam DNA barcoding diharapkan menjadi salah satu lokus pembeda spesies anggrek B. lobbii secara akurat dan efisien. Penelitian ini bertujuan untuk mengidentifikasi sekuen matK dan ITS2 sebagai penanda molekuler yang efektif untuk anggrek B. lobbii. DNA genom B. lobbii diisolasi dengan metode Cethyl Trimethyl Ammonium Bromide (CTAB) dan amplifikasi DNA dengan PCR. Hasil penelitian menunjukkan sekuen matK dari B. lobbii memiliki tingkat homologi tinggi dengan dua spesies B. lobbii (KY966747.1 dan KY966691.1) dari China dengan nilai Per. Ident sebesar 99,20%, sedangkan sekuen ITS2 memiliki homologi tertinggi dengan nilai Per. Ident sebesar 99,76% pada spesies B. lobbii (MG253848.1) dari Polandia. Hasil analisis menunjukkan sekuen ITS2 dapat mengidentifikasi spesies dari tingkatan subspesies atau diatasnya (ordo atau genus) dan juga meningkatkan resolusi filogenetik yang baik pada hasil BLAST, sedangkan sekuen matK memberikan sedikit kontribusi dalam pengelompokkan hubungan kekerabatan antara spesies B. lobbii dengan spesies pembanding lainnya. Sekuen ITS2 dapat direkomendasikan sebagai penanda molekuler yang paling baik untuk identifikasi sampel anggrek Bulbophyllum, khususnya Bulbophyllum lobbii.AbstractBulbophyllum lobbii Lindl. is an orchid from the Orchidaceae family which has potential as a raw material for herbal medicine. Morphological identification of the B. lobii orchid has limitations due to the species' similarity to other orchids. The alternative molecular identification using matK and ITS2 sequences as barcodes in DNA barcoding is expected to be one of the loci for distinguishing the B. lobbii orchid species accurately and efficiently. This study aims to identify matK and ITS2 sequences as effective molecular markers for the orchid B. lobbii. Bulbophyllum lobbii genomic DNA was isolated using the Cethyl Trimethyl Ammonium Bromide (CTAB) method and DNA amplification by PCR. The results showed that the matK sequence from B. lobbii has a high level of homology with two B. lobbii species (KY966747.1 and KY966691.1) from China with a value of Per. Ident is 99.20%, while the ITS2 sequence has the highest homology with a Per. Ident value of 99.76% with the species B. lobbii (MG253848.1) from Poland. The results of the analysis show that the ITS2 sequence can identify species from the subspecies level or above (ordo or genus) and also improves good phylogenetic resolution in BLAST results, while the matK sequence makes little contribution in grouping the relationship between the B. lobbii species and other comparison species. The ITS2 sequence can be recommended as the best molecular marker for identifying Bulbophyllum orchid samples, especially Bulbophyllum lobbii. 
Diversity of Hoya Species across Three Plantation Landscapes in Jember Regency and the Phytochemical and Antioxidant Potential of Hoya lacunosa Blume Ulum, Fuad bahrul; Hayyinah, Asa Hanifatul; Sulistiyowati, Hari; Ratnasari, Tri; Su'udi, Mukhamad; Dwinianti, Edia Fitri; Setyati, Dwi
Biosaintifika: Journal of Biology & Biology Education Vol. 17 No. 3 (2025): November 2025
Publisher : Universitas Negeri Semarang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v17i3.22001

Abstract

Jember Regency encompasses several plantation areas characterized by diverse ecological conditions, notably the Gumitir, Garahan, and Tancak plantations. Among the flora in these regions, the genus Hoya is notable for its medicinal potential. This study aimed to characterize the diversity of Hoya species, provide detailed morphological documentation, and evaluate the phytochemical and antioxidant properties of a medicinally used species. Field exploration employed a systematic plot-based design consisting of 150 plots (5 × 5 m²) with 3 m spacing. The most vegetatively dominant species, Hoya lacunosa, was subjected to GC–MS phytochemical analysis and DPPH-based antioxidant evaluation. A total of eleven Hoya species were recorded across the three plantation sites. The Gumitir plantation exhibited the highest diversity, containing ten species., i.e. Hoya burtoniae, H. camphorifolia, H. carnosa, H. cinnamomifolia, H. dennisii, H. fuscomarginata, H. lacunosa, H. micrantha, H. purpureofusca, and two unidentified Hoya spp. In contrast, the Garahan plantation supported only H. dennisii and H. fuscomarginata, while H. lacunosa was exclusively found in Tancak indicating a highly localized distribution. GC-MS profiling on H. lacunosa leaves revealed 26 compounds, comprising 16 secondary metabolites (12 phenolics, 2 alkaloids, and 2 terpenes) and 5 primary metabolites. The methanol extract exhibited strong antioxidant activity (IC₅₀ = 50.89 ppm), reflecting its potential as a natural source of bioactive compounds. These findings demonstrate substantial Hoya diversity in Jember Regency and underscore the potential of H. lacunosa as a valuable source of bioactive metabolites for pharmaceutical development.
Co-Authors Afidah, Yusfi Aisiyya Qutlana Munawaroh, Putri Amero, Movhalky Argeswara Delta Cancera Ania Ningsih, Misbahul Ardiyansah, Muhammad Ardiyanti, Kurnia Dwi Arum, Asyifa Yasmin Cahyono, Haris DWI INDAHNING ROHMAH Dwi Setyati Dwinianti, Edia Dwinianti, Edia Fitri Fitri, Edia Fitri, Nurfajri Eka Fuad Bahrul Ulum Gunawan, Gilbert Geraldo Hasanah, Lailiyah Maulidatul Hayyinah, Asa Hanifatul Ikrimah, Sindhi Wahidatul Iqbaliah, Agil Faiqotul Khoirunnisa, Gita Ayu Munawaroh, Putri Aisiyya Qutlana Mustafidah, Qori'atul Mustafidah, Qori’atul Noviyani, Anis Perwitasari, Dian Al Ghifari Puspito, Agung Nugroho Ramadany, Zakiyah Ratnasari, Tri Ravitamala, El Shania Rizqoni, Moh Ikmal Alfi Rizqoni, Moh. Ikmal Alfi Rohmah, Isfina Nurfaidatur Rosida, Waki'atil Rosida, Wakiatil Sattya Arimurti Septianasari, Miatin Alvin Siti Aisyah Siti Rohimah Sulistiyowati, Hari Sulistyani Pancaningtyas Sururin, Fahma Wardah Utami, Diah Ayu Wibowo, Oktavia Putri Wulandari, Wardza Izza Ziyaroh, Putry Lazimatu