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Efektivitas Larutan Kultur Unsur Hara dengan Penambahan Agar Sebagai Media Evaluasi Padi Dalam Kondisi Toksisitas Besi Turhadi Turhadi; Miftahuddin Miftahuddin; Hamim Hamim; Munif Ghulamahdi
BIOEDUSCIENCE Vol 5 No 1 (2021): BIOEDUSCIENCE
Publisher : Universitas Muhammadiyah Prof. Dr. Hamka

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22236/j.bes/516395

Abstract

Background: Evaluation of the tolerance level of rice to iron (Fe) toxicity stress can be done using a hydroponic system in a nutrient culture solution under a controlled condition. This study aimed to obtain a nutrient culture solution that effective as a medium for evaluating the response of rice under Fe toxicity stress condition. Methods: This experiment was carried out by comparing the effectiveness of three kinds of nutrient culture media, namely Yoshida's Half-Strength solution (HSY), Yoshida's Half-Strength + 0.2% agar solution (HSYA), and Yoshida's Full-Strength + 0.2% agar solution (FSYA) using two rice genotypes, Inpara 5 (sensitive to Fe toxicity) and Mahsuri (tolerant to Fe toxicity). Leaf bronzing level, plant dry weight, and pH of nutrient culture media were observed in this experiment. Results: The results showed that the stress response as represented by the bronzing score in Inpara 5 leaves was known to be higher than that of Mahsuri in the three nutrient culture media. The decrease of root and shoot dry weight in Inpara 5 was higher than that of Mahsuri. In addition, the decrease in the pH of nutrient culture solution media without an agar addition (HSY) occurred faster than the media with the agar addition (HSYA and FSYA). Conclusion: The HSYA and FSYA media exhibited a similar pattern of pH declining but causing significant differences in growth responses between Inpara 5 and Mashuri indicating the HSYA medium is considered more efficient compared to the FSYA medium because it only requires a smaller amount of agar.
Expression of TAD1 (Tillering & Dwarf1) Gene in Hawara Bunar and IR64 Rice Cultivars: Expression of TAD1 (Tillering & Dwarf1) Gene in Hawara Bunar and IR64 Sindiya, Vita; Fendiyanto, Miftahul Huda; Hamim, Hamim; Miftahudin , Miftahudin
Journal of Tropical Life Science Vol. 14 No. 3 (2024): In Press
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.14.03.11

Abstract

Rice cv. Hawara Bunar is a local rice cultivar tolerant to aluminum (Al) and drought stress. However, the cultivar has inferior characteristics, such as a tall habitus and a small number of tillers, making the cultivar agronomically unattractive. Many genes control plant height and tiller number; one is the TAD1 gene. Analysis of gene expression in two contrasting rice cultivars for both characters is a prerequisite for selecting certain genes for gene editing targets. This study aimed to analyze the gene expression of the TAD1 in rice cv. IR64 and Hawara Bunar, and to construct a phylogenetic tree of genes that regulate rice plant height and tiller number. Gene expression analysis was conducted using the qRT-PCR technique, while the phylogenetic tree was constructed based on the Neighbor-Joining method using PAUP4 software. The results showed TAD1 gene expression in the tillering phase of rice cv. Hawara Bunar is higher than the cv. IR64. The gene expression level in both cultivars corresponds to the plant height and tiller number characters in both rice cultivars. Phylogenetic analysis showed that the TAD1 gene clustered with genes that cause the rice to have a tall habitus with few tillers. The results of a transcriptome meta-analysis reinforced the phylogenetic tree, which shows that the TAD1 gene was found in a group of downregulated genes based on the volcano plots. Therefore, the TAD1 gene can be selected as a target gene for editing in rice cv. Hawara Bunar to obtain superior characters.
Expression of TAD1 (Tillering & Dwarf1) Gene in Hawara Bunar and IR64 Rice Cultivars: Expression of TAD1 (Tillering & Dwarf1) Gene in Hawara Bunar and IR64 Sindiya, Vita; Fendiyanto, Miftahul Huda; Hamim, Hamim; Miftahudin , Miftahudin
Journal of Tropical Life Science Vol. 14 No. 3 (2024)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.14.03.11

Abstract

Rice cv. Hawara Bunar is a local rice cultivar tolerant to aluminum (Al) and drought stress. However, the cultivar has inferior characteristics, such as a tall habitus and a small number of tillers, making the cultivar agronomically unattractive. Many genes control plant height and tiller number; one is the TAD1 gene. Analysis of gene expression in two contrasting rice cultivars for both characters is a prerequisite for selecting certain genes for gene editing targets. This study aimed to analyze the gene expression of the TAD1 in rice cv. IR64 and Hawara Bunar, and to construct a phylogenetic tree of genes that regulate rice plant height and tiller number. Gene expression analysis was conducted using the qRT-PCR technique, while the phylogenetic tree was constructed based on the Neighbor-Joining method using PAUP4 software. The results showed TAD1 gene expression in the tillering phase of rice cv. Hawara Bunar is higher than the cv. IR64. The gene expression level in both cultivars corresponds to the plant height and tiller number characters in both rice cultivars. Phylogenetic analysis showed that the TAD1 gene clustered with genes that cause the rice to have a tall habitus with few tillers. The results of a transcriptome meta-analysis reinforced the phylogenetic tree, which shows that the TAD1 gene was found in a group of downregulated genes based on the volcano plots. Therefore, the TAD1 gene can be selected as a target gene for editing in rice cv. Hawara Bunar to obtain superior characters.
Drought Tolerance in Transgenic Potato Cultivar IPB CP1 Expressing MmCuZn-SOD Gene Musawira; Tjahjoleksono, Aris; Hamim, Hamim; Miftahudin, M.
HAYATI Journal of Biosciences Vol. 32 No. 5 (2025): September 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.5.1377-1386

Abstract

Drought stress induces reactive oxygen species (ROS) accumulation, which is harmful to plant cells. Consequently, it inhibits plant growth and decreases yield. The enzyme superoxide dismutase (SOD), which is encoded by the SOD gene, is the first defence enzyme in the cells that detoxify ROS. The study aimed to analyze the tolerance of transgenic potato cultivar IPB CP1 and its yield under drought-stress conditions. The results showed that transgenic plants had superior morphological characteristics, such as plant height, number of leaves, stem diameter, and plant biomass, than non-transgenic plants. However, photosynthetic rate, chlorophyll content, stomatal conductance, and transpiration rate showed similar levels between the transgenic and non-transgenic plants. The transgenic plants expressing the MmCu/Zn-SOD gene showed lower lipid peroxidation levels than the non-transgenic plants, indicating that the gene works well to reduce the cell's ROS level. Transgenic plant clone CP1S6 showed 13 times higher gene expression and tuber yield than non-transgenic plants. These research indicated that the transgenic plants expressing the MmCu/Zn-SOD gene are more tolerant to drought stress than the non-transgenic plants.
Pola dan Intensitas Pigmentasi Serta Fotosintesis pada Tanaman Hias Daun Caladium pada Tingkat Naungan Berbeda: Pigmentation Pattern and Intensity and Photosynthesis of Ornamental Caladium at Different Shading Levels Yanuar, Ai Ika Ayu; Hamim, Hamim; Laelasari; Ratnadewi, Yuliana Maria Diah
Jurnal Sumberdaya Hayati Vol. 11 No. 2 (2025): 2025
Publisher : Departemen Biologi, Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jsdh.11.2.74-82

Abstract

Caladium, a member of the Araceae family, is known for its diverse leaf colors and patterns, referred to as variegation. This study aimed to examine the relationship between pigmentation patterns, variegated areas, and leaf anatomy, chlorophyll content, and photosynthetic rate under different light conditions. Two light treatments were applied, full sun (0% shade, 37,500 lux) and 70% shade (12,000 lux), using direct morning sunlight. Seven distinct types of Caladium were used in the experiment. Photosynthetic rate was measured using a LI-6400 portable photosynthesis system at Photosynthetic Photon Flux Densities (PPFD) of 100, 400, and 800 µmol m-2 s-1. Pigment analysis included quantification of chlorophyll, carotenoids, and anthocyanins, while morphological assessments focused on leaf size, variegated area, and leaf thickness. Plants exposed to higher light intensity developed smaller, thicker leaves with mostly larger proportion of variegated area. Chlorophyll, carotenoid, and anthocyanin contents varied depending on plant type and light treatment. The net photosynthetic rate (Pn) increased with higher PPFD and was greater in unshaded conditions. Among the plant types, V3 and V4 exhibited characteristics typical of shade-adapted species, while V6 showed traits of sun-loving plants. Overall, the study demonstrated that variegated Caladium plants maintain comparable net photosynthetic rates despite differences in pigmentation patterns and variegation intensity.
The expression of OsPLA2-III and OsPPO genes in rice (Oryza sativa L.) under Fe toxicity stress Turhadi, .; Hamim, .; Ghulamahdi, Munif; Miftahudin, .
Journal of Tropical Life Science Vol. 11 No. 2 (2021)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.11.02.10

Abstract

Lipid is an important biomolecule in plant because of their structural and functional roles in plant cells. Moreover, lipid could be a signal molecule in defense system of plants under biotic and abiotic stresses. Detoxification process of toxic substances, which is one of the defense system and controlled by various genes, plays an important role in tolerance mechanism in plant under stress conditions, including iron (Fe) toxicity. Plants develop various tolerance strategies to cope the Fe toxicity. The objective of this research was to investigate the expression of OsPLA2-III and OsPPO genes under Fe stress condition. Two-weeks-old seedlings of two rice varieties, i.e., IR64 (Fe-sensitive toxicity) and Pokkali (Fe-tolerant toxicity) were used. Both varieties were treated with 1 (control) and 400 ppm of Fe in the form of FeSO4.7H2O in the nutrient culture solution. The leaf bronzing, chlorophyll content, and relative expression of OsPLA2-III and OsPPO genes were observed. An in-silico study was also performed to predict the interaction between OsPLA2-III and OsPPO proteins. The results showed that the Fe toxicity induced leaf bronzing, reduced leaf chlorophyll content, and increased the OsPLA2-III and OsPPO gene expression levels. Both genes are suggested to have a role in plant tolerance mechanism during Fe toxicity stress via lipid signaling pathway.
Application of silica solubilizing bacteria increases water efficiency in maize Indah Puspita SARI; Yulin LESTARI; HAMIM HAMIM; Laksmita Prima SANTI
Menara Perkebunan Vol. 90 No. 1 (2022): 90 (1), 2022
Publisher : INDONESIAN OIL PALM RESEARCH INSTITUTE

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22302/iribb.jur.mp.v90i1.493

Abstract

Abstract Global climate change will result in decreased rainfall and increased evaporation. Thus, it is estimated that the frequency and severity of drought stress will get worse. Silica increases plant drought resistance by improving water use efficiency in plants. Despite its abundant availability in soil, most silica sources are not available to plants due to their low solubility. Silica solubilizing bacteria (SSB) have an important role in increasing the available silica. This study aims to observe the silica solubilizing activity of three SSB isolates collections of PPBBI on insoluble silica sources, including magnesium trisilicate, quartz, and feldspar, and see their effects on increasing water use efficiency in corn plants via drought experiments. SSB activity was measured using the modified standard method of 4500-SiO2 D Heteropoly blue. Drought control in the greenhouse follows the Snow and Tingey system. The experimental design used a completely randomized design factorial with irrigation conditions and SSB species as variables. Water use efficiency is measured in real-time with a sap flow meter. The results showed that SSB Pseudomonas fluorescens-B41 had the highest silica dissolving activity 81.93 ppm on Mg-trisilicate. The application of SSB can reduce maize transpiration rate and increase water use efficiency up to 84% under moderate drought stress and 46% under normal irrigation, but in severe drought stress, where the nutrient solution was maintained at 25 cm from plant root, water use efficiency was not significant. This is suspected due to the extreme drought conditions in the potting soil so that the applied SSB cannot maintain its activities.[Keywords: aquaporin, drought stress, Snow and Tingey system, SSB, quartz]AbstrakPerubahan iklim global mengakibatkan penurunan curah hujan dan peningkatan evaporasi, sehingga diperkirakan frekuensi dan tingkat keparahan cekaman kekeringan akan semakin tinggi. Silika (Si) diketahui dapat meningkatkan ketahanan tanaman terhadap kekeringan dengan cara memperbaiki efisiensi penggunaan air pada tanaman. Meskipun ketersediaanya berlimpah di tanah, sebagian besar Si dalam bentuk yang tidak tersedia bagi tanaman, karena sifat kelarutannya yang rendah. Untuk meningkatkan silika tersedia bagi tanaman, bakteri pelarut silika (BPS) memiliki peranan yang penting. Penelitian ini bertujuan menguji aktivitas pelarutan silika dari tiga koleksi isolat BPS Pusat Penelitian Bioteknologi dan Bioindustri Indonesia (PPBBI) pada sumber silika tidak larut berupa magnesium trisilikat, kuarsa, dan feldspar, serta melihat pengaruh aplikasi BPS terhadap efisiensi penggunaan air pada tanaman jagung yang diberi perlakuan cekaman kekeringan. Aktivitas pelarutan silika diukur menggunakan modifikasi metode standar 4500-SiO2 D Heteropoly blue. Pengendalian kekeringan di rumah kaca mengadaptasi sistem Snow dan Tingey. Rancangan percobaan menggunakan rancangan acak lengkap faktorial dengan kondisi kekeringan dan jenis bakteri BPS sebagai peubah bebas. Efisiensi penggunaan air diukur secara real time dengan sap flow meter. Hasil penelitian menunjukkan bahwa BPS dengan kode Pseudomonas fluorescens-B.41 memiliki aktivitas pelarutan silika tertinggi pada susbtrat Mg-trisilika yaitu 81,93 ppm. Aplikasi BPS menurunkan laju transpirasi jagung dan meningkatkan efisiensi penggunaan air hingga 84% pada cekaman kekeringan sedang dan 46% pada irigasi normal, namun pada cekaman kekeringan parah, dimana larutan hara dipertahankan pada jarak 25 cm dari sistem perakaran efisiensi penggunaan air tidak signifikan. Diduga hal ini disebabkan kondisi kekeringan pada media tanam terlalu ekstrim sehingga BPS yang diaplikasi tidak dapat mempertahankan aktivitasnya.[Kata kunci: aquaporin, cekaman kekeringan, sistem Snow dan Tingey, BPS, kuarsa]
The effectiveness of calcium silicate in preventing ice-ice disease and production performance of Kappaphycus alvarezii Wirantari, Ayu Puspa; Nirmala, Kukuh; Supriyono, Eddy; Hamim, Hamim
Jurnal Akuakultur Indonesia Vol. 24 No. 2 (2025): Jurnal Akuakultur Indonesia
Publisher : Indonesian Society of Scientific Aquaculture (ISSA)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19027/jai.24.2.288-298

Abstract

The cultivation of Kappaphycus alvarezii faces serious challenges due to ice-ice disease outbreaks. This disease is caused by fluctuating environmental conditions that induce stress in the seaweed. Ice-ice disease is characterized by thallus whitening, softening, and fragility, which can lead to a reduction in yield and directly impact the economic returns for seaweed farmers. This study aims to evaluate the effectiveness of calcium silicate (CaSiO3) dosing as a mineral source for the prevention of ice-ice disease and the growth of K. alvarezii seaweed. The experimental design used was a completely randomized design with three replications across four treatments: CaSiO3 doses of 0, 1.6, 1.8, and 2 g/L. The study used an initial weight of K. alvarezii of 100 g per tie. The experiment was conducted through a field trial in seawater using an off-bottom cultivation method. The results indicated that the group with the highest dose of CaSiO3 (2 g/L) produced the best ice-ice resistance, with treatment D showing 17.77 ± 5.09% at the population level and 0.25 ± 0.015 at the individual level, which was statistically significant (P<0.05). Optimal CaSiO3 dosing can be a potential cultivation strategy to improve resistance to ice-ice disease and increase the productivity of K. alvarezii. Keywords: ice-ice, Kappaphycus alvarezii, mineral, nutrient enrichment, seaweed ABSTRAK Budidaya rumput laut K. alvarezii menghadapi tantangan serius akibat serangan penyakit ice-ice. Penyakit ini disebabkan karena kondisi lingkungan yang berfluktuatif sehingga menyebabkan rumput laut menjadi stres. Penyakit ice-ice ditandai dengan pemutihan talus, talus menjadi lunak, dan mudah patah. Penyakit ini dapat mengurangi hasil panen yang berdampak langsung pada keuntungan ekonomi bagi pembudidaya rumput laut. Penelitian ini bertujuan untuk mengevaluasi efektivitas pemberian dosis kalsium silikat (CaSiO3) sebagai sumber mineral terhadap pencegahan penyakit ice-ice dan pertumbuhan rumput laut K. alvarezii. Rancangan percobaan yang digunakan adalah rancangan acak lengkap dengan tiga kali ulangan pada empat perlakuan yaitu dosis CaSiO3 0, 1,6, 1,8, dan 2 g/L. Penelitian ini menggunakan berat awal K. alvarezii sebesar 100 g per ikatan. Pengujian dilakukan dengan percobaan lapangan di perairan laut dengan metode lepas dasar. Hasil penelitian menunjukkan bahwa kelompok dengan dosis CaSiO3 tertinggi (2 g/L) secara signifikan (p<0,05) menghasilkan persentase ice-ice terbaik yaitu pada perlakuan D sebesar 17,77 ± 5,09% pada level populasi dan sebesar 0,25 ± 0,01% pada level individu. Pemberian CaSiO3 pada dosis optimal dapat menjadi strategi budidaya yang potensial untuk meningkatkan ketahanan dari penyakit ice-ice dan produktivitas K. alvarezii. Kata kunci: ice-ice, Kappaphycus alvarezii, mineral, pengayaan nutrisi, rumput laut
Pemanfaatan Bakteri Selulolitik dan Xilanolitik yang Potensial untuk Dekomposisi Jerami Padi Nur, Hasrul Satria; Meryandini, Anja; Hamim, .
JOURNAL OF TROPICAL SOILS Vol. 14 No. 1: January 2009
Publisher : UNIVERSITY OF LAMPUNG

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5400/jts.2009.v14i1.71-80

Abstract

There were 3 prospective isolates of cellulolytic bacteria resulted from the total of 31 isolates we found, i.e. C4-4, C5-1, and C11-1.  Four combinations of bacteria including C4-4 + Xilanolytic (A), C5-1 + Xilanolytic (B), C11-1 + Xilanolytic (C), 45I-3 + 234P-16 (D), and control (E, without bacteria) were applied as inoculant of rice straw decomposition.  In the incubation period the pH-H2O value of C4-4 + Xilanolytic (A) and C5-1 + Xilanolytic (B) was relatively stable.  The C/N ratio of all treatments decreased after 3 weeks of incubation.  The C/N ratio value of A, B, C, D and E treatments were 22.48, 23.43, 27.49, 26.82, and 29.53 respectively.  Decomposition rate all of combination treatments were faster than the control.  The content of macro-micro nutrient of A, B, C, and D treatments increased in the end of measurement, while the control didn’t.  The physical characteristic of substrate after incubation was better in A and B treatments that others.  The result indicated that the combination of C4-4 + Xilanolytic (A) and C5-1 + Xilanolytic (B) bacteria were the best combination for decomposition of rice straw. 
Physiological and Biochemical Responses of Bisbul (Diospyros discolor Willd.) Seedlings to Varying Artificial Light at Night (ALAN) Rismona, Nurwani; Hamim, Hamim; Ning Tyas, Kartika; Damayanti, Frisca; Kusumaningtyas Pitaloka, Mutiara; Putri Maulida, Azkia; Triadiati, Triadiati
HAYATI Journal of Biosciences Vol. 33 No. 2 (2026): March 2026
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.33.2.278-287

Abstract

Artificial light at night (ALAN) can significantly affect plant physiology, as many physiological processes are light-dependent. However, studies investigating the specific effects of ALAN on plants remain limited. This study aimed to assess the impact of ALAN on the growth and metabolite composition of bisbul (Diospyros discolor Willd.). The experiment was conducted in Nursery 2 of the Bogor Botanical Gardens over 12 months. A split-plot factorial design was employed with three replications, each consisting of three one-year-old seedlings. The main plots were assigned to light color treatments (control, red, green, and blue), subplots to light intensity levels (control, high, and low), and sub-subplots to illumination durations (0, 1, 6, or 12 hours) applied for 0, 2, or 7 nights/week. ALAN treatments were administered continuously for one year. The results indicated that blue light significantly increased leaf senescence, particularly under BH-6(2), BH-12(2), and BH-12(7) treatments. Conversely, high-intensity red light reduced plant height, shoot dry mass, photosynthetic rate, and chlorophyll content. Metabolite profiling revealed decreased levels of secondary metabolites such as caffeic acid and catechin, while compounds such as nicotinamide, L-proline, linolenic acid, and coumarin increased. These findings suggest that prolonged exposure (6-12 hours) to high-intensity red or blue light can disrupt circadian rhythms and impair physiological functions.
Co-Authors . Miftahudin Alex Hartana Alex Hartana ALEX HARTANA Anja Meryandini Aris Tjahjoleksono Aris Tri Wahyudi Arum Sekar Wulandari BEKTI KURNIAWATI Damayanti, Frisca DAVINA NATHANIA PRASETYA Deden Saprudin Devi Media Siska Diah Permata Rinaldi Diah Ratnadewi Dian Hendrayanti Didy Sopandie Didy Sopandie Dwi Andreas Santosa Eddy Supriyono Evan Vria Andesmora Faisal Fendiyanto, Miftahul Huda Hadisunarso Hadisunarso Hadisunarso Hanifatunisa Heri Ahmad Sukria Hermana, Widya Hirmas Fuady Putra Iman Rusmana Indah Puspita SARI INDRA GUNAWAN Irdika Mansur Kukuh Nirmala Kusumaningtyas Pitaloka, Mutiara Laelasari Laksmita Prima SANTI LULUK SETYANINGSIH Luluk Setyaningsih Luluk Setyaningsih Luluk Setyaningsih Lutfiani Lutfiani Miftahuddin Miftahuddin Miftahuddin Miftahudin , Miftahudin Miftahudin . Miftahudin, M. MUHAMMAD HILMI Muhammad Jusuf Munif Ghulamahdi Musawira Nadya Nurafifah Andriya Nampiah Sukarno Nandang Mulyasantosa Nani Heryani Nina Ratna Djuita Ning Tyas, Kartika NISA RACHMANIA MUBARIK Nugroho, Robertus Nur, Hasrul Satria Nuril Hidayati Nurul Hidayati Nurul Hidayati Putri Maulida, Azkia Putri Nur Azizah Hutagalung Rani Apriani Rani Apriyani Raharja Raudhatunisya, Meuthea Najlaa Ridwan RIDWAN Rismona, Nurwani Sazli Tutur Risyahadi Sigit Tri Wibowo Sindiya, Vita Sri Wilarso Budi Suharsono Suharsono Suharsono SUHARSONO Sukmarayu P. Gedoan Sulistijorini Sulistyaningsih, Yohana C TAUFIKURAHMAN TAUFIKURAHMAN Tri Muji Ermayanti Triadiati Triadiati Turhadi Turhadi UTUT WIDYASTUTI Utut Widyastuti UTUT WIDYASTUTI Wirantari, Ayu Puspa Yadi Setiadi Yanuar, Ai Ika Ayu Yohana C Sulistyaningsih YOHANA C. SULISTYANINGSIH YOHANA C. SULISTYANINGSIH Yohana Caecilia Sulistyaningsih Yuli Siti Fatma YULIN LESTARI