scholarly journals Molecular identification of isolates from local microorganisms as potential biofertilizer

2021 ◽  
Vol 18 (2) ◽  
pp. 188
Author(s):  
Abdul Hasyim Sodiq ◽  
Mieke Rochimi Setiawati ◽  
Dwi Andreas Santosa ◽  
Dedi Widayat
Keyword(s):  
16S Rrna ◽  
Bacillus Cereus ◽  
Molecular Identification ◽  
Crop Production ◽  
16S Rrna Analysis ◽  
Beneficial Microbes ◽  
Compatibility Test ◽  
Negative Results ◽  
Microbial Isolates ◽  
Selection Of

<p>Local microorganisms (MOL) are liquid fertilizers commonly used by farmers to help increase crop production. Beneficial microbes in MOL need to characterize their interactions and ability to produce growth drive compounds. The purpose of this research is to identify the superior microbial isolates from MOL made by farmers from Cibodas Lembang Bandung, Indonesia that can produce phytohormones as biofertilizers. The results of the microbial selection of MOL derived from three best microbes are 1A-2 NFB, 4A-1 NFB, and 4B-1 NFB with the ability to produce auxin, i.e., 19.41 ppm, 17.18 ppm, and 10.59 ppm, respectively. The compatibility test between the three isolates showed negative results so that it was possible to apply three microbes as a consortium. The results of a molecular identification with a 16S rRNA analysis indicate strain microbe 1A-2 NFB: <em>Bacillus cereus</em> (99.88% homology), 4A-1 NFB: <em>Bacillus cereus</em> (99.76% homology), and 4B-1 NFB: <em>Lysinibacillus</em> sp. (99.88% homology).</p>

scholarly journals Selection of specific primers based on 16s rRNA gene for Bacillus cereus bacteria

2018 ◽  
pp. 196-201
Author(s):  
N.A. Feoktistova ◽  
◽  
D.A. Vasiliev ◽  
A.V. Mastilenko ◽  
◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Bacillus Cereus ◽  
Rrna Gene ◽  
Specific Primers ◽  
Selection Of

scholarly journals Molecular identification 16S rRNA gene of active proteolytic lactic acid bacteria (LAB) isolated from kelengkeng (Dimocarpus longan) fruit

2019 ◽  
Vol 20 (8) ◽  
Author(s):  
Habibi Hidayat ◽  
WINARTO HARYADI ◽  
SABIRIN MATSJEH ◽  
TRI JOKO RAHARJO
Keyword(s):  
Lactic Acid ◽  
Lactic Acid Bacteria ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Molecular Identification ◽  
Leuconostoc Mesenteroides ◽  
Rrna Gene ◽  
16S Rrna Analysis ◽  
Protease Enzyme ◽  
Dimocarpus Longan

Abstract. Hidayat H, Haryadi W, Matsjeh S, Raharjo TJ. 2019. Molecular identification 16S rRNA gene of active proteolytic lactic acid bacteria (LAB) isolated from kelengkeng (Dimocarpus longan) fruit. Biodiversitas 20: 2222-2228. Various fermentation food involves microorganisms, especially Lactic Acid Bacteria (LAB) which has beneficial properties for fermented food. The present study aims to do identification and characterization of active proteolytic LAB from kelengkeng (Dimocarpus longan), a commonly found fruit in South East Asia. From ten LAB isolates, isolates K7 and K8 appeared as basil shape based on Gram staining and were chosen for further examination. The molecular identification of these selected isolates were investigated from the 16S rRNA analysis using universal primer 27F and 1525R. The K7 and K8 isolates showed resistance ability towards acidic environment (pH 2.0) and were examined for protease enzyme screening resulting 7.5 and 6 to clear zone, which was 17 and 12 mm. The result of the molecular characterization from the two isolates indicated that isolate K7 was identified as Leuconostoc mesenteroides subsp suionicum strain LT-38 while isolate K8 was identified as Leuconostoc mesenteroides strain C305.16.

scholarly journals ISOLASI BAKTERI ENDOFIT SIMBION DARI SPONS Stylissa sp. DAN UJI AKTIVITAS ANTIBAKTERI SERTA IDENTIFIKASI SECARA MOLEKULER MENGGUNAKAN GEN 16S rRNA

PHARMACON ◽  
2021 ◽  
Vol 10 (1) ◽  
pp. 649
Author(s):  
Engjinia Frenny Kandio ◽  
Adithya Yudistira ◽  
John M.R. Runtuwene
Keyword(s):  
Staphylococcus Aureus ◽  
Antibacterial Activity ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Bacillus Cereus ◽  
Bioactive Compounds ◽  
Molecular Identification ◽  
Rrna Gene ◽  
Filter Feeder ◽  
The 16S Rrna Gene

ABSTRACTSponges are porous animals that are filter feeders and they become a habitat for microorganisms to nest in their bodies. The result of the symbiosis between sponges and microorganisms, especially in bacteria is the ability of the sponge to produce bioactive compounds. One of the potentials derived from these bioactive compounds is antibacterial. This study aims to isolate and test the antibacterial activity of the endophytic symbiont bacteria Stylissa sp., as well as to carry out molecular identification using the 16S rRNA gene of symbiont bacteria isolates that show the greatest antibacterial power. Three isolates of endophytic symbiont bacteria were successfully obtained through the purification stage. Each isolate was coded E1, E2, and E3. With the average inhibition zone against Escherichia coli bacteria, E1 (7.26 mm) is in the moderate category, E2 (5.42 mm) is in the moderate category and E3 (0.96 mm) is in the weak category. While the antibacterial power against Staphylococcus aureus bacteria, E1 (10.26 mm) in the moderate category, E2 (2.10 mm) in the moderate category, and E3 (0.17 mm) in the weak category. The endophytic bacteria that have the greatest antibacterial power is in isolate E1 which is based on molecular analysis using the 16S rRNA gene identified as Bacillus cereus bacteria. Keywords: Stylissa sp. Sponge, endophytic symbiont bacteria, antibacterial activity,                                          molecular identification, 16S rRNA Gene   ABSTRAKSpons adalah hewan berpori yang bersifat filter feeder sehingga menjadi habitat bagi mikroorganisme untuk bersarang di dalam tubuhnya. Hasil dari simbiosis antara spons dan mikroorganisme dalam hal ini bakteri yaitu kemampuan spons dalam menghasilkan senyawa bioaktif. Salah satu potensi yang berasal dari senyawa bioaktif tersebut adalah antibakteri. Penelitian ini bertujuan untuk mengisolasi dan melakukan pengujian aktivitas antibakteri dari bakteri simbion endofit spons Stylissa sp., serta melakukan identifikasi secara molekuler menggunakan gen 16S rRNA terhadap isolat bakteri simbion yang menunjukkan daya antibakteri terbesar. Sebanyak 3 isolat bakteri simbion endofit berhasil diperoleh melalui tahap purifikasi. Masing-masing isolat diberi kode E1, E2, dan E3. Dengan rata-rata zona hambat terhadap bakteri Escherchia coli yaitu, E1 (7,26 mm) termasuk kategori sedang, E2 (5,42 mm) termasuk kategori sedang, E3 (0,96 mm) dengan kategori lemah. Sedagkan daya antibakteri terhadap bakteri Staphylococcus aureus yaitu, E1 (10,26 mm) dengan kategori sedang, E2 (2,10 mm) termasuk kategori sedang, dan E3 (0,17 mm) pada kategori lemah. Bakteri endofit yang memiliki daya antibakteri terbesar yaitu isolat E1 yang berdasarkan analisis secara molekuler dengan menggunakan gen 16S rRNA teridentifikasi sebagai Bacillus cereus. Kata kunci: Spons Stylissa sp., bakteri simbion endofit, aktivitas antibakteri, identifikasi molekuler, gen 16S  rRNA.

THE USE OF WEB APPLICATIONS FOR THE SELECTION OF CROP GROWING TECHNOLOGIES

2018 ◽  
Vol 48 (3) ◽  
pp. 84-90 ◽  
Author(s):  
E. A. Lapchenko ◽  
S. P. Isakova ◽  
T. N. Bobrova ◽  
L. A. Kolpakova
Keyword(s):  
Web Application ◽  
Crop Production ◽  
Web Applications ◽  
Weather Forecast ◽  
Technical Institute ◽  
Software Complex ◽  
Agricultural Enterprise ◽  
Weather Situation ◽  
The Web ◽  
Selection Of

It is shown that the application of the Internet technologies is relevant in the selection of crop production technologies and the formation of a rational composition of the machine-and-tractor fl eet taking into account the conditions and production resources of a particular agricultural enterprise. The work gives a short description of the web applications, namely “ExactFarming”, “Agrivi” and “AgCommand” that provide a possibility to select technologies and technical means of soil treatment, and their functions. “ExactFarming” allows to collect and store information about temperature, precipitation and weather forecast in certain areas, keep records of information about crops and make technological maps using expert templates. “Agrivi” allows to store and provide access to weather information in the fi elds with certain crops. It has algorithms to detect and make warnings about risks related to diseases and pests, as well as provides economic calculations of crop profi tability and crop planning. “AgCommand” allows to track the position of machinery and equipment in the fi elds and provides data on the weather situation in order to plan the use of agricultural machinery in the fi elds. The web applications presented hereabove do not show relation between the technologies applied and agro-climatic features of the farm location zone. They do not take into account the phytosanitary conditions in the previous years, or the relief and contour of the fi elds while drawing up technological maps or selecting the machine-and-tractor fl eet. Siberian Physical-Technical Institute of Agrarian Problems of Siberian Federal Scientifi c Center of AgroBioTechnologies of the Russian Academy of Sciences developed a software complex PIKAT for supporting machine agrotechnologies for production of spring wheat grain at an agricultural enterprise, on the basis of which there is a plan to develop a web application that will consider all the main factors limiting the yield of cultivated crops.

scholarly journals The growth response of rice (Oryza sativa L. var. FARO 44) in vitro after inoculation with bacterial isolates from a typical ferruginous ultisol

2021 ◽  
Vol 45 (1) ◽  
Author(s):  
Musa Saheed Ibrahim ◽  
Beckley Ikhajiagbe
Keyword(s):  
16S Rrna ◽  
Bacillus Cereus ◽  
Proteus Mirabilis ◽  
Growth Response ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Rice Seedlings ◽  
Rrna Gene Sequencing

Abstract Background Rice forms a significant portion of food consumed in most household worldwide. Rice production has been hampered by soil factors such as ferruginousity which has limited phosphorus availability; an important mineral component for the growth and yield of rice. The presence of phosphate-solubilizing bacteria (PSB) in soils has been reported to enhance phosphate availability. In view of this, the present study employed three bacteria species (BCAC2, EMBF2 and BCAF1) that were previously isolated and proved P solubilization capacities as inocula to investigate the growth response of rice germinants in an in vitro setup. The bacteria isolates were first identified using 16S rRNA gene sequencing and then applied as inoculum. The inolula were prepared in three concentrations (10, 7.5 and 5.0 ml) following McFarland standard. Viable rice (var. FARO 44) seeds were sown in petri dishes and then inoculated with the three inocula at the different concentrations. The setup was studied for 28 days. Results 16S rRNA gene sequencing identified the isolates as: isolate BCAC2= Bacillus cereus strain GGBSU-1, isolate BCAF1= Proteus mirabilis strain TL14-1 and isolate EMBF2= Klebsiella variicola strain AUH-KAM-9. Significant improvement in rice germination, morphology, physiology and biomass parameters in the bacteria-inoculated setups was observed compared to the control. Germination percentage after 4 days was 100 % in the inoculated rice germinants compared to 65% in the control (NiS). Similarly, inoculation with the test isolates enhanced water-use efficiency by over 40%. The rice seedlings inoculated with Bacillus cereus strain GGBSU-1 (BiS) showed no signs of chlorosis and necrosis throughout the study period as against those inoculated with Proteus mirabilis strain TL14-1 (PiS) and Klebsiella variicola strain AUH-KAM-9 (KiS). Significant increase in chlorophyll-a, chlorophyll-b and alpha amylase was observed in the rice seedlings inoculated with BiS as against the NiS. Conclusion Inoculating rice seeds with Bacillus cereus strain GGBSU-1, Proteus mirabilis strain TL14-1 and Klebsiella variicola strain AUH-KAM-9 in an in vitro media significantly improved growth parameters of the test plant. Bacillus cereus strain GGBSU-1 showed higher efficiency due to a more improved growth properties observed.

scholarly journals Predicting Shifts in Land Suitability for Maize Cultivation Worldwide Due to Climate Change: A Modeling Approach

Land ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 295
Author(s):  
Yuan Gao ◽  
Anyu Zhang ◽  
Yaojie Yue ◽  
Jing’ai Wang ◽  
Peng Su
Keyword(s):  
Climate Change ◽  
Crop Production ◽  
Large Scale ◽  
Land Suitability ◽  
Large Scale Assessment ◽  
Scale Assessment ◽  
Maize Cultivation ◽  
Large Scale Screening ◽  
Selection Of

Suitable land is an important prerequisite for crop cultivation and, given the prospect of climate change, it is essential to assess such suitability to minimize crop production risks and to ensure food security. Although a variety of methods to assess the suitability are available, a comprehensive, objective, and large-scale screening of environmental variables that influence the results—and therefore their accuracy—of these methods has rarely been explored. An approach to the selection of such variables is proposed and the criteria established for large-scale assessment of land, based on big data, for its suitability to maize (Zea mays L.) cultivation as a case study. The predicted suitability matched the past distribution of maize with an overall accuracy of 79% and a Kappa coefficient of 0.72. The land suitability for maize is likely to decrease markedly at low latitudes and even at mid latitudes. The total area suitable for maize globally and in most major maize-producing countries will decrease, the decrease being particularly steep in those regions optimally suited for maize at present. Compared with earlier research, the method proposed in the present paper is simple yet objective, comprehensive, and reliable for large-scale assessment. The findings of the study highlight the necessity of adopting relevant strategies to cope with the adverse impacts of climate change.

Selection for Some Functional Markers for Adaptability of Helianthus argophyllus × Helianthus annuus Derived Population under Abiotic Stress Conditions

Helia ◽  
2018 ◽  
Vol 41 (68) ◽  
pp. 83-108 ◽  
Author(s):  
Muhammad Mubashar Hussain ◽  
Maria Kausar ◽  
Saeed Rauf ◽  
M. Farukh Zafar Khan ◽  
Jakub Paderweski ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Drought Stress ◽  
Cell Membrane ◽  
Crop Production ◽  
Functional Markers ◽  
High Fertility ◽  
Epicuticular Waxes ◽  
Membrane Injury ◽  
Leaf Hairiness ◽  
Selection Of

AbstractAbiotic stresses including drought are major crop production constraints. However, specific functional phenotypic markers induce resistance against these stresses. Therefore, a study was initiated to study the variability, inheritance and selection of epicuticular waxes (EW) and leaf hairiness (LH) along with low cell membrane injuries (CMI) within F2 populations derived by crossing H. annuus×H. argophyllus lines. These traits have been shown to be associated with drought tolerance of Helianthus argophyllus and thus study aims to introgress these traits in Helinathus annuus. The studied parent populations showed contrasting values of the traits. The drought susceptible line CMS-14 and CMS-20 showed lower epicuticular waxes (0.79, 0.69 mg g−1), leaf hairiness (0.75, 1.53) and higher cell membrane injury (40.90, 55.76 %) respectively while drought resistant line Argo 1802 and 1806 showed higher epicuticular waxes (2.28, 3.18), leaf hairiness (3.71, 3.80) and lower cell membrane injury (14.22, 21.54 %) respectively. The F1 hybrids had mean values of the three studied parameters i. e. epicuticular waxes (1.50 mg g−1), cell membrance injury (32.54 %) and leaf hairiness (2.74) in the range of parent lines, but some of F2 individuals extend beyond this range (Parents and F1s). The two-step selections maintained high variability especially of LH for set of F2 individuals (H. annuus CMS-20×H. argophyllus 1806). Simultaneous selection of F2 individuals with high values of LH or EW with low CMI was possible. The selected plants were further studied for narrow leaf, high fertility and silver canopy color. Selected material was promoted as the candidate of inbred line. Plant (F4) having introgressed traits (silver canopy) showed lower yield (19 %) than green leafed plants (53 %) and commercial hybrids under drought stress (63 % and 53 %). The study could help to increase the abiotic stress tolerance, minimize the yield losses under drought stress and increase functional diversity within sunflower.

scholarly journals Soil Denitrifier Community Size Changes with Land Use Change to Perennial Bioenergy Cropping Systems

2016 ◽  
Author(s):  
Karen A. Thompson ◽  
Bill Deen ◽  
Kari E. Dunfield
Keyword(s):  
Land Use ◽  
16S Rrna ◽  
Land Use Change ◽  
Crop Production ◽  
Large Scale ◽  
Perennial Grasses ◽  
N2o Emissions ◽  
Research Station ◽  
N2o Production ◽  
Nirs Gene

Abstract. Dedicated biomass crops are required for future bioenergy production. However, the effects of large-scale land use change (LUC) from traditional annual crops, such as corn-soybean rotations to the perennial grasses (PGs) switchgrass and miscanthus on soil microbial community functioning is largely unknown. Specifically, ecologically significant denitrifying communities, which regulate N2O production and consumption in soils, may respond differently to LUC due to differences in carbon (C) and nitrogen (N) inputs between crop types and management systems. Our objective was to quantify bacterial denitrifying gene abundances as influenced by corn-soybean crop production compared to PG biomass production. A field trial was established in 2008 at the Elora Research Station in Ontario, Canada (n = 30), with miscanthus and switchgrass grown alongside corn-soybean rotations at different N rates (0 and 160 kg N ha-1) and biomass harvest dates within PG plots. Soil was collected on four dates from 2011–2012 and quantitative PCR was used to enumerate the total bacterial community (16S rRNA), and communities of bacterial denitrifiers by targeting nitrite reductase (nirS) and N2O reductase (nosZ) genes. Miscanthus produced significantly larger yields and supported larger nosZ denitrifying communities than corn-soybean rotations regardless of management, indicating large-scale LUC from corn-soybean to miscanthus may be suitable in variable Ontario conditions while potentially mitigating soil N2O emissions. Harvesting switchgrass in the spring decreased yields in N-fertilized plots, but did not affect gene abundances. Standing miscanthus overwinter resulted in higher 16S rRNA and nirS gene copies than in fall-harvested crops. However, the size of the total (16S rRA) and denitrifying communities changed differently over time and in response to LUC, indicating varying controls on these communities.

scholarly journals Escherichia fergusonii identified in preputial swabs from healthy Aceh cattle by phylogenetic 16S rRNA analysis

2018 ◽  
Author(s):  
Balqis, U., ◽  
Hambal, M., ◽  
Admi, M., ◽  
Safika ◽  
Meutia, N., ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Analysis

scholarly journals Optimized Protocol for Cyanobacterial 16S rRNA Analysis in Danube Delta Lakes

2021 ◽  
Author(s):  
Maria Iasmina Moza ◽  
Carmen Postolache
Keyword(s):  
16S Rrna ◽  
Dna Extraction ◽  
Phytoplankton Biomass ◽  
Extraction Method ◽  
Seasonal Difference ◽  
Danube Delta ◽  
16S Rrna Analysis ◽  
Dna Extraction Method ◽  
Optimized Protocol ◽  
Cyanobacterial Biomass

AbstractMolecular biology protocols have been more and more accessible to researchers for ecological investigations, however, these protocols always require optimization steps for the analysis of specific types of samples. The purpose of this study was to optimize a molecular protocol for the analysis of cyanobacterial 16S rRNA in Danube Delta shallows lakes. In this regard, several commercial DNA extraction kits were tested in comparison with potassium ethyl xanthogenate extraction method on different matrices. The obtained DNA was further used for 16S rRNA PCR optimization. Finally, an optimized protocol is proposed for the molecular analysis of cyanobacteria group in freshwater samples. The best DNA extraction method was the potassium xanthogenate extraction from dried cyanobacterial biomass. A dynamic in total genomic eDNA was observed, reflecting the seasonal difference in phytoplankton biomass from the studied lakes. The PCR protocol optimized by us can be successfully applied for the identification of a broad range of cyanobacterial genetic markers.

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